Hells helicase, lymphoid specific [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hellsprovided by RGD
Full Name: helicase, lymphoid specificprovided by RGD
Primary source: RGD:1309820
See related: EnsemblRapid:ENSRNOG00000047692 AllianceGenome:RGD:1309820
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable chromatin binding activity. Predicted to be involved in kidney development; lymphocyte proliferation; and negative regulation of gene expression, epigenetic. Predicted to act upstream of or within several processes, including cellular response to leukemia inhibitory factor; chromosomal DNA methylation maintenance following DNA replication; and negative regulation of intrinsic apoptotic signaling pathway. Predicted to be located in pericentric heterochromatin. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in immunodeficiency-centromeric instability-facial anomalies syndrome 4. Orthologous to human HELLS (helicase, lymphoid specific). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 136.5), Spleen (RPKM 101.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q53

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (246113580..246159230)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (236701704..236748239)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (257901856..257953889)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

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 RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA methylation-dependent constitutive heterochromatin formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA methylation-dependent constitutive heterochromatin formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromosomal DNA methylation maintenance following DNA replication	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in kidney development	ISO Inferred from Sequence Orthology more info
involved_in lymphocyte proliferation	IBA Inferred from Biological aspect of Ancestor more info
involved_in lymphocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression via chromosomal CpG island methylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of gene expression via chromosomal CpG island methylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in pericentric heterochromatin formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in pericentric heterochromatin formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within urogenital system development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in chromosome, centromeric region	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in pericentric heterochromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in pericentric heterochromatin	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: lymphoid-specific helicase

Names: TBC1D12: TBC1 domain family, member 12; lymphocyte-specific helicase-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_001106371.1 → NP_001099841.1 lymphoid-specific helicase

See identical proteins and their annotated locations for NP_001099841.1

Status: PROVISIONAL

Source sequence(s)

CH473953

UniProtKB/TrEMBL

A0A0G2K7M6, A6I194, M0R3Y7, M0R5Q8

Conserved Domains (4) summary

COG0513
Location:562 → 818

SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

cd00046
Location:242 → 384

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

pfam00176
Location:225 → 576

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:597 → 711

Helicase_C; Helicase conserved C-terminal domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

246113580..246159230

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017589048.3 → XP_017444537.1 lymphoid-specific helicase isoform X1

UniProtKB/TrEMBL

A0A0G2K7M6, A6I194, M0R3Y7, M0R5Q8

Related

ENSRNOP00000074269.2, ENSRNOT00000083183.3

Conserved Domains (4) summary

COG0513
Location:562 → 818

SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

cd00046
Location:242 → 384

DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

pfam00176
Location:225 → 576

SNF2_N; SNF2 family N-terminal domain

pfam00271
Location:597 → 711

Helicase_C; Helicase conserved C-terminal domain