Human Gene ELL2 (ENST00000237853.9_7) from GENCODE V47lift37

JavaScript is disabled in your web browser

You must have JavaScript enabled in your web browser to use the Genome Browser

Description: elongation factor for RNA polymerase II 2 (from RefSeq NM_012081.6)
Gencode Transcript: ENST00000237853.9_7
Gencode Gene: ENSG00000118985.16_10
Transcript (Including UTRs)
Position: hg19 chr5:95,220,802-95,297,555 Size: 76,754 Total Exon Count: 12 Strand: -
Coding Region
Position: hg19 chr5:95,224,575-95,297,425 Size: 72,851 Coding Exon Count: 12

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr5:95,220,802-95,297,555)			mRNA (may differ from genome)		Protein (640 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	Reactome	UniProtKB
Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: ELL2_HUMAN DESCRIPTION: RecName: Full=RNA polymerase II elongation factor ELL2; FUNCTION: Elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by the polymerase at multiple sites along the DNA. SUBUNIT: Interacts with EAF1 and EAF2. SUBCELLULAR LOCATION: Nucleus. SIMILARITY: Belongs to the ELL/occludin family.

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D013749 Tetrachlorodibenzodioxin C006780 bisphenol A D000082 Acetaminophen C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl C028451 3,4,3',4'-tetrachlorobiphenyl D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D016604 Aflatoxin B1 D017638 Asbestos, Crocidolite D002104 Cadmium D002794 Choline more ... click here to view the complete list

Common Gene Haplotype Alleles


	Press "+" in the title bar above to open this section.

RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 50.34 RPKM in Artery - Tibial Total median expression: 764.57 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


	Press "+" in the title bar above to open this section.

mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-56.80	130	-0.437	Picture	PostScript	Text
3' UTR	-930.90	3773	-0.247	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR010844 - Occludin_RNApol2_elong_fac_ELL
IPR019464 - RNA_pol_II_elong_fac_ELL

Pfam Domains:
PF07303 - Occludin homology domain
PF10390 - RNA polymerase II elongation factor ELL

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
144292 - occludin/ELL-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2E5N - NMR MuPIT

ModBase Predicted Comparative 3D Structure on O00472


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005515 protein binding Biological Process: GO:0006351 transcription, DNA-templated GO:0006355 regulation of transcription, DNA-templated GO:0006368 transcription elongation from RNA polymerase II promoter GO:0042795 snRNA transcription from RNA polymerase II promoter Cellular Component: GO:0005634 nucleus GO:0005654 nucleoplasm GO:0008023 transcription elongation factor complex

Descriptions from all associated GenBank mRNAs


	BC028412 - Homo sapiens elongation factor, RNA polymerase II, 2, mRNA (cDNA clone MGC:33555 IMAGE:4822236), complete cds. AK296870 - Homo sapiens cDNA FLJ51233 complete cds, highly similar to RNA polymerase II elongation factor ELL2. AK297956 - Homo sapiens cDNA FLJ60736 complete cds, highly similar to RNA polymerase II elongation factor ELL2. DQ891536 - Synthetic construct clone IMAGE:100004166; FLH177823.01X; RZPDo839E05126D elongation factor, RNA polymerase II, 2 (ELL2) gene, encodes complete protein. DQ894725 - Synthetic construct Homo sapiens clone IMAGE:100009185; FLH177819.01L; RZPDo839E05125D elongation factor, RNA polymerase II, 2 (ELL2) gene, encodes complete protein. AB527661 - Synthetic construct DNA, clone: pF1KB6148, Homo sapiens ELL2 gene for elongation factor, RNA polymerase II, 2, without stop codon, in Flexi system. BC151238 - Homo sapiens cDNA clone IMAGE:8860505, ** WARNING: chimeric clone **. BX538289 - Homo sapiens mRNA; cDNA DKFZp779C185 (from clone DKFZp779C185). JD283202 - Sequence 264226 from Patent EP1572962. JD041017 - Sequence 22041 from Patent EP1572962. JD038173 - Sequence 19197 from Patent EP1572962. JD296764 - Sequence 277788 from Patent EP1572962. JD042949 - Sequence 23973 from Patent EP1572962. JD250360 - Sequence 231384 from Patent EP1572962. JD233306 - Sequence 214330 from Patent EP1572962. JD110145 - Sequence 91169 from Patent EP1572962. JD244213 - Sequence 225237 from Patent EP1572962. AK300310 - Homo sapiens cDNA FLJ52633 complete cds, highly similar to RNA polymerase II elongation factor ELL2. JD206833 - Sequence 187857 from Patent EP1572962. JD521183 - Sequence 502207 from Patent EP1572962. JD338848 - Sequence 319872 from Patent EP1572962. AB209343 - Homo sapiens mRNA for elongation factor, RNA polymerase II, 2 variant protein. JD039977 - Sequence 21001 from Patent EP1572962. JD502910 - Sequence 483934 from Patent EP1572962. JD170391 - Sequence 151415 from Patent EP1572962. JD062670 - Sequence 43694 from Patent EP1572962. JD278986 - Sequence 260010 from Patent EP1572962. JD120925 - Sequence 101949 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein O00472 (Reactome details) participates in the following event(s): R-HSA-6814885 CBCAP complex binds 7-methylguanosine cap of snRNA R-HSA-6807505 RNA polymerase II transcribes snRNA genes R-HSA-73857 RNA Polymerase II Transcription R-HSA-74160 Gene expression (Transcription)

Other Names for This Gene


	Alternate Gene Symbols: B4DNK7, ELL2_HUMAN, ENST00000237853.1, ENST00000237853.2, ENST00000237853.3, ENST00000237853.4, ENST00000237853.5, ENST00000237853.6, ENST00000237853.7, ENST00000237853.8, NM_012081, O00472, uc317edd.1, uc317edd.2 UCSC ID: ENST00000237853.9_7 RefSeq Accession: NM_012081.6 Protein: O00472 (aka ELL2_HUMAN)

Gene Model Information


	Click here for a detailed description of the fields of the table above.

Methods, Credits, and Use Restrictions


	Click here for details on how this gene model was made and data restrictions if any.