Hcls1 hematopoietic cell specific Lyn substrate 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hcls1provided by RGD
Full Name: hematopoietic cell specific Lyn substrate 1provided by RGD
Primary source: RGD:1304754
See related: EnsemblRapid:ENSRNOG00000038881 AllianceGenome:RGD:1304754
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 several functions, including SH3 domain binding activity; actin filament binding activity; and signaling adaptor activity. Predicted to be involved in several processes, including granulocyte colony-stimulating factor signaling pathway; positive regulation of myeloid leukocyte differentiation; and regulation of transcription by RNA polymerase II. Predicted to be located in cytosol and nucleus. Predicted to be part of transcription regulator complex. Predicted to be active in cortical actin cytoskeleton; plasma membrane; and site of polarized growth. Predicted to colocalize with actin filament. Orthologous to human HCLS1 (hematopoietic cell-specific Lyn substrate 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 404.4), Thymus (RPKM 366.4) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q21

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (77322873..77346333, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (63817482..63840943, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (66736966..66759402, complement)

Chromosome 11 - NC_086029.1 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 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 RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables SH3 domain binding	ISO Inferred from Sequence Orthology more info
enables actin filament binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables signaling adaptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in actin filament organization	ISO Inferred from Sequence Orthology more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to cytokine stimulus	ISO Inferred from Sequence Orthology more info
involved_in erythrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in granulocyte colony-stimulating factor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of leukocyte apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in nuclear transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of granulocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of macrophage differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein import into nucleus	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of actin filament polymerization	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of actin filament polymerization	ISO Inferred from Sequence Orthology more info
involved_in response to hormone	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
colocalizes_with actin filament	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cortical actin cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in site of polarized growth	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: hematopoietic lineage cell-specific protein

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_001011898.1 → NP_001011898.1 hematopoietic lineage cell-specific protein

See identical proteins and their annotated locations for NP_001011898.1

Status: PROVISIONAL

Source sequence(s)

BC079081

UniProtKB/TrEMBL

F7F5Q9, Q68FX4

Related

ENSRNOP00000003326.6, ENSRNOT00000003326.7

Conserved Domains (3) summary

PRK00404
Location:263 → 353

tatB; Sec-independent protein translocase subunit TatB

pfam02218
Location:119 → 154

HS1_rep; Repeat in HS1/Cortactin

cl17036
Location:425 → 476

SH3; Src Homology 3 domain superfamily

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_086029.1 Reference GRCr8

Range

77322873..77346333 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039088123.2 → XP_038944051.1 hematopoietic lineage cell-specific protein isoform X1

UniProtKB/TrEMBL

F7F5Q9, Q68FX4

Conserved Domains (3) summary

PRK00404
Location:263 → 353

tatB; Sec-independent protein translocase subunit TatB

pfam02218
Location:119 → 154

HS1_rep; Repeat in HS1/Cortactin

cl17036
Location:425 → 476

SH3; Src Homology 3 domain superfamily