LOC100125367 (hypothetical protein LOC100125367) - Rat Genome Database

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Gene: LOC100125367 (hypothetical protein LOC100125367) Rattus norvegicus
Analyze
Symbol: LOC100125367
Name: hypothetical protein LOC100125367
RGD ID: 1642423
Description: Orthologous to human C1orf74 (chromosome 1 open reading frame 74); INTERACTS WITH aristolochic acid (ortholog); benzo[a]pyrene (ortholog); bis(2-chloroethyl) sulfide (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: C1orf74; MGC94716; UPF0739 protein C1orf74 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213104,692,769 - 104,695,368 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl13104,692,824 - 104,695,470 (+)Ensembl
Rnor_6.013111,890,825 - 111,893,308 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13111,890,894 - 111,893,306 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013116,445,692 - 116,448,212 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413109,007,746 - 109,010,160 (+)NCBIRGSC3.4rn4RGSC3.4
Celera13104,123,201 - 104,125,615 (+)NCBICelera
Cytogenetic Map13q27NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:15632090  


Genomics

Comparative Map Data
LOC100125367
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.213104,692,769 - 104,695,368 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl13104,692,824 - 104,695,470 (+)Ensembl
Rnor_6.013111,890,825 - 111,893,308 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13111,890,894 - 111,893,306 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013116,445,692 - 116,448,212 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413109,007,746 - 109,010,160 (+)NCBIRGSC3.4rn4RGSC3.4
Celera13104,123,201 - 104,125,615 (+)NCBICelera
Cytogenetic Map13q27NCBI
C1orf74
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381209,779,208 - 209,784,559 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1209,779,208 - 209,784,559 (-)EnsemblGRCh38hg38GRCh38
GRCh371209,952,553 - 209,957,904 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361208,022,285 - 208,024,513 (-)NCBINCBI36hg18NCBI36
Celera1183,186,556 - 183,188,784 (-)NCBI
Cytogenetic Map1q32.2NCBI
HuRef1180,630,807 - 180,633,035 (-)NCBIHuRef
CHM1_11211,227,992 - 211,230,220 (-)NCBICHM1_1
T2T-CHM13v2.01209,025,976 - 209,031,327 (-)NCBI
A130010J15Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391192,855,777 - 192,860,145 (+)NCBIGRCm39mm39
GRCm39 Ensembl1192,850,354 - 192,860,140 (+)Ensembl
GRCm381193,173,469 - 193,177,837 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1193,168,046 - 193,177,832 (+)EnsemblGRCm38mm10GRCm38
MGSCv371194,999,663 - 195,004,026 (+)NCBIGRCm37mm9NCBIm37
MGSCv361194,874,366 - 194,877,027 (+)NCBImm8
Celera1200,048,553 - 200,052,916 (+)NCBICelera
Cytogenetic Map1H6NCBI
LOC102023042
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554892,439,928 - 2,442,219 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554892,439,927 - 2,462,748 (+)NCBIChiLan1.0ChiLan1.0
C1H1orf74
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11190,158,054 - 190,165,209 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1190,163,274 - 190,164,083 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01185,354,702 - 185,361,089 (-)NCBIMhudiblu_PPA_v0panPan3
C7H1orf74
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.178,440,771 - 8,446,650 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl78,444,907 - 8,446,604 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha78,017,910 - 8,023,788 (-)NCBI
ROS_Cfam_1.078,141,357 - 8,147,256 (-)NCBI
ROS_Cfam_1.0 Ensembl78,141,016 - 8,147,202 (-)Ensembl
UMICH_Zoey_3.178,071,052 - 8,076,940 (-)NCBI
UNSW_CanFamBas_1.078,168,074 - 8,173,963 (-)NCBI
UU_Cfam_GSD_1.078,306,167 - 8,312,058 (-)NCBI
CUNH1orf74
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934466,072,527 - 66,100,443 (+)NCBI
SpeTri2.0NW_0049365573,312,752 - 3,316,440 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C9H1orf74
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9133,187,742 - 133,193,416 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19133,187,701 - 133,251,760 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29146,263,550 - 146,265,549 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CUNH1orf74
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12519,668,036 - 19,671,527 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2519,670,205 - 19,671,017 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605520,268,364 - 20,278,036 (+)NCBIVero_WHO_p1.0
CUNH1orf74
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248072,212,172 - 2,214,278 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248072,212,178 - 2,325,632 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH129787  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213104,691,181 - 104,691,331 (+)MAPPERmRatBN7.2
Rnor_6.013111,889,124 - 111,889,273NCBIRnor6.0
Rnor_5.013116,444,028 - 116,444,177UniSTSRnor5.0
RGSC_v3.413109,005,976 - 109,006,125UniSTSRGSC3.4
Celera13104,121,431 - 104,121,580UniSTS
RH 3.4 Map13759.5UniSTS
Cytogenetic Map13q27UniSTS
RH131251  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.213104,694,963 - 104,695,163 (+)MAPPERmRatBN7.2
Rnor_6.013111,892,906 - 111,893,105NCBIRnor6.0
Rnor_5.013116,447,810 - 116,448,009UniSTSRnor5.0
RGSC_v3.413109,009,758 - 109,009,957UniSTSRGSC3.4
Celera13104,125,213 - 104,125,412UniSTS
RH 3.4 Map13795.6UniSTS
Cytogenetic Map13q27UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:614
Count of miRNA genes:273
Interacting mature miRNAs:347
Transcripts:ENSRNOT00000007341
Prediction methods:Microtar, Miranda, 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 6 6 2 10 7
Low 3 43 51 41 13 41 8 11 72 25 34 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000007341   ⟹   ENSRNOP00000054032
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13104,692,824 - 104,695,470 (+)Ensembl
Rnor_6.0 Ensembl13111,890,894 - 111,893,306 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097977   ⟹   ENSRNOP00000084103
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13104,692,824 - 104,695,470 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108080   ⟹   ENSRNOP00000076619
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl13104,693,294 - 104,695,470 (+)Ensembl
RefSeq Acc Id: NM_001103357   ⟹   NP_001096827
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,692,952 - 104,695,366 (+)NCBI
Rnor_6.013111,890,894 - 111,893,308 (+)NCBI
Rnor_5.013116,445,692 - 116,448,212 (+)NCBI
RGSC_v3.413109,007,746 - 109,010,160 (+)RGD
Celera13104,123,201 - 104,125,615 (+)RGD
Sequence:
RefSeq Acc Id: XM_017598635   ⟹   XP_017454124
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,693,114 - 104,695,368 (+)NCBI
Rnor_6.013111,891,054 - 111,893,308 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090217   ⟹   XP_038946145
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.213104,692,769 - 104,695,368 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001096827   ⟸   NM_001103357
- UniProtKB: Q5U2R2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017454124   ⟸   XM_017598635
- Peptide Label: isoform X1
- UniProtKB: Q5U2R2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000054032   ⟸   ENSRNOT00000007341
RefSeq Acc Id: XP_038946145   ⟸   XM_039090217
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000076619   ⟸   ENSRNOT00000108080
RefSeq Acc Id: ENSRNOP00000084103   ⟸   ENSRNOT00000097977

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5U2R2-F1-model_v2 AlphaFold Q5U2R2 1-263 view protein structure

Transcriptome

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

Promoters
RGD ID:13699126
Promoter ID:EPDNEW_R9651
Type:single initiation site
Name:LOC100125367_1
Description:hypothetical protein LOC100125367
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_6.013111,890,882 - 111,890,942EPDNEW

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)
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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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
LEXF10A/StmMcwi (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
LEXF11/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
LEXF1A/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
LEXF1C/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
LEXF2B/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
LEXF3/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
LEXF4/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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
M520/NRrrcMcwi (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
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 111893005 111893006 G A snv WN/N (2020), MR/N (2020), ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), ACI/N (MCW), MR/N (MCW), WN/N (MCW), ACI/EurMcwi (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), ACI/EurMcwi (2019), ACI/N (2020), FHH/EurMcwi (2019), CDR


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 116447909 116447910 G A snv ACI/EurMcwi (MCW), ZFDM (KyushuU), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), WN/N (KNAW), MR/N (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), SDLEF7/Barth (UDEL), Crl:SD (UDEL), NIG-III/Hok (KyushuU), ZF (KyushuU), COP/CrCrl (MCW & UW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 109009857 109009858 G A snv ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MDC), ACI/N (KNAW), MR/N (KNAW), LCR/2Mco (UMich), COP/CrCrl (MCW & UW), ACI/EurMcwi (ICL), FHH/EurMcwi (ICL), FHL/EurMcwi (ICL), HCR/1Mco (UMich), LCR/1Mco (UMich), WN/N (KNAW)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 104695063 104695064 G A snv ACI/EurMcwi (2019), ACI/N (2020), WN/N (2020), MR/N (2020), FHH/EurMcwi (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1642423 AgrOrtholog
BioCyc Gene G2FUF-16789 BioCyc
Ensembl Genes ENSRNOG00000005558 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000054032 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000076619 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000084103 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000007341 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000097977 UniProtKB/Swiss-Prot
  ENSRNOT00000108080 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7193261 IMAGE-MGC_LOAD
InterPro DUF4504 UniProtKB/Swiss-Prot
KEGG Report rno:100125367 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94716 IMAGE-MGC_LOAD
NCBI Gene 100125367 ENTREZGENE
PANTHER PTHR31366 UniProtKB/Swiss-Prot
Pfam DUF4504 UniProtKB/Swiss-Prot
PhenoGen LOC100125367 PhenoGen
UniProt CA074_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-09-15 LOC100125367  hypothetical protein LOC100125367      Symbol and Name status set to provisional 70820 PROVISIONAL