Human Gene EIF3CL (ENST00000380876.5_7) from GENCODE V47lift37

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Description: eukaryotic translation initiation factor 3 subunit C like, transcript variant 1 (from RefSeq NM_001317857.2)
Gencode Transcript: ENST00000380876.5_7
Gencode Gene: ENSG00000205609.13_8
Transcript (Including UTRs)
Position: hg19 chr16:28,391,036-28,415,162 Size: 24,127 Total Exon Count: 21 Strand: -
Coding Region
Position: hg19 chr16:28,391,119-28,414,939 Size: 23,821 Coding Exon Count: 20

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	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 (chr16:28,391,036-28,415,162)			mRNA (may differ from genome)		Protein (914 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	PubMed	UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: B5ME19_HUMAN DESCRIPTION: SubName: Full=Eukaryotic translation initiation factor 3 subunit C; SIMILARITY: Contains 1 PCI domain. CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

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.
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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 D014635 Valproic Acid C008261 lead acetate

Common Gene Haplotype Alleles


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


	Highest median expression: 11.39 RPKM in Cervix - Endocervix Total median expression: 402.51 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-31.90	85	-0.375	Picture	PostScript	Text
3' UTR	-7.30	83	-0.088	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
IPR008905 - eIF3c_N
IPR000717 - PCI_dom
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF01399 - PCI domain
PF05470 - Eukaryotic translation initiation factor 3 subunit 8 N-terminus

SCOP Domains:
48371 - ARM repeat
46785 - "Winged helix" DNA-binding domain

ModBase Predicted Comparative 3D Structure on B5ME19


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

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0003723 RNA binding GO:0003743 translation initiation factor activity GO:0031369 translation initiation factor binding Biological Process: GO:0006412 translation GO:0006413 translational initiation Cellular Component: GO:0005737 cytoplasm GO:0005852 eukaryotic translation initiation factor 3 complex

Descriptions from all associated GenBank mRNAs


	BC001571 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone MGC:5500 IMAGE:3452953), complete cds. AK292155 - Homo sapiens cDNA FLJ78287 complete cds, highly similar to Homo sapiens eukaryotic translation initiation factor 3, subunit 8,110kDa (EIF3S8), mRNA. AK130531 - Homo sapiens cDNA FLJ27021 fis, clone SLV06146, highly similar to Eukaryotic translation initiation factor 3 subunit 8. AK000739 - Homo sapiens cDNA FLJ20732 fis, clone HEP08682. BC021066 - Homo sapiens cDNA clone IMAGE:3509356, ** WARNING: chimeric clone **. BC071705 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone MGC:87986 IMAGE:5552014), complete cds. AK293264 - Homo sapiens cDNA FLJ54488 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8. AY762099 - Homo sapiens cell migration-inducing protein 17 mRNA, complete cds. BC000533 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone IMAGE:2964655), complete cds. AK055366 - Homo sapiens cDNA FLJ30804 fis, clone FEBRA2001267, highly similar to Eukaryotic translation initiation factor 3 subunit 8. AK299421 - Homo sapiens cDNA FLJ55750 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8. AK303790 - Homo sapiens cDNA FLJ54400 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8. AK304500 - Homo sapiens cDNA FLJ54404 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8. AK301183 - Homo sapiens cDNA FLJ55450 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8. BX648075 - Homo sapiens mRNA; cDNA DKFZp686M21210 (from clone DKFZp686M21210). JD303750 - Sequence 284774 from Patent EP1572962. JD430643 - Sequence 411667 from Patent EP1572962. BC157849 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone MGC:189744 IMAGE:9057068), complete cds. AK301233 - Homo sapiens cDNA FLJ53378 complete cds, highly similar to Eukaryotic translation initiation factor 3 subunit 8. BC157842 - Homo sapiens eukaryotic translation initiation factor 3, subunit C-like, mRNA (cDNA clone MGC:189737 IMAGE:9057061), complete cds. KJ892588 - Synthetic construct Homo sapiens clone ccsbBroadEn_01982 EIF3C gene, encodes complete protein. BT007335 - Homo sapiens eukaryotic translation initiation factor 3, subunit 8, 110kDa mRNA, complete cds. DQ891632 - Synthetic construct clone IMAGE:100004262; FLH178813.01X; RZPDo839H05128D eukaryotic translation initiation factor 3, subunit 8, 110kDa (EIF3S8) gene, encodes complete protein. DQ894822 - Synthetic construct Homo sapiens clone IMAGE:100009282; FLH178809.01L; RZPDo839H05127D eukaryotic translation initiation factor 3, subunit 8, 110kDa (EIF3S8) gene, encodes complete protein. AB527254 - Synthetic construct DNA, clone: pF1KB5403, Homo sapiens EIF3S8 gene for eukaryotic translation initiation factor 3, subunit C, without stop codon, in Flexi system. DQ590323 - Homo sapiens piRNA piR-57435, complete sequence. DQ583273 - Homo sapiens piRNA piR-50385, complete sequence. DQ575985 - Homo sapiens piRNA piR-44097, complete sequence. JD022087 - Sequence 3111 from Patent EP1572962. JD034920 - Sequence 15944 from Patent EP1572962. BC107692 - Homo sapiens eukaryotic translation initiation factor 3, subunit C, mRNA (cDNA clone IMAGE:4296645), partial cds. DQ572068 - Homo sapiens piRNA piR-40180, complete sequence.

Other Names for This Gene


	Alternate Gene Symbols: B5ME19, EIFCL_HUMAN, ENST00000380876.1, ENST00000380876.2, ENST00000380876.3, ENST00000380876.4, NM_001317857, uc318pxd.1, uc318pxd.2 UCSC ID: ENST00000380876.5_7 RefSeq Accession: NM_001317857.2 Protein: B5ME19

Gene Model Information


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Methods, Credits, and Use Restrictions


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