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EEFSEC eukaryotic elongation factor, selenocysteine-tRNA specific [ Homo sapiens (human) ]

Gene ID: 60678, updated on 9-Jun-2024

Summary

Official Symbol
EEFSECprovided by HGNC
Official Full Name
eukaryotic elongation factor, selenocysteine-tRNA specificprovided by HGNC
Primary source
HGNC:HGNC:24614
See related
Ensembl:ENSG00000132394 MIM:607695; AllianceGenome:HGNC:24614
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SELB; EFSEC
Summary
Predicted to enable translation elongation factor activity. Predicted to be involved in selenocysteine incorporation. Predicted to be located in cytoplasm and nucleus. Predicted to be part of ribonucleoprotein complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 3.1), kidney (RPKM 2.8) and 25 other tissues See more
Orthologs
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Genomic context

See EEFSEC in Genome Data Viewer
Location:
3q21.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (128153481..128426223)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (130895120..131167807)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (127872324..128127489)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14700 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14701 Neighboring gene RUVBL1 antisense RNA 1 Neighboring gene RuvB like AAA ATPase 1 Neighboring gene NANOG hESC enhancer GRCh37_chr3:127819055-127819574 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20476 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14702 Neighboring gene Sharpr-MPRA regulatory region 11416 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:127865444-127866013 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20477 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14703 Neighboring gene RNA, U6 small nuclear 823, pseudogene Neighboring gene Sharpr-MPRA regulatory region 8761 Neighboring gene CRISPRi-FlowFISH-validated H1-10 regulatory element 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20478 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20479 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:127945585-127946085 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:127999447-127999964 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:128001517-128002034 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128004261-128004760 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:128005625-128006126 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128035068-128035620 Neighboring gene Sharpr-MPRA regulatory region 3031 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128053445-128054066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128054067-128054686 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:128062271-128062684 Neighboring gene Sharpr-MPRA regulatory regions 13692 and 14760 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128087685-128088185 Neighboring gene Sharpr-MPRA regulatory region 10596 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128107303-128107892 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128107893-128108480 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128118070-128118864 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128118865-128119659 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128120455-128121248 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128126077-128126958 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128128140-128128788 Neighboring gene CRISPRi-validated cis-regulatory element chr3.3676 Neighboring gene CRISPRi-validated cis-regulatory element chr3.3677 Neighboring gene CRISPRi-validated cis-regulatory element chr3.3678 Neighboring gene CRISPRi-validated cis-regulatory element chr3.3679 Neighboring gene CRISPRi-FlowFISH-validated RPN1 regulatory element 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128146331-128146889 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:128150709-128151289 Neighboring gene uncharacterized LOC124909428 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:128151290-128151869 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:128151870-128152450 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128154435-128155122 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20482 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20483 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:128170962-128171462 Neighboring gene uncharacterized LOC124909429

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide association analyses identify variants in developmental genes associated with hypospadias.
EBI GWAS Catalog
Genome-wide association and replication studies identify four variants associated with prostate cancer susceptibility.
EBI GWAS Catalog
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
EBI GWAS Catalog
Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTP binding IEA
Inferred from Electronic Annotation
more info
 
enables GTPase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables ribonucleoprotein complex binding IEA
Inferred from Electronic Annotation
more info
 
enables selenocysteine insertion sequence binding IEA
Inferred from Electronic Annotation
more info
 
enables tRNA binding IEA
Inferred from Electronic Annotation
more info
 
enables translation elongation factor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
Process Evidence Code Pubs
involved_in selenocysteine incorporation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in selenocysteine incorporation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
selenocysteine-specific elongation factor
Names
elongation factor for selenoprotein translation
elongation factor sec
selenocysteine (Sec)-specific eukaryotic elongation factor

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)

  1. NM_021937.5NP_068756.2  selenocysteine-specific elongation factor

    See identical proteins and their annotated locations for NP_068756.2

    Status: VALIDATED

    Source sequence(s)
    AF268872, AL449217, BC007933, DB454660
    Consensus CDS
    CCDS33849.1
    UniProtKB/Swiss-Prot
    P57772, Q96HZ6
    Related
    ENSP00000254730.5, ENST00000254730.11
    Conserved Domains (5) summary
    cd01889
    Location:8209
    SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
    pfam00009
    Location:8213
    GTP_EFTU; Elongation factor Tu GTP binding domain
    cd03696
    Location:224306
    SelB_II; Domain II of elongation factor SelB
    cd04094
    Location:311450
    eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
    cl02916
    Location:505571
    POLO_box; Polo-box domain (PBD), a C-terminal tandemly repeated region of polo-like kinases

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    128153481..128426223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024453695.2XP_024309463.1  selenocysteine-specific elongation factor isoform X3

    Conserved Domains (3) summary
    cd01889
    Location:8209
    SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
    cd03696
    Location:224357
    SelB_II; Domain II of elongation factor SelB
    cd04094
    Location:362501
    eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
  2. XM_024453692.2XP_024309460.1  selenocysteine-specific elongation factor isoform X1

    Conserved Domains (4) summary
    cd01889
    Location:8209
    SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
    cd03696
    Location:224357
    SelB_II; Domain II of elongation factor SelB
    cd04094
    Location:362501
    eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
    cl02916
    Location:556622
    POLO_box; Polo-box domain (PBD), a C-terminal tandemly repeated region of polo-like kinases
  3. XM_024453693.2XP_024309461.1  selenocysteine-specific elongation factor isoform X2

    Conserved Domains (4) summary
    cd01889
    Location:8209
    SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
    cd03696
    Location:224356
    SelB_II; Domain II of elongation factor SelB
    cd04094
    Location:361500
    eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
    cl02916
    Location:555621
    POLO_box; Polo-box domain (PBD), a C-terminal tandemly repeated region of polo-like kinases
  4. XM_047448659.1XP_047304615.1  selenocysteine-specific elongation factor isoform X8

  5. XM_005247696.4XP_005247753.1  selenocysteine-specific elongation factor isoform X6

    Conserved Domains (5) summary
    cd01889
    Location:8210
    SelB_euk; SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome
    pfam00009
    Location:8209
    GTP_EFTU; Elongation factor Tu GTP binding domain
    cd04094
    Location:256395
    eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
    cl02787
    Location:206251
    Translation_Factor_II_like; Domain II of Elongation factor Tu (EF-Tu)-like proteins
    cl02916
    Location:450516
    POLO_box; Polo-box domain (PBD), a C-terminal tandemly repeated region of polo-like kinases
  6. XM_047448660.1XP_047304616.1  selenocysteine-specific elongation factor isoform X9

    UniProtKB/TrEMBL
    C9J8T0
    Related
    ENSP00000417660.1, ENST00000483457.1
  7. XM_047448656.1XP_047304612.1  selenocysteine-specific elongation factor isoform X4

  8. XM_047448657.1XP_047304613.1  selenocysteine-specific elongation factor isoform X5

  9. XM_047448658.1XP_047304614.1  selenocysteine-specific elongation factor isoform X7

  10. XM_024453696.2XP_024309464.1  selenocysteine-specific elongation factor isoform X10

    Conserved Domains (3) summary
    cd04094
    Location:62201
    eSelB_III; Domain III of eukaryotic and archaeal elongation factor SelB
    cl02787
    Location:1357
    Translation_Factor_II_like; Domain II of Elongation factor Tu (EF-Tu)-like proteins
    cl02916
    Location:256322
    POLO_box; Polo-box domain (PBD), a C-terminal tandemly repeated region of polo-like kinases

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_019805490.1 Reference GRCh38.p14 PATCHES

    Range
    22577..295325
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054332377.1XP_054188352.1  selenocysteine-specific elongation factor isoform X3

  2. XM_054332375.1XP_054188350.1  selenocysteine-specific elongation factor isoform X1

  3. XM_054332376.1XP_054188351.1  selenocysteine-specific elongation factor isoform X2

  4. XM_054332383.1XP_054188358.1  selenocysteine-specific elongation factor isoform X8

  5. XM_054332380.1XP_054188355.1  selenocysteine-specific elongation factor isoform X6

  6. XM_054332384.1XP_054188359.1  selenocysteine-specific elongation factor isoform X9

    UniProtKB/TrEMBL
    C9J8T0
  7. XM_054332378.1XP_054188353.1  selenocysteine-specific elongation factor isoform X4

  8. XM_054332379.1XP_054188354.1  selenocysteine-specific elongation factor isoform X5

  9. XM_054332381.1XP_054188356.1  selenocysteine-specific elongation factor isoform X7

  10. XM_054332382.1XP_054188357.1  selenocysteine-specific elongation factor isoform X11

  11. XM_054332385.1XP_054188360.1  selenocysteine-specific elongation factor isoform X10

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    130895120..131167807
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054347433.1XP_054203408.1  selenocysteine-specific elongation factor isoform X3

  2. XM_054347431.1XP_054203406.1  selenocysteine-specific elongation factor isoform X1

  3. XM_054347432.1XP_054203407.1  selenocysteine-specific elongation factor isoform X2

  4. XM_054347440.1XP_054203415.1  selenocysteine-specific elongation factor isoform X8

  5. XM_054347436.1XP_054203411.1  selenocysteine-specific elongation factor isoform X6

  6. XM_054347441.1XP_054203416.1  selenocysteine-specific elongation factor isoform X9

    UniProtKB/TrEMBL
    C9J8T0
  7. XM_054347434.1XP_054203409.1  selenocysteine-specific elongation factor isoform X4

  8. XM_054347435.1XP_054203410.1  selenocysteine-specific elongation factor isoform X5

  9. XM_054347437.1XP_054203412.1  selenocysteine-specific elongation factor isoform X7

  10. XM_054347438.1XP_054203413.1  selenocysteine-specific elongation factor isoform X12

  11. XM_054347439.1XP_054203414.1  selenocysteine-specific elongation factor isoform X13

  12. XM_054347442.1XP_054203417.1  selenocysteine-specific elongation factor isoform X10