Eif2d (eukaryotic translation initiation factor 2D) - Rat Genome Database

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Gene: Eif2d (eukaryotic translation initiation factor 2D) Rattus norvegicus
Analyze
Symbol: Eif2d
Name: eukaryotic translation initiation factor 2D
RGD ID: 1561765
Description: Predicted to enable translation initiation factor activity. Predicted to be involved in IRES-dependent viral translational initiation; formation of translation preinitiation complex; and ribosome disassembly. Predicted to be located in cytosol and nuclear body. Predicted to be part of cytosolic small ribosomal subunit. Orthologous to human EIF2D (eukaryotic translation initiation factor 2D); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LGTN; ligatin; LOC498225; similar to ligatin
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Eif2d-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
NCBI Annotation Information: Note: The name of this locus was changed from ligatin to eukaryotic translation initiation factor 2D based on the gene characterization of the human ortholog reported in PMID:20566627. [18 Aug 2011]
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21342,615,901 - 42,637,107 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1342,615,911 - 42,639,719 (+)Ensembl
Rnor_6.01347,935,138 - 47,958,459 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1347,935,163 - 47,954,090 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01353,011,077 - 53,033,762 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41344,099,725 - 44,118,652 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1342,961,793 - 42,980,721 (+)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO,ISS)
cytosol  (ISO)
cytosolic small ribosomal subunit  (IEA,ISO)
nuclear body  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:20566627   PMID:20713520  


Genomics

Comparative Map Data
Eif2d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21342,615,901 - 42,637,107 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1342,615,911 - 42,639,719 (+)Ensembl
Rnor_6.01347,935,138 - 47,958,459 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1347,935,163 - 47,954,090 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01353,011,077 - 53,033,762 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41344,099,725 - 44,118,652 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1342,961,793 - 42,980,721 (+)NCBICelera
Cytogenetic Map13q13NCBI
EIF2D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381206,569,146 - 206,612,465 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1206,571,292 - 206,612,465 (-)EnsemblGRCh38hg38GRCh38
GRCh371206,764,974 - 206,785,818 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361204,831,597 - 204,852,527 (-)NCBINCBI36hg18NCBI36
Build 341203,153,371 - 203,174,299NCBI
Celera1180,016,423 - 180,037,351 (-)NCBI
Cytogenetic Map1q32.1NCBI
HuRef1177,463,289 - 177,484,217 (-)NCBIHuRef
CHM1_11208,037,181 - 208,058,090 (-)NCBICHM1_1
T2T-CHM13v2.01205,855,817 - 205,876,640 (-)NCBI
Eif2d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391131,080,903 - 131,115,396 (+)NCBIGRCm39mm39
GRCm39 Ensembl1131,080,918 - 131,115,395 (+)Ensembl
GRCm381131,153,172 - 131,187,659 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1131,153,181 - 131,187,658 (+)EnsemblGRCm38mm10GRCm38
MGSCv371133,049,784 - 133,070,048 (+)NCBIGRCm37mm9NCBIm37
MGSCv361132,980,782 - 132,999,780 (+)NCBImm8
Celera1133,775,887 - 133,795,744 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map156.9NCBI
Eif2d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540642,163,632 - 42,181,337 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540642,163,508 - 42,181,482 (-)NCBIChiLan1.0ChiLan1.0
EIF2D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11186,473,496 - 186,494,371 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1186,473,496 - 186,494,896 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01182,193,709 - 182,214,981 (-)NCBIMhudiblu_PPA_v0panPan3
EIF2D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1382,851,972 - 2,871,574 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl382,851,978 - 2,871,518 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha382,944,091 - 2,963,655 (-)NCBI
ROS_Cfam_1.0382,849,269 - 2,868,948 (-)NCBI
ROS_Cfam_1.0 Ensembl382,846,143 - 2,868,902 (-)Ensembl
UMICH_Zoey_3.1382,842,501 - 2,862,019 (-)NCBI
UNSW_CanFamBas_1.0383,235,478 - 3,255,053 (-)NCBI
UU_Cfam_GSD_1.0383,436,042 - 3,455,816 (-)NCBI
Eif2d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934468,725,272 - 68,745,708 (+)NCBI
SpeTri2.0NW_0049365575,965,496 - 5,985,993 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EIF2D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl967,240,588 - 67,261,223 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1967,240,586 - 67,261,250 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2973,593,837 - 73,614,045 (-)NCBISscrofa10.2Sscrofa10.2susScr3
EIF2D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12522,752,852 - 22,773,566 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2522,752,926 - 22,773,568 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605523,451,194 - 23,471,916 (+)NCBIVero_WHO_p1.0
Eif2d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248074,818,585 - 4,836,280 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248074,818,652 - 4,834,898 (+)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
2303032Bp328Blood pressure QTL 328arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134118402245417941Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:24
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000006768
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 38 11 8
Low 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006768   ⟹   ENSRNOP00000006768
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1342,615,911 - 42,634,854 (+)Ensembl
Rnor_6.0 Ensembl1347,935,163 - 47,954,090 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111867   ⟹   ENSRNOP00000079849
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1342,615,911 - 42,639,589 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114517   ⟹   ENSRNOP00000094285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1342,615,911 - 42,633,304 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117695   ⟹   ENSRNOP00000086963
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1342,615,911 - 42,639,719 (+)Ensembl
RefSeq Acc Id: NM_001017489   ⟹   NP_001017489
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21342,615,920 - 42,634,849 (+)NCBI
Rnor_6.01347,935,163 - 47,954,090 (+)NCBI
Rnor_5.01353,011,077 - 53,033,762 (+)NCBI
RGSC_v3.41344,099,725 - 44,118,652 (+)RGD
Celera1342,961,793 - 42,980,721 (+)RGD
Sequence:
RefSeq Acc Id: XM_006249790   ⟹   XP_006249852
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21342,615,901 - 42,637,107 (+)NCBI
Rnor_6.01347,935,138 - 47,958,459 (+)NCBI
Rnor_5.01353,011,077 - 53,033,762 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090962   ⟹   XP_038946890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21342,620,127 - 42,634,854 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001017489 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249852 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946890 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH87701 (Get FASTA)   NCBI Sequence Viewer  
  EDM09832 (Get FASTA)   NCBI Sequence Viewer  
  Q5PPG7 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001017489   ⟸   NM_001017489
- UniProtKB: Q5PPG7 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006249852   ⟸   XM_006249790
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000006768   ⟸   ENSRNOT00000006768
RefSeq Acc Id: XP_038946890   ⟸   XM_039090962
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000079849   ⟸   ENSRNOT00000111867
RefSeq Acc Id: ENSRNOP00000086963   ⟸   ENSRNOT00000117695
RefSeq Acc Id: ENSRNOP00000094285   ⟸   ENSRNOT00000114517
Protein Domains
PUA   SUI1   SWIB/MDM2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5PPG7-F1-model_v2 AlphaFold Q5PPG7 1-570 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698793
Promoter ID:EPDNEW_R9318
Type:initiation region
Name:Eif2d_1
Description:eukaryotic translation initiation factor 2D
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01347,935,159 - 47,935,219EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561765 AgrOrtholog
BioCyc Gene G2FUF-18355 BioCyc
Ensembl Genes ENSRNOG00000004910 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006768 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000079849 ENTREZGENE
  ENSRNOP00000079849.1 UniProtKB/TrEMBL
  ENSRNOP00000086963.1 UniProtKB/TrEMBL
  ENSRNOP00000094285.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006768 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000111867 ENTREZGENE
  ENSRNOT00000111867.1 UniProtKB/TrEMBL
  ENSRNOT00000114517.1 UniProtKB/TrEMBL
  ENSRNOT00000117695.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7314085 IMAGE-MGC_LOAD
InterPro EIF2D UniProtKB/Swiss-Prot
  eIF2D_SUI1 UniProtKB/Swiss-Prot
  Pre-PUA UniProtKB/Swiss-Prot
  PUA UniProtKB/Swiss-Prot
  PUA-like_sf UniProtKB/Swiss-Prot
  SUI1 UniProtKB/Swiss-Prot
  SUI1_dom_sf UniProtKB/Swiss-Prot
  SWIB_MDM2_dom_sf UniProtKB/Swiss-Prot
  SWIB_MDM2_domain UniProtKB/Swiss-Prot
KEGG Report rno:498225 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105736 IMAGE-MGC_LOAD
NCBI Gene 498225 ENTREZGENE
PANTHER PTHR12217 UniProtKB/Swiss-Prot
Pfam Pre-PUA UniProtKB/Swiss-Prot
  SUI1 UniProtKB/Swiss-Prot
PhenoGen Eif2d PhenoGen
PROSITE PUA UniProtKB/Swiss-Prot
  SUI1 UniProtKB/Swiss-Prot
  SWIB_MDM2 UniProtKB/Swiss-Prot
SMART PUA UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47592 UniProtKB/Swiss-Prot
  SSF55159 UniProtKB/Swiss-Prot
  SSF88697 UniProtKB/Swiss-Prot
UniProt A0A8I5ZPF1_RAT UniProtKB/TrEMBL
  A0A8I6AFL6_RAT UniProtKB/TrEMBL
  A0A8I6AJ85_RAT UniProtKB/TrEMBL
  EIF2D_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Lgtn  ligatin   Lgtn_predicted  ligatin (predicted)  'predicted' is removed 2292626 APPROVED
2007-02-02 Lgtn_predicted  ligatin (predicted)  LOC498225  similar to ligatin  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2006-02-09 LOC498225  similar to ligatin      Symbol and Name status set to provisional 70820 PROVISIONAL