Lyar Ly1 antibody reactive [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lyarprovided by RGD
Official Full Name: Ly1 antibody reactiveprovided by RGD
Primary source: RGD:1305352
See related: EnsemblRapid:ENSRNOG00000005374 AllianceGenome:RGD:1305352
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 DNA-binding transcription factor binding activity; identical protein binding activity; and transcription regulator inhibitor activity. Predicted to be involved in several processes, including erythrocyte development; positive regulation of phagocytosis; and regulation of DNA-templated transcription. Predicted to be located in nucleoplasm and photoreceptor outer segment. Predicted to be active in nucleolus. Orthologous to human LYAR (Ly1 antibody reactive). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Testes (RPKM 705.2), Thymus (RPKM 124.0) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14q21

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (76789193..76802973, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (72576878..72590854, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (77308211..77321931, complement)

Chromosome 14 - NC_086032.1 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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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription factor binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transcription regulator inhibitor activity	IEA Inferred from Electronic Annotation more info
enables transcription regulator inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in erythrocyte development	IEA Inferred from Electronic Annotation more info
involved_in erythrocyte development	ISO Inferred from Sequence Orthology more info
involved_in erythrocyte development	ISS Inferred from Sequence or Structural Similarity more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of innate immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of innate immune response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of phagocytosis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of phagocytosis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phagocytosis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase I	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase I	ISO Inferred from Sequence Orthology more info
involved_in rRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in rRNA processing	ISO Inferred from Sequence Orthology more info
involved_in rRNA processing	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in photoreceptor outer segment	IEA Inferred from Electronic Annotation more info
located_in photoreceptor outer segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor outer segment	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: cell growth-regulating nucleolar protein

Names: Ly1 antibody reactive clone; Ly1 antibody reactive homolog

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_001011911.1 → NP_001011911.1 cell growth-regulating nucleolar protein

See identical proteins and their annotated locations for NP_001011911.1

Status: PROVISIONAL

Source sequence(s)

BC079008

UniProtKB/Swiss-Prot

Q6AYK5

UniProtKB/TrEMBL

A0A0G2K5W6, A6IJU1

Related

ENSRNOP00000073585.3, ENSRNOT00000084093.3

Conserved Domains (1) summary

pfam08790
Location:31 → 58

zf-LYAR; LYAR-type C2HC zinc finger

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_086032.1 Reference GRCr8

Range

76789193..76802973 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006251087.3 → XP_006251149.1 cell growth-regulating nucleolar protein isoform X2

See identical proteins and their annotated locations for XP_006251149.1

UniProtKB/Swiss-Prot

Q6AYK5

UniProtKB/TrEMBL

A0A0G2K5W6, A6IJU1

Conserved Domains (1) summary

pfam08790
Location:31 → 58

zf-LYAR; LYAR-type C2HC zinc finger
XM_063272938.1 → XP_063129008.1 cell growth-regulating nucleolar protein isoform X1

UniProtKB/TrEMBL

A0A8L2UI20
XM_063272939.1 → XP_063129009.1 cell growth-regulating nucleolar protein isoform X1

UniProtKB/TrEMBL

A0A8L2UI20

Related

ENSRNOP00000007154.5, ENSRNOT00000007154.7
XM_063272940.1 → XP_063129010.1 cell growth-regulating nucleolar protein isoform X1

UniProtKB/TrEMBL

A0A8L2UI20
XM_063272941.1 → XP_063129011.1 cell growth-regulating nucleolar protein isoform X2

UniProtKB/Swiss-Prot

Q6AYK5

UniProtKB/TrEMBL

A6IJU1