ubtfl upstream binding transcription factor, like [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ubtflprovided by ZNC
Official Full Name: upstream binding transcription factor, likeprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-1159
See related: Ensembl:ENSDARG00000038780 AllianceGenome:ZFIN:ZDB-GENE-040426-1159
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: Tcfubf; zgc:63557
Summary: Predicted to enable RNA polymerase I core promoter sequence-specific DNA binding activity and RNA polymerase I general transcription initiation factor activity. Predicted to be involved in positive regulation of transcription by RNA polymerase I and transcription by RNA polymerase I. Predicted to be active in nucleus. Is expressed in adaxial cell; musculature system; and telencephalon. Human ortholog(s) of this gene implicated in childhood-onset neurodegeneration with brain atrophy. Orthologous to human UBTF (upstream binding transcription factor) and UBTFL1 (upstream binding transcription factor like 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 2

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (32357606..32387429, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (32374388..32405027, complement)

Chromosome 2 - NC_007113.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase I core promoter sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase I general transcription initiation factor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in positive regulation of transcription by RNA polymerase I	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription by RNA polymerase I	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: upstream binding transcription factor, like

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)

NM_201003.1 → NP_957297.1 upstream binding transcription factor, like

See identical proteins and their annotated locations for NP_957297.1

Status: PROVISIONAL

Source sequence(s)

BC055140

UniProtKB/TrEMBL

Q7SY36

Related

ENSDARP00000056633.3, ENSDART00000056634.5

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 509

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007113.7 Reference GRCz11 Primary Assembly

Range

32357606..32387429 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_068223456.1 → XP_068079557.1 upstream binding transcription factor, like isoform X18
XM_068223454.1 → XP_068079555.1 upstream binding transcription factor, like isoform X17
XM_068223433.1 → XP_068079534.1 upstream binding transcription factor, like isoform X8
XM_068223429.1 → XP_068079530.1 upstream binding transcription factor, like isoform X7
XM_068223450.1 → XP_068079551.1 upstream binding transcription factor, like isoform X16
XM_068223442.1 → XP_068079543.1 upstream binding transcription factor, like isoform X14
XM_068223439.1 → XP_068079540.1 upstream binding transcription factor, like isoform X12
XM_068223426.1 → XP_068079527.1 upstream binding transcription factor, like isoform X6
XM_005163487.4 → XP_005163544.1 upstream binding transcription factor, like isoform X4

UniProtKB/TrEMBL

A0A8M2BAL3

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:428 → 504

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_005163490.4 → XP_005163547.1 upstream binding transcription factor, like isoform X15

UniProtKB/TrEMBL

A0A8M2BAP6

Related

ENSDARP00000123462.1, ENSDART00000141757.3

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 503

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_068223440.1 → XP_068079541.1 upstream binding transcription factor, like isoform X13
XM_005163488.4 → XP_005163545.1 upstream binding transcription factor, like isoform X5

UniProtKB/TrEMBL

A0A8M2BAY0

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 503

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_068223437.1 → XP_068079538.1 upstream binding transcription factor, like isoform X11
XM_009298612.3 → XP_009296887.1 upstream binding transcription factor, like isoform X2

UniProtKB/TrEMBL

A0A8M3APU0

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 508

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_009298614.3 → XP_009296889.1 upstream binding transcription factor, like isoform X10

UniProtKB/TrEMBL

A0A8M3AQA2

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 509

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_005163489.4 → XP_005163546.1 upstream binding transcription factor, like isoform X9

UniProtKB/TrEMBL

A0A8M2BAL7

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 509

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_009298613.3 → XP_009296888.1 upstream binding transcription factor, like isoform X3

UniProtKB/TrEMBL

A0A8M3B7S2

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 509

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_005163486.4 → XP_005163543.1 upstream binding transcription factor, like isoform X1

UniProtKB/TrEMBL

A0A8M2BAT3, B0S7C3

Conserved Domains (2) summary

cd01390
Location:198 → 263

HMGB-UBF_HMG-box; HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone ...

cl00082
Location:433 → 509

HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
XM_068223401.1 → XP_068079502.1 upstream binding transcription factor, like isoform X1