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    SECISBP2 SECIS binding protein 2 [ Homo sapiens (human) ]

    Gene ID: 79048, updated on 14-Nov-2024

    Summary

    Official Symbol
    SECISBP2provided by HGNC
    Official Full Name
    SECIS binding protein 2provided by HGNC
    Primary source
    HGNC:HGNC:30972
    See related
    Ensembl:ENSG00000187742 MIM:607693; AllianceGenome:HGNC:30972
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SBP2; THMA1
    Summary
    The protein encoded by this gene is one of the essential components of the machinery involved in co-translational insertion of selenocysteine (Sec) into selenoproteins. Sec is encoded by the UGA codon, which normally signals translation termination. The recoding of UGA as Sec codon requires a Sec insertion sequence (SECIS) element; present in the 3' untranslated regions of eukaryotic selenoprotein mRNAs. This protein specifically binds to the SECIS element, which is stimulated by a Sec-specific translation elongation factor. Mutations in this gene have been associated with reduction in enzymatic activity of type II iodothyronine deiodinase (a selenoprotein) and abnormal thyroid hormone metabolism. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Aug 2017]
    Expression
    Ubiquitous expression in testis (RPKM 20.1), thyroid (RPKM 9.1) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See SECISBP2 in Genome Data Viewer
    Location:
    9q22.2
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (89318500..89367117)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (101482274..101530894)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (91933415..91974578)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:91896966-91897484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20005 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20006 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28527 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28528 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28529 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20007 Neighboring gene microRNA 3153 Neighboring gene CDC28 protein kinase regulatory subunit 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91978812-91979312 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91979313-91979813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28530 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20008 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28531 Neighboring gene semaphorin 4D Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108523 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108535 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92020317-92021138 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92021139-92021959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28535 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92026366-92026868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92026869-92027370 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:92027622-92028122 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:92028123-92028623 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28536 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28537 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92040313-92041172 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28539 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28540 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28541 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28543 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:92046837-92047618 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92049183-92049964 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92049965-92050746 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92050747-92051528 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92051529-92052310 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92054729-92055306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92057617-92058192 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108605 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92061728-92062338 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92064045-92064893 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20009 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28545 Neighboring gene proliferation-associated 2G4 pseudogene 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92080560-92081256 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92081257-92081952 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:92082322-92083285 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28546 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:92086209-92086710 Neighboring gene ubiquitin-conjugating enzyme E2 variant 1-like

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ45753, DKFZp686C09169

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding EXP
    Inferred from Experiment
    more info
    PubMed 
    enables RNA binding HDA PubMed 
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables ribonucleoprotein complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables selenocysteine insertion sequence binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables selenocysteine insertion sequence binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in RNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in forebrain neuron development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA stabilization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in selenocysteine incorporation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in selenocysteine incorporation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in striatum development IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    part_of ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    selenocysteine insertion sequence-binding protein 2
    Names
    Sec insertion sequence-binding protein 2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_012177.2 RefSeqGene

      Range
      5002..46165
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001282688.2NP_001269617.1  selenocysteine insertion sequence-binding protein 2 isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame acceptor splice site in the 5' coding region compared to variant 1. The encoded isoform (2) is 1 aa shorter than isoform 1.
      Source sequence(s)
      AF380995, AK302852, AL160054, BG572344, BX000356
      UniProtKB/TrEMBL
      B4DZC7
      Conserved Domains (1) summary
      pfam01248
      Location:656756
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    2. NM_001282689.2NP_001269618.1  selenocysteine insertion sequence-binding protein 2 isoform 3

      See identical proteins and their annotated locations for NP_001269618.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame acceptor splice site in the 5' coding region, which results in translation initiation from an alternate start codon compared to variant 1. The encoded isoform (3) is shorter, with a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AK290182, AL929575, BG572344, BP219148
      Consensus CDS
      CCDS65076.1
      UniProtKB/TrEMBL
      B4DR97
      Related
      ENSP00000364959.3, ENST00000339901.8
      Conserved Domains (1) summary
      pfam01248
      Location:584684
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    3. NM_001282690.1NP_001269619.1  selenocysteine insertion sequence-binding protein 2 isoform 4

      See identical proteins and their annotated locations for NP_001269619.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) contains an alternate 5' terminal exon, which results in translation initiation from an in-frame downstream start codon compared to variant 1. The encoded isoform (4) has a shorter N-terminus compared to isoform 1
      Source sequence(s)
      AK299161, AL160054, AL929575, BG572344, BX000356
      Consensus CDS
      CCDS65077.1
      UniProtKB/TrEMBL
      B4DR97
      Related
      ENSP00000436650.2, ENST00000534113.6
      Conserved Domains (1) summary
      pfam01248
      Location:589689
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    4. NM_001354696.2NP_001341625.1  selenocysteine insertion sequence-binding protein 2 isoform 5

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame acceptor splice site in the mid-coding region compared to variant 1. The encoded shorter isoform (5) lacks an internal protein segment compared to isoform 1.
      Source sequence(s)
      BC068466, BC099900, BG572344, BP219148
      UniProtKB/TrEMBL
      Q59H19
      Conserved Domains (1) summary
      pfam01248
      Location:618718
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    5. NM_001354697.2NP_001341626.1  selenocysteine insertion sequence-binding protein 2 isoform 6

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) uses an alternate in-frame acceptor splice site in the mid-coding region compared to variant 1. The encoded shorter isoform (6) lacks an internal protein segment compared to isoform 1.
      Source sequence(s)
      BC068466, BG572344, BP219148, KX533480
      UniProtKB/TrEMBL
      Q59H19
      Conserved Domains (1) summary
      pfam01248
      Location:619719
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    6. NM_001354698.2NP_001341627.1  selenocysteine insertion sequence-binding protein 2 isoform 7

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) uses an alternate in-frame acceptor splice site and lacks an in-frame exon in the mid-coding region compared to variant 1. The encoded shorter isoform (7) lacks two internal protein segments compared to isoform 1.
      Source sequence(s)
      BC099900, BG572344, BP219148, KX533480
      UniProtKB/TrEMBL
      Q59H19
      Conserved Domains (1) summary
      pfam01248
      Location:588688
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    7. NM_001354702.2NP_001341631.1  selenocysteine insertion sequence-binding protein 2 isoform 8

      Status: REVIEWED

      Description
      Transcript Variant: This variant (8) uses an alternate acceptor splice site in the mid-coding region and initiates translation from an alternate start codon compared to variant 1. The encoded isoform (8) is shorter, with a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AI127999, BC068466, BG572344, BP219148
      Conserved Domains (1) summary
      pfam01248
      Location:362462
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    8. NM_024077.5NP_076982.3  selenocysteine insertion sequence-binding protein 2 isoform 1

      See identical proteins and their annotated locations for NP_076982.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript, and encodes the longest isoform (1).
      Source sequence(s)
      BC068466, BG572344, BP219148
      Consensus CDS
      CCDS6683.1
      UniProtKB/Swiss-Prot
      F8W892, Q5HYY1, Q7L1Z0, Q8IYC0, Q96T21, Q9H0A1
      UniProtKB/TrEMBL
      B4DZC7
      Related
      ENSP00000364965.3, ENST00000375807.8
      Conserved Domains (1) summary
      pfam01248
      Location:657757
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      89318500..89367117
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047423856.1XP_047279812.1  selenocysteine insertion sequence-binding protein 2 isoform X5

      UniProtKB/Swiss-Prot
      F8W892, Q5HYY1, Q7L1Z0, Q8IYC0, Q96T21, Q9H0A1
    2. XM_047423857.1XP_047279813.1  selenocysteine insertion sequence-binding protein 2 isoform X5

      UniProtKB/Swiss-Prot
      F8W892, Q5HYY1, Q7L1Z0, Q8IYC0, Q96T21, Q9H0A1
    3. XM_047423859.1XP_047279815.1  selenocysteine insertion sequence-binding protein 2 isoform X8

    4. XM_017015122.3XP_016870611.1  selenocysteine insertion sequence-binding protein 2 isoform X7

      UniProtKB/TrEMBL
      B4DZC7
    5. XM_024447666.2XP_024303434.1  selenocysteine insertion sequence-binding protein 2 isoform X9

      UniProtKB/TrEMBL
      A0A1S5UZH3, Q59H19
      Conserved Domains (1) summary
      pfam01248
      Location:589689
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    6. XM_047423854.1XP_047279810.1  selenocysteine insertion sequence-binding protein 2 isoform X1

    7. XM_011519000.3XP_011517302.1  selenocysteine insertion sequence-binding protein 2 isoform X1

      See identical proteins and their annotated locations for XP_011517302.1

      UniProtKB/TrEMBL
      B4DR97
      Conserved Domains (1) summary
      pfam01248
      Location:589689
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    8. XM_047423855.1XP_047279811.1  selenocysteine insertion sequence-binding protein 2 isoform X3

    9. XM_011519001.2XP_011517303.1  selenocysteine insertion sequence-binding protein 2 isoform X2

      UniProtKB/TrEMBL
      B4DR97
      Conserved Domains (1) summary
      pfam01248
      Location:559659
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    10. XM_011519002.2XP_011517304.1  selenocysteine insertion sequence-binding protein 2 isoform X3

      UniProtKB/TrEMBL
      B4DR97
      Conserved Domains (1) summary
      pfam01248
      Location:551651
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    11. XM_047423858.1XP_047279814.1  selenocysteine insertion sequence-binding protein 2 isoform X6

    12. XM_011519003.2XP_011517305.1  selenocysteine insertion sequence-binding protein 2 isoform X4

      UniProtKB/TrEMBL
      B4DR97
      Conserved Domains (1) summary
      pfam01248
      Location:550650
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    13. XM_047423860.1XP_047279816.1  selenocysteine insertion sequence-binding protein 2 isoform X10

    14. XM_024447667.2XP_024303435.1  selenocysteine insertion sequence-binding protein 2 isoform X11

      UniProtKB/TrEMBL
      B4DR97
      Conserved Domains (1) summary
      pfam01248
      Location:545645
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
    15. XM_047423861.1XP_047279817.1  selenocysteine insertion sequence-binding protein 2 isoform X12

    16. XM_047423862.1XP_047279818.1  selenocysteine insertion sequence-binding protein 2 isoform X13

    17. XM_047423863.1XP_047279819.1  selenocysteine insertion sequence-binding protein 2 isoform X14

      UniProtKB/TrEMBL
      Q9H948

    RNA

    1. XR_007061351.1 RNA Sequence

    2. XR_007061350.1 RNA Sequence

    3. XR_007061352.1 RNA Sequence

    4. XR_007061353.1 RNA Sequence

    5. XR_007061354.1 RNA Sequence

    6. XR_007061347.1 RNA Sequence

    7. XR_929840.2 RNA Sequence

    8. XR_007061346.1 RNA Sequence

    9. XR_007061345.1 RNA Sequence

    10. XR_007061348.1 RNA Sequence

    11. XR_007061349.1 RNA Sequence

    12. XR_007061355.1 RNA Sequence

    13. XR_007061356.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      101482274..101530894
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054363775.1XP_054219750.1  selenocysteine insertion sequence-binding protein 2 isoform X5

      UniProtKB/Swiss-Prot
      F8W892, Q5HYY1, Q7L1Z0, Q8IYC0, Q96T21, Q9H0A1
    2. XM_054363776.1XP_054219751.1  selenocysteine insertion sequence-binding protein 2 isoform X5

      UniProtKB/Swiss-Prot
      F8W892, Q5HYY1, Q7L1Z0, Q8IYC0, Q96T21, Q9H0A1
    3. XM_054363779.1XP_054219754.1  selenocysteine insertion sequence-binding protein 2 isoform X8

    4. XM_054363778.1XP_054219753.1  selenocysteine insertion sequence-binding protein 2 isoform X7

    5. XM_054363780.1XP_054219755.1  selenocysteine insertion sequence-binding protein 2 isoform X9

      UniProtKB/TrEMBL
      A0A1S5UZH3
    6. XM_054363770.1XP_054219745.1  selenocysteine insertion sequence-binding protein 2 isoform X1

    7. XM_054363769.1XP_054219744.1  selenocysteine insertion sequence-binding protein 2 isoform X1

    8. XM_054363773.1XP_054219748.1  selenocysteine insertion sequence-binding protein 2 isoform X3

    9. XM_054363771.1XP_054219746.1  selenocysteine insertion sequence-binding protein 2 isoform X2

    10. XM_054363772.1XP_054219747.1  selenocysteine insertion sequence-binding protein 2 isoform X3

    11. XM_054363777.1XP_054219752.1  selenocysteine insertion sequence-binding protein 2 isoform X6

    12. XM_054363774.1XP_054219749.1  selenocysteine insertion sequence-binding protein 2 isoform X4

    13. XM_054363781.1XP_054219756.1  selenocysteine insertion sequence-binding protein 2 isoform X10

    14. XM_054363782.1XP_054219757.1  selenocysteine insertion sequence-binding protein 2 isoform X11

    15. XM_054363783.1XP_054219758.1  selenocysteine insertion sequence-binding protein 2 isoform X12

    16. XM_054363784.1XP_054219759.1  selenocysteine insertion sequence-binding protein 2 isoform X13

    17. XM_054363785.1XP_054219760.1  selenocysteine insertion sequence-binding protein 2 isoform X14

      UniProtKB/TrEMBL
      Q9H948

    RNA

    1. XR_008488072.1 RNA Sequence

    2. XR_008488071.1 RNA Sequence

    3. XR_008488073.1 RNA Sequence

    4. XR_008488074.1 RNA Sequence

    5. XR_008488075.1 RNA Sequence

    6. XR_008488068.1 RNA Sequence

    7. XR_008488065.1 RNA Sequence

    8. XR_008488067.1 RNA Sequence

    9. XR_008488066.1 RNA Sequence

    10. XR_008488069.1 RNA Sequence

    11. XR_008488070.1 RNA Sequence

    12. XR_008488076.1 RNA Sequence

    13. XR_008488077.1 RNA Sequence