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    SLFNL1 schlafen like 1 [ Homo sapiens (human) ]

    Gene ID: 200172, updated on 28-Oct-2024

    Summary

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    Official Symbol
    SLFNL1provided by HGNC
    Official Full Name
    schlafen like 1provided by HGNC
    Primary source
    HGNC:HGNC:26313
    See related
    Ensembl:ENSG00000171790 AllianceGenome:HGNC:26313
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Predicted to enable ATP binding activity. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in testis (RPKM 12.5) and lung (RPKM 0.6) See more
    Orthologs
    mouse all
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    Genomic context

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    See SLFNL1 in Genome Data Viewer
    Location:
    1p34.2
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (41015597..41021725, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (40884961..40891602, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (41481269..41487397, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:41410503-41411002 Neighboring gene UBE2V1 pseudogene 8 Neighboring gene Sharpr-MPRA regulatory region 12776 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 738 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 739 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 740 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 858 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 859 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:41472557-41473756 Neighboring gene CTP synthase 1 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_8011 Neighboring gene SLFNL1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:41492537-41493455 Neighboring gene MPRA-validated peak193 silencer Neighboring gene Scm polycomb group protein homolog 1 Neighboring gene ribosomal protein L23a pseudogene 17 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:41622311-41622500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 860 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 741 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 742 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 743 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:41715456-41715624 Neighboring gene SCMH1 divergent transcript Neighboring gene ribosomal protein L36a pseudogene 9

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues 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

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    Related articles in PubMed

    1. High-throughput analyses of hnRNP H1 dissects its multi-functional aspect. Uren PJ, et al. RNA Biol, 2016. PMID 26760575, Free PMC Article
    2. The DNA sequence and biological annotation of human chromosome 1. Gregory SG, et al. Nature, 2006 May 18. PMID 16710414
    3. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. Oláh J, et al. J Biol Chem, 2011 Sep 30. PMID 21832049, Free PMC Article
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
    5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ23878, MGC43873

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    schlafen-like protein 1
    Names
    testicular tissue protein Li 173

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_001168247.3 → NP_001161719.1  schlafen-like protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001161719.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses two alternate splice sites in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AK292296, AL391730, BC022037
      Consensus CDS
      CCDS460.1
      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Related
      ENSP00000398938.2, ENST00000439569.2
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    2. NM_001300859.2 → NP_001287788.1  schlafen-like protein 1 isoform 2

      See identical proteins and their annotated locations for NP_001287788.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site in the 5' UTR and an alternate splice site in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AK097609, BC022037
      Consensus CDS
      CCDS72766.1
      UniProtKB/TrEMBL
      A0A8I5KYI0
      Related
      ENSP00000361694.1, ENST00000372611.5
      Conserved Domains (1) summary
      pfam04326
      Location:162 → 294
      AlbA_2; Putative DNA-binding domain

    3. NM_001377532.1 → NP_001364461.1  schlafen-like protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL391730
      Consensus CDS
      CCDS460.1
      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Related
      ENSP00000352299.1, ENST00000359345.5

    4. NM_001394331.1 → NP_001381260.1  schlafen-like protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL391730
      Consensus CDS
      CCDS90925.1
      UniProtKB/TrEMBL
      A0A8I5KYI0
      Related
      ENSP00000361696.2, ENST00000372613.6
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 305
      AlbA_2; Putative DNA-binding domain

    5. NM_144990.4 → NP_659427.3  schlafen-like protein 1 isoform 1

      See identical proteins and their annotated locations for NP_659427.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1). Variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AL391730, BC022037, DB046748
      Consensus CDS
      CCDS460.1
      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Related
      ENSP00000304401.8, ENST00000302946.13
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      41015597..41021725 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011540952.3 → XP_011539254.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539254.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    2. XM_005270598.2 → XP_005270655.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_005270655.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    3. XM_005270599.3 → XP_005270656.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_005270656.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    4. XM_047448773.1 → XP_047304729.1  schlafen-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6

    5. XM_011540951.2 → XP_011539253.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539253.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Related
      ENSP00000509946.1, ENST00000693284.1
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    6. XM_011540947.1 → XP_011539249.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539249.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    7. XM_011540949.3 → XP_011539251.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539251.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    8. XM_011540945.3 → XP_011539247.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539247.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    9. XM_011540948.3 → XP_011539250.1  schlafen-like protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011539250.1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6, A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:221 → 353
      AlbA_2; Putative DNA-binding domain

    10. XM_047448766.1 → XP_047304722.1  schlafen-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6

    11. XM_047448765.1 → XP_047304721.1  schlafen-like protein 1 isoform X1

      UniProtKB/Swiss-Prot
      A8K8D1, Q499Z3, Q49AG8, Q5VW72, Q5VW74, Q8N7V7, Q8TCH6, Q8WVZ8
      UniProtKB/TrEMBL
      A0A140VJU6

    12. XM_024453869.2 → XP_024309637.1  schlafen-like protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5KYI0
      Conserved Domains (1) summary
      pfam04326
      Location:161 → 293
      AlbA_2; Putative DNA-binding domain

    13. XM_047448778.1 → XP_047304734.1  schlafen-like protein 1 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      40884961..40891602 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054334974.1 → XP_054190949.1  schlafen-like protein 1 isoform X1

    2. XM_054334969.1 → XP_054190944.1  schlafen-like protein 1 isoform X1

    3. XM_054334971.1 → XP_054190946.1  schlafen-like protein 1 isoform X1

    4. XM_054334975.1 → XP_054190950.1  schlafen-like protein 1 isoform X1

    5. XM_054334972.1 → XP_054190947.1  schlafen-like protein 1 isoform X1

    6. XM_054334970.1 → XP_054190945.1  schlafen-like protein 1 isoform X1

    7. XM_054334973.1 → XP_054190948.1  schlafen-like protein 1 isoform X1

    8. XM_054334968.1 → XP_054190943.1  schlafen-like protein 1 isoform X1

    9. XM_054334977.1 → XP_054190952.1  schlafen-like protein 1 isoform X3

    10. XM_054334976.1 → XP_054190951.1  schlafen-like protein 1 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q499Z3.2 GenPept UniProtKB/Swiss-Prot:Q499Z3

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