Tulp1 (TUB like protein 1) - Rat Genome Database

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Gene: Tulp1 (TUB like protein 1) Rattus norvegicus
Analyze
Symbol: Tulp1
Name: TUB like protein 1
RGD ID: 1311062
Description: Predicted to enable actin filament binding activity and phosphatidylinositol-4,5-bisphosphate binding activity. Predicted to be involved in several processes, including detection of light stimulus involved in visual perception; neuron development; and positive regulation of phagocytosis. Predicted to act upstream of or within several processes, including phagocytosis, recognition; photoreceptor cell maintenance; and protein localization to photoreceptor outer segment. Predicted to be located in several cellular components, including axon terminus; photoreceptor inner segment; and photoreceptor outer segment. Predicted to be active in cilium. Human ortholog(s) of this gene implicated in Leber congenital amaurosis 15; retinitis pigmentosa; and retinitis pigmentosa 14. Orthologous to human TULP1 (TUB like protein 1); PARTICIPATES IN retinitis pigmentosa pathway; INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC309900; tubby like protein 1; tubby-related protein 1
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
mRatBN7.2206,412,170 - 6,424,312 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl206,412,171 - 6,424,073 (-)Ensembl
Rnor_6.0207,931,673 - 7,943,601 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl207,931,674 - 7,943,575 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02010,132,030 - 10,143,968 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4206,592,448 - 6,604,349 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1206,593,007 - 6,635,715 (-)NCBI
Celera207,968,551 - 7,980,452 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Genes and mutations causing retinitis pigmentosa. Daiger SP, etal., Clin Genet. 2013 Aug;84(2):132-41. doi: 10.1111/cge.12203. Epub 2013 Jun 19.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Recessive mutations in the gene encoding the tubby-like protein TULP1 in patients with retinitis pigmentosa. Hagstrom SA, etal., Nat Genet. 1998 Feb;18(2):174-6.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:10549638   PMID:10607826   PMID:11481257   PMID:15557452   PMID:16303976   PMID:17525220   PMID:19218615   PMID:19695251   PMID:19837063   PMID:20978472   PMID:21052544   PMID:21867699  
PMID:22183357   PMID:22183407   PMID:24664738   PMID:26427465  


Genomics

Comparative Map Data
Tulp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2206,412,170 - 6,424,312 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl206,412,171 - 6,424,073 (-)Ensembl
Rnor_6.0207,931,673 - 7,943,601 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl207,931,674 - 7,943,575 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02010,132,030 - 10,143,968 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4206,592,448 - 6,604,349 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1206,593,007 - 6,635,715 (-)NCBI
Celera207,968,551 - 7,980,452 (-)NCBICelera
Cytogenetic Map20p12NCBI
TULP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38635,497,874 - 35,512,896 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl635,497,874 - 35,512,896 (-)EnsemblGRCh38hg38GRCh38
GRCh37635,465,651 - 35,480,673 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36635,573,629 - 35,588,625 (-)NCBINCBI36hg18NCBI36
Build 34635,573,631 - 35,588,623NCBI
Celera637,019,631 - 37,034,629 (-)NCBI
Cytogenetic Map6p21.31NCBI
HuRef635,186,429 - 35,201,277 (-)NCBIHuRef
CHM1_1635,467,671 - 35,482,667 (-)NCBICHM1_1
T2T-CHM13v2.0635,320,953 - 35,335,977 (-)NCBI
Tulp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391728,570,489 - 28,584,190 (-)NCBIGRCm39mm39
GRCm39 Ensembl1728,570,489 - 28,584,196 (-)Ensembl
GRCm381728,351,515 - 28,365,216 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1728,351,515 - 28,365,222 (-)EnsemblGRCm38mm10GRCm38
MGSCv371728,488,464 - 28,502,088 (-)NCBIGRCm37mm9NCBIm37
MGSCv361728,079,108 - 28,092,732 (-)NCBImm8
Celera1728,905,341 - 28,919,055 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
Tulp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554373,405,218 - 3,417,079 (-)NCBIChiLan1.0ChiLan1.0
TULP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1636,151,294 - 36,166,210 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl636,151,747 - 36,166,160 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0635,058,422 - 35,073,472 (-)NCBIMhudiblu_PPA_v0panPan3
TULP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1124,632,580 - 4,644,313 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl124,633,098 - 4,645,994 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha124,648,007 - 4,661,356 (-)NCBI
ROS_Cfam_1.0124,971,110 - 4,984,030 (-)NCBI
ROS_Cfam_1.0 Ensembl124,971,137 - 4,984,030 (-)Ensembl
UMICH_Zoey_3.1124,631,362 - 4,644,397 (-)NCBI
UNSW_CanFamBas_1.0124,710,151 - 4,723,196 (-)NCBI
UU_Cfam_GSD_1.0124,810,347 - 4,823,401 (-)NCBI
Tulp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494640,203,228 - 40,215,516 (-)NCBI
SpeTri2.0NW_00493647623,744,707 - 23,757,002 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TULP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl731,361,873 - 31,379,204 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1731,362,670 - 31,379,948 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2736,308,210 - 36,315,788 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TULP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11736,610,749 - 36,625,590 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604435,411,198 - 35,425,917 (-)NCBIVero_WHO_p1.0
Tulp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475421,961,513 - 21,971,362 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH128061  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2206,412,176 - 6,412,356 (+)MAPPERmRatBN7.2
Rnor_6.0207,931,680 - 7,931,859NCBIRnor6.0
Rnor_5.02010,132,037 - 10,132,216UniSTSRnor5.0
RGSC_v3.4206,592,454 - 6,592,633UniSTSRGSC3.4
Celera207,968,557 - 7,968,736UniSTS
RH 3.4 Map2076.13UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:135
Count of miRNA genes:105
Interacting mature miRNAs:111
Transcripts:ENSRNOT00000066897
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
Low 11 11
Below cutoff 3 7 10 4 13 4 3 3 7 19 21 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066897   ⟹   ENSRNOP00000063884
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl206,412,171 - 6,424,073 (-)Ensembl
Rnor_6.0 Ensembl207,931,674 - 7,943,575 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095895   ⟹   ENSRNOP00000076985
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl206,412,171 - 6,424,073 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000097363   ⟹   ENSRNOP00000077059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl206,415,557 - 6,424,073 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113572   ⟹   ENSRNOP00000087284
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl206,412,171 - 6,424,073 (-)Ensembl
RefSeq Acc Id: NM_001107642   ⟹   NP_001101112
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,412,171 - 6,424,073 (-)NCBI
Rnor_6.0207,931,674 - 7,943,575 (-)NCBI
Rnor_5.02010,132,030 - 10,143,968 (-)NCBI
RGSC_v3.4206,592,448 - 6,604,349 (-)RGD
Celera207,968,551 - 7,980,452 (-)RGD
Sequence:
RefSeq Acc Id: XM_006256217   ⟹   XP_006256279
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2206,412,170 - 6,424,312 (-)NCBI
Rnor_6.0207,931,673 - 7,943,600 (-)NCBI
Rnor_5.02010,132,030 - 10,143,968 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101112 (Get FASTA)   NCBI Sequence Viewer  
  XP_006256279 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL96925 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101112   ⟸   NM_001107642
- UniProtKB: D3ZWB5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256279   ⟸   XM_006256217
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000063884   ⟸   ENSRNOT00000066897
RefSeq Acc Id: ENSRNOP00000087284   ⟸   ENSRNOT00000113572
RefSeq Acc Id: ENSRNOP00000076985   ⟸   ENSRNOT00000095895
RefSeq Acc Id: ENSRNOP00000077059   ⟸   ENSRNOT00000097363
Protein Domains
Tub

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZWB5-F1-model_v2 AlphaFold D3ZWB5 1-467 view protein structure

Transcriptome

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


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)
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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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 10132456 10132457 C T snv DOB/Oda (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311062 AgrOrtholog
BioCyc Gene G2FUF-4421 BioCyc
Ensembl Genes ENSRNOG00000000507 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063884 ENTREZGENE
  ENSRNOP00000063884.1 UniProtKB/TrEMBL
  ENSRNOP00000076985.1 UniProtKB/TrEMBL
  ENSRNOP00000077059.1 UniProtKB/TrEMBL
  ENSRNOP00000087284 ENTREZGENE
  ENSRNOP00000087284.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066897 ENTREZGENE
  ENSRNOT00000066897.2 UniProtKB/TrEMBL
  ENSRNOT00000095895.1 UniProtKB/TrEMBL
  ENSRNOT00000097363.1 UniProtKB/TrEMBL
  ENSRNOT00000113572 ENTREZGENE
  ENSRNOT00000113572.1 UniProtKB/TrEMBL
Gene3D-CATH 3.20.90.10 UniProtKB/TrEMBL
InterPro Tubby_C UniProtKB/TrEMBL
  Tubby_C-like UniProtKB/TrEMBL
  Tubby_C_CS UniProtKB/TrEMBL
KEGG Report rno:309900 UniProtKB/TrEMBL
NCBI Gene 309900 ENTREZGENE
Pfam Tub UniProtKB/TrEMBL
PhenoGen Tulp1 PhenoGen
PRINTS SUPERTUBBY UniProtKB/TrEMBL
PROSITE TUB_1 UniProtKB/TrEMBL
  TUB_2 UniProtKB/TrEMBL
Superfamily-SCOP Tubby_C UniProtKB/TrEMBL
UniProt A0A8I5YC55_RAT UniProtKB/TrEMBL
  A0A8I5ZJC5_RAT UniProtKB/TrEMBL
  A0A8I6A6Z0_RAT UniProtKB/TrEMBL
  D3ZWB5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-08-05 Tulp1  TUB like protein 1  Tulp1  tubby like protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Tulp1  tubby like protein 1   Tulp1_predicted  tubby like protein 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Tulp1_predicted  tubby like protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED