RGD1560883 (similar to KIAA0825 protein) - Rat Genome Database

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Gene: RGD1560883 (similar to KIAA0825 protein) Rattus norvegicus
Analyze
Symbol: RGD1560883
Name: similar to KIAA0825 protein
RGD ID: 1560883
Description: Orthologous to human KIAA0825 (KIAA0825); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC100911144; LOC294603; uncharacterized LOC100911144; uncharacterized protein KIAA0825 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.226,874,474 - 7,437,032 (+)NCBI
Rnor_6.0 Ensembl24,195,917 - 4,754,318 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.024,195,871 - 4,755,065 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.024,193,792 - 4,735,075 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.424,529,886 - 4,659,597 (+)NCBIRGSC3.4rn4RGSC3.4
Celera23,326,273 - 3,884,737 (+)NCBICelera
Cytogenetic Map2q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Molecular Function

References


Genomics

Comparative Map Data
RGD1560883
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.226,874,474 - 7,437,032 (+)NCBI
Rnor_6.0 Ensembl24,195,917 - 4,754,318 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.024,195,871 - 4,755,065 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.024,193,792 - 4,735,075 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.424,529,886 - 4,659,597 (+)NCBIRGSC3.4rn4RGSC3.4
Celera23,326,273 - 3,884,737 (+)NCBICelera
Cytogenetic Map2q11NCBI
KIAA0825
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl594,150,851 - 94,618,604 (-)EnsemblGRCh38hg38GRCh38
GRCh38594,150,851 - 94,618,604 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37593,486,556 - 93,954,309 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36593,880,919 - 93,980,040 (-)NCBINCBI36hg18NCBI36
Celera589,346,774 - 89,816,202 (-)NCBI
Cytogenetic Map5q15NCBI
HuRef588,659,548 - 89,127,582 (-)NCBIHuRef
CHM1_1592,919,534 - 93,386,938 (-)NCBICHM1_1
2210408I21Rik
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391377,283,636 - 77,761,798 (+)NCBIGRCm39mm39
GRCm39 Ensembl1377,283,659 - 77,761,903 (+)Ensembl
GRCm381377,135,531 - 77,613,785 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1377,135,540 - 77,613,784 (+)EnsemblGRCm38mm10GRCm38
MGSCv371377,274,797 - 77,752,940 (+)NCBIGRCm37mm9NCBIm37
MGSCv361377,599,083 - 78,076,838 (+)NCBImm8
Celera1379,463,325 - 79,920,002 (+)NCBICelera
Cytogenetic Map13C1NCBI
Kiaa0825
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541817,851,078 - 17,995,990 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541817,818,641 - 18,203,402 (+)NCBIChiLan1.0ChiLan1.0
KIAA0825
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1520,894,477 - 21,353,552 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl520,930,543 - 21,352,509 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0520,755,995 - 21,216,208 (+)NCBIMhudiblu_PPA_v0panPan3
KIAA0825
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1314,868,609 - 15,251,247 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl314,893,203 - 15,249,730 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha316,207,450 - 16,588,002 (+)NCBI
ROS_Cfam_1.0314,796,918 - 15,135,637 (+)NCBI
UMICH_Zoey_3.1314,711,657 - 15,011,407 (+)NCBI
UNSW_CanFamBas_1.0314,710,159 - 15,090,916 (+)NCBI
UU_Cfam_GSD_1.0314,913,859 - 15,296,241 (+)NCBI
Kiaa0825
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213170,449,148 - 170,830,022 (+)NCBI
SpeTri2.0NW_0049365238,634,617 - 9,015,742 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KIAA0825
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2100,934,424 - 101,291,935 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12100,935,165 - 101,291,983 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22104,714,898 - 104,739,896 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KIAA0825
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1488,018,026 - 88,499,287 (-)NCBI
ChlSab1.1 Ensembl488,238,022 - 88,422,215 (-)Ensembl
Vero_WHO_p1.0NW_02366624023,272 - 104,913 (+)NCBI
Kiaa0825
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474312,945,095 - 13,327,509 (-)NCBI

Position Markers
AU048302  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.227,310,054 - 7,310,202 (-)MAPPER
Rnor_6.024,716,045 - 4,716,192NCBIRnor6.0
Rnor_5.024,616,232 - 4,616,379UniSTSRnor5.0
RGSC_v3.424,999,991 - 5,000,138UniSTSRGSC3.4
Celera23,760,898 - 3,761,045UniSTS
Cytogenetic Map2q11UniSTS
RH134751  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.227,169,442 - 7,169,662 (+)MAPPER
Rnor_6.024,488,939 - 4,489,158NCBIRnor6.0
Rnor_5.024,483,360 - 4,483,579UniSTSRnor5.0
RGSC_v3.424,755,540 - 4,755,759UniSTSRGSC3.4
Celera23,618,612 - 3,618,831UniSTS
Cytogenetic Map2q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135167060Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141179397Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)23127638105149020Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2368630848686308Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:89
Interacting mature miRNAs:102
Transcripts:ENSRNOT00000071535
Prediction methods:Microtar, 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 8 3
Low 2 41 57 41 19 41 8 10 66 35 38 11 8
Below cutoff 1 2 1

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006223951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006231723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591155 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591156 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594248 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594251 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594256 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039103954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501452 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_590789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_599532 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC111930 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC113776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000071535   ⟹   ENSRNOP00000064885
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl24,252,496 - 4,444,836 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093303   ⟹   ENSRNOP00000076185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl24,195,917 - 4,754,318 (+)Ensembl
RefSeq Acc Id: XM_006231723   ⟹   XP_006231785
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,437,023 (+)NCBI
Rnor_6.024,195,891 - 4,755,063 (+)NCBI
Rnor_5.024,193,792 - 4,735,075 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591153   ⟹   XP_017446642
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,437,024 (+)NCBI
Rnor_6.024,195,891 - 4,755,064 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591155   ⟹   XP_017446644
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,914,400 - 7,437,024 (+)NCBI
Rnor_6.024,233,797 - 4,755,064 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591156   ⟹   XP_017446645
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,175,028 (+)NCBI
Rnor_6.024,195,891 - 4,494,524 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591157   ⟹   XP_017446646
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,480 - 7,437,025 (+)NCBI
Rnor_6.024,195,871 - 4,755,065 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591158   ⟹   XP_017446647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,437,025 (+)NCBI
Rnor_6.024,195,891 - 4,755,064 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103950   ⟹   XP_038959878
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,932,987 - 7,437,026 (+)NCBI
RefSeq Acc Id: XM_039103951   ⟹   XP_038959879
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,978,181 - 7,437,027 (+)NCBI
RefSeq Acc Id: XM_039103952   ⟹   XP_038959880
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.227,004,011 - 7,437,027 (+)NCBI
RefSeq Acc Id: XM_039103953   ⟹   XP_038959881
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,045,515 (+)NCBI
RefSeq Acc Id: XM_039103954   ⟹   XP_038959882
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.227,021,684 - 7,437,032 (+)NCBI
RefSeq Acc Id: XR_005501450
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,047,994 (+)NCBI
RefSeq Acc Id: XR_005501451
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,029,279 (+)NCBI
RefSeq Acc Id: XR_005501452
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.226,874,474 - 7,026,111 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_006231785   ⟸   XM_006231723
- Peptide Label: isoform X3
- UniProtKB: A0A1W2Q691 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446646   ⟸   XM_017591157
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017446642   ⟸   XM_017591153
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017446647   ⟸   XM_017591158
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017446645   ⟸   XM_017591156
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017446644   ⟸   XM_017591155
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000076185   ⟸   ENSRNOT00000093303
RefSeq Acc Id: ENSRNOP00000064885   ⟸   ENSRNOT00000071535
RefSeq Acc Id: XP_038959881   ⟸   XM_039103953
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038959878   ⟸   XM_039103950
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038959879   ⟸   XM_039103951
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038959880   ⟸   XM_039103952
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038959882   ⟸   XM_039103954
- Peptide Label: isoform X10

Transcriptome

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

Promoters
RGD ID:13691047
Promoter ID:EPDNEW_R1565
Type:initiation region
Name:RGD1560883_1
Description:similar to KIAA0825 protein
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_6.024,195,936 - 4,195,996EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560883 AgrOrtholog
Ensembl Genes ENSRNOG00000013821 UniProtKB/TrEMBL
  ENSRNOG00000045639 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000018479 UniProtKB/TrEMBL
  ENSRNOP00000064885 UniProtKB/TrEMBL
  ENSRNOP00000076185 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018479 UniProtKB/TrEMBL
  ENSRNOT00000071535 UniProtKB/TrEMBL
  ENSRNOT00000093303 UniProtKB/TrEMBL
InterPro DUF4495 UniProtKB/TrEMBL
KEGG Report rno:294603 UniProtKB/TrEMBL
NCBI Gene 294603 ENTREZGENE
PANTHER PTHR33960 UniProtKB/TrEMBL
Pfam DUF4495 UniProtKB/TrEMBL
PhenoGen RGD1560883 PhenoGen
UniProt A0A1W2Q691 ENTREZGENE, UniProtKB/TrEMBL
  D3ZV85_RAT UniProtKB/TrEMBL
  M0R647_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 RGD1560883  similar to KIAA0825 protein  LOC100911144  uncharacterized LOC100911144  Data Merged 737654 PROVISIONAL
2012-07-05 LOC100911144  uncharacterized LOC100911144      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1560883  similar to KIAA0825 protein   RGD1560883_predicted  similar to KIAA0825 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560883_predicted  similar to KIAA0825 protein (predicted)  LOC294603  similar to KIAA0825 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC294603  similar to KIAA0825 protein      Symbol and Name status set to provisional 70820 PROVISIONAL