Ell3 elongation factor for RNA polymerase II 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ell3provided by RGD
Official Full Name: elongation factor for RNA polymerase II 3provided by RGD
Primary source: RGD:1309917
See related: EnsemblRapid:ENSRNOG00000022868 AllianceGenome:RGD:1309917
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including positive regulation of transcription elongation by RNA polymerase II; regulation of epithelial to mesenchymal transition; and transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator; positive regulation of cell population proliferation; and positive regulation of neurogenesis. Predicted to be located in several cellular components, including chromosome; cytosol; and nuclear lumen. Predicted to be part of transcription elongation factor complex. Orthologous to human ELL3 (elongation factor for RNA polymerase II 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 134.7), Spleen (RPKM 96.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q35

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (128866755..128870896, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (108413035..108417181, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (113400395..113405869, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Submit: New GeneRIF Correction

General gene information

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Markers

UniSTS:234508 (e-PCR)
- UniSTS:234508

RH129491 (e-PCR)
- UniSTS:212795

RH139958 (e-PCR)
- UniSTS:222040

RH131986 (e-PCR)
- UniSTS:215269

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables cis-regulatory region sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription elongation	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator	IEA Inferred from Electronic Annotation more info
involved_in neural precursor cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription, elongation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription, elongation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neural precursor cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of neurogenesis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of stem cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription elongation by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of epithelial to mesenchymal transition	IEA Inferred from Electronic Annotation more info
involved_in regulation of epithelial to mesenchymal transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in snRNA transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in snRNA transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in snRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in snRNA transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in stem cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in stem cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in stem cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in transcription elongation by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in transcription elongation by RNA polymerase II	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome	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 nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of transcription elongation factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription elongation factor complex	IEA Inferred from Electronic Annotation more info
part_of transcription elongation factor complex	ISO Inferred from Sequence Orthology more info
part_of transcription elongation factor complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: RNA polymerase II elongation factor ELL3

Names: elongation factor RNA polymerase II-like 3

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_001011957.1 → NP_001011957.1 RNA polymerase II elongation factor ELL3 isoform 1

See identical proteins and their annotated locations for NP_001011957.1

Status: PROVISIONAL

Source sequence(s)

BC084693

UniProtKB/Swiss-Prot

Q5XFX8

UniProtKB/TrEMBL

A0A8L2UKQ8

Related

ENSRNOP00000102332.1, ENSRNOT00000133076.1

Conserved Domains (1) summary

pfam07303
Location:284 → 381

Occludin_ELL; Occludin homology domain
NM_001430077.1 → NP_001417006.1 RNA polymerase II elongation factor ELL3 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6A363, A0A8L2UKQ8

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_086021.1 Reference GRCr8

Range

128866755..128870896 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006234831.5 → XP_006234893.1 RNA polymerase II elongation factor ELL3 isoform X1

Related

ENSRNOP00000101184.1, ENSRNOT00000140394.1

Conserved Domains (1) summary

pfam07303
Location:284 → 387

Occludin_ELL; Occludin homology domain
XM_006234832.5 → XP_006234894.1 RNA polymerase II elongation factor ELL3 isoform X2

UniProtKB/TrEMBL

A0A8L2UKQ8

Conserved Domains (1) summary

pfam07303
Location:248 → 351

Occludin_ELL; Occludin homology domain