Obsl1 (obscurin like cytoskeletal adaptor 1) - Rat Genome Database

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Gene: Obsl1 (obscurin like cytoskeletal adaptor 1) Rattus norvegicus
Analyze
Symbol: Obsl1
Name: obscurin like cytoskeletal adaptor 1
RGD ID: 1306073
Description: Involved in Golgi organization and positive regulation of dendrite morphogenesis. Predicted to be located in Golgi apparatus; centrosome; and perinuclear region of cytoplasm. Predicted to be part of 3M complex. Predicted to be active in synapse. Human ortholog(s) of this gene implicated in 3-M syndrome. Orthologous to human OBSL1 (obscurin like cytoskeletal adaptor 1); INTERACTS WITH 1,3-dinitrobenzene; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC363259; obscurin-like 1; Obscurin-like protein 1; RGD1306073; similar to sallimus CG1915-PC
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
mRatBN7.2976,967,802 - 76,993,565 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl976,974,253 - 76,993,560 (-)Ensembl
Rnor_6.0982,673,871 - 82,699,577 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl982,680,384 - 82,699,551 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0982,449,529 - 82,468,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4974,761,815 - 74,780,292 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1974,918,133 - 74,928,210 (-)NCBI
Celera974,544,146 - 74,563,437 (-)NCBICelera
Cytogenetic Map9q33NCBI
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

Cellular Component
3M complex  (ISO,ISS)
centrosome  (ISO,ISS)
cytoplasm  (ISO,ISS)
Golgi apparatus  (ISO,ISS)
perinuclear region of cytoplasm  (ISO,ISS)
synapse  (IBA)

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. An OBSL1-Cul7Fbxw8 ubiquitin ligase signaling mechanism regulates Golgi morphology and dendrite patterning. Litterman N, etal., PLoS Biol. 2011 May;9(5):e1001060. doi: 10.1371/journal.pbio.1001060. Epub 2011 May 10.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15057822   PMID:17289344   PMID:18477606   PMID:24793695  


Genomics

Comparative Map Data
Obsl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2976,967,802 - 76,993,565 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl976,974,253 - 76,993,560 (-)Ensembl
Rnor_6.0982,673,871 - 82,699,577 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl982,680,384 - 82,699,551 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0982,449,529 - 82,468,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4974,761,815 - 74,780,292 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1974,918,133 - 74,928,210 (-)NCBI
Celera974,544,146 - 74,563,437 (-)NCBICelera
Cytogenetic Map9q33NCBI
OBSL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382219,547,206 - 219,571,539 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2219,550,728 - 219,571,859 (-)EnsemblGRCh38hg38GRCh38
GRCh372220,415,450 - 220,436,261 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362220,123,708 - 220,144,255 (-)NCBINCBI36hg18NCBI36
Celera2214,185,413 - 214,206,231 (-)NCBI
Cytogenetic Map2q35NCBI
HuRef2212,268,480 - 212,289,298 (-)NCBIHuRef
CHM1_12220,421,271 - 220,442,089 (-)NCBICHM1_1
T2T-CHM13v2.02220,035,427 - 220,056,240 (-)NCBI
Obsl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39175,462,469 - 75,483,143 (-)NCBIGRCm39mm39
GRCm39 Ensembl175,455,954 - 75,483,096 (-)Ensembl
GRCm38175,485,825 - 75,506,486 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl175,479,310 - 75,506,452 (-)EnsemblGRCm38mm10GRCm38
MGSCv37175,482,400 - 75,503,027 (-)NCBIGRCm37mm9NCBIm37
MGSCv36175,373,687 - 75,388,789 (-)NCBImm8
Celera175,975,184 - 75,995,750 (-)NCBICelera
Cytogenetic Map1C4NCBI
Obsl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545313,906,013 - 13,925,681 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545313,905,992 - 13,932,652 (+)NCBIChiLan1.0ChiLan1.0
OBSL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B225,402,614 - 225,419,008 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B225,398,863 - 225,418,567 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B106,805,441 - 106,828,937 (-)NCBIMhudiblu_PPA_v0panPan3
OBSL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13726,059,713 - 26,079,503 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3726,059,713 - 26,079,488 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3726,885,157 - 26,904,946 (-)NCBI
ROS_Cfam_1.03726,074,790 - 26,094,606 (-)NCBI
ROS_Cfam_1.0 Ensembl3726,074,849 - 26,094,702 (-)Ensembl
UMICH_Zoey_3.13725,978,673 - 25,998,589 (-)NCBI
UNSW_CanFamBas_1.03725,914,789 - 25,934,580 (-)NCBI
UU_Cfam_GSD_1.03725,935,380 - 25,955,192 (-)NCBI
Obsl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303175,588,260 - 175,606,915 (-)NCBI
SpeTri2.0NW_0049365691,930,189 - 1,949,735 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
OBSL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15121,560,007 - 121,581,710 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115121,560,009 - 121,581,314 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215134,512,265 - 134,533,024 (+)NCBISscrofa10.2Sscrofa10.2susScr3
OBSL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110105,445,800 - 105,467,187 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl10105,442,071 - 105,466,875 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604093,934,250 - 93,955,442 (+)NCBIVero_WHO_p1.0
Obsl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248235,491,779 - 5,511,202 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248235,491,644 - 5,518,222 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D9Wox10  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,994,123 - 76,994,246 (+)MAPPERmRatBN7.2
Rnor_6.0982,700,141 - 82,700,263NCBIRnor6.0
Rnor_5.0982,469,402 - 82,469,524UniSTSRnor5.0
RGSC_v3.4974,780,881 - 74,781,004RGDRGSC3.4
RGSC_v3.4974,780,882 - 74,781,004UniSTSRGSC3.4
RGSC_v3.1974,927,989 - 74,928,112RGD
Celera974,564,001 - 74,564,123UniSTS
RH 3.4 Map9757.3UniSTS
RH 3.4 Map9757.3RGD
Cytogenetic Map9q33UniSTS
D9Mco56  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,989,207 - 76,989,394 (+)MAPPERmRatBN7.2
Rnor_6.0982,695,225 - 82,695,411NCBIRnor6.0
Rnor_5.0982,464,486 - 82,464,672UniSTSRnor5.0
RGSC_v3.4974,775,966 - 74,776,152UniSTSRGSC3.4
Celera974,559,085 - 74,559,271UniSTS
Cytogenetic Map9q33UniSTS
AA859818  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,984,320 - 76,984,527 (+)MAPPERmRatBN7.2
Rnor_6.0982,690,338 - 82,690,544NCBIRnor6.0
Rnor_5.0982,459,599 - 82,459,805UniSTSRnor5.0
RGSC_v3.4974,771,079 - 74,771,285UniSTSRGSC3.4
Celera974,554,198 - 74,554,404UniSTS
RH 3.4 Map9760.3UniSTS
Cytogenetic Map9q33UniSTS
ECD17211  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,993,037 - 76,993,446 (+)MAPPERmRatBN7.2
Rnor_6.0982,699,055 - 82,699,463NCBIRnor6.0
Rnor_5.0982,468,316 - 82,468,724UniSTSRnor5.0
RGSC_v3.4974,779,796 - 74,780,204UniSTSRGSC3.4
Celera974,562,915 - 74,563,323UniSTS
Cytogenetic Map9q33UniSTS
REN53413  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,992,757 - 76,993,030 (+)MAPPERmRatBN7.2
Rnor_6.0982,698,775 - 82,699,047NCBIRnor6.0
Rnor_5.0982,468,036 - 82,468,308UniSTSRnor5.0
RGSC_v3.4974,779,516 - 74,779,788UniSTSRGSC3.4
Celera974,562,635 - 74,562,907UniSTS
Cytogenetic Map9q33UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93253550577535505Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93253550577535505Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)93696235977814038Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94019418885194188Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94019418885194188Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94249534379271511Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)95584784177026453Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)95662771378595166Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)95662771378595166Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95662771378595166Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:65
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000020673
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 43 10 6 6 6 9 39 26 34 7 6
Low 3 34 22 19 22 2 2 35 9 7 4 2
Below cutoff 13 13 13

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020673   ⟹   ENSRNOP00000020673
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,974,253 - 76,993,560 (-)Ensembl
Rnor_6.0 Ensembl982,680,384 - 82,699,551 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103263   ⟹   ENSRNOP00000084083
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,984,260 - 76,993,560 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120120   ⟹   ENSRNOP00000093392
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,974,916 - 76,993,560 (-)Ensembl
RefSeq Acc Id: NM_001377020   ⟹   NP_001363949
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,984,260 - 76,993,560 (-)NCBI
RefSeq Acc Id: XM_006245304   ⟹   XP_006245366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,974,250 - 76,993,565 (-)NCBI
Rnor_6.0982,680,268 - 82,699,577 (-)NCBI
Rnor_5.0982,449,529 - 82,468,832 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245305   ⟹   XP_006245367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,974,250 - 76,993,565 (-)NCBI
Rnor_6.0982,680,268 - 82,699,577 (-)NCBI
Rnor_5.0982,449,529 - 82,468,832 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245306   ⟹   XP_006245368
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,974,382 - 76,993,565 (-)NCBI
Rnor_6.0982,681,074 - 82,699,577 (-)NCBI
Rnor_5.0982,449,529 - 82,468,832 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596828   ⟹   XP_017452317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,967,802 - 76,993,565 (-)NCBI
Rnor_6.0982,673,871 - 82,699,577 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039083894   ⟹   XP_038939822
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,980,603 - 76,993,565 (-)NCBI
RefSeq Acc Id: XM_039083895   ⟹   XP_038939823
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,980,603 - 76,993,565 (-)NCBI
RefSeq Acc Id: XM_343599   ⟹   XP_343600
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,974,250 - 76,993,565 (-)NCBI
Rnor_6.0982,680,268 - 82,699,577 (-)NCBI
Rnor_5.0982,449,529 - 82,468,832 (-)NCBI
RGSC_v3.4974,761,815 - 74,780,292 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: XP_343600   ⟸   XM_343599
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006245366   ⟸   XM_006245304
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006245367   ⟸   XM_006245305
- Peptide Label: isoform X4
- UniProtKB: D3ZZ80 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006245368   ⟸   XM_006245306
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017452317   ⟸   XM_017596828
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000020673   ⟸   ENSRNOT00000020673
RefSeq Acc Id: XP_038939823   ⟸   XM_039083895
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038939822   ⟸   XM_039083894
- Peptide Label: isoform X6
RefSeq Acc Id: NP_001363949   ⟸   NM_001377020
RefSeq Acc Id: ENSRNOP00000093392   ⟸   ENSRNOT00000120120
RefSeq Acc Id: ENSRNOP00000084083   ⟸   ENSRNOT00000103263
Protein Domains
Fibronectin type-III   Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZZ80-F1-model_v2 AlphaFold D3ZZ80 1-1805 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)
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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)
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)
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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)
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)
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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)
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)
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
MWF/Hsd (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
PVG/Seac (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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
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)
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
WAG/RijCrl (2020)
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
WKY/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
WKY/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
WN/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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 82685314 82685315 C T snv LN/MavRrrcAek (2020), LL/MavRrrcAek (2020), SR/JrHsd (RGD), LL/MavRrrc (RGD), LN/MavRrrc (RGD), SR/JrHsd (MCW), SR/JrHsd (2020)
9 82686566 82686567 A T snv BN-Lx/CubMcwi (2019)
9 82691162 82691163 C T snv SR/JrHsd (2020), LN/MavRrrcAek (2020), LL/MavRrrcAek (2020), SR/JrHsd (RGD), LL/MavRrrc (RGD), LN/MavRrrc (RGD), SR/JrHsd (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 82453298 82453299 G A snv DOB/Oda (KyushuU)
9 82454575 82454576 C T snv SR/JrHsd (KNAW), LN/MavRrrc (KNAW), LL/MavRrrc (KNAW), SR/JrHsd (MCW)
9 82457284 82457285 G A snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
9 82460423 82460424 C T snv SR/JrHsd (KNAW), LN/MavRrrc (KNAW), LL/MavRrrc (KNAW), SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306073 AgrOrtholog
BioCyc Gene G2FUF-27061 BioCyc
Ensembl Genes ENSRNOG00000015346 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020673 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000084083 ENTREZGENE
  ENSRNOP00000084083.1 UniProtKB/TrEMBL
  ENSRNOP00000093392 ENTREZGENE
  ENSRNOP00000093392.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020673 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000103263 ENTREZGENE
  ENSRNOT00000103263.1 UniProtKB/TrEMBL
  ENSRNOT00000120120 ENTREZGENE
  ENSRNOT00000120120.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
InterPro FN3_dom UniProtKB/Swiss-Prot
  FN3_sf UniProtKB/Swiss-Prot
  Ig-like_dom UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig_I-set UniProtKB/Swiss-Prot
  Ig_sub UniProtKB/Swiss-Prot
  Ig_sub2 UniProtKB/Swiss-Prot
NCBI Gene 363259 ENTREZGENE
Pfam I-set UniProtKB/Swiss-Prot
PhenoGen Obsl1 PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot
  IG_LIKE UniProtKB/Swiss-Prot
SMART IGc2 UniProtKB/Swiss-Prot
  SM00409 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
  SSF49265 UniProtKB/Swiss-Prot
UniProt A0A8I6AIN9_RAT UniProtKB/TrEMBL
  A0A8I6GBF5_RAT UniProtKB/TrEMBL
  D3ZZ80 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-09-03 Obsl1  obscurin like cytoskeletal adaptor 1  Obsl1  obscurin-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Obsl1  obscurin-like 1  RGD1306073_predicted  similar to sallimus CG1915-PC (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1306073_predicted  similar to sallimus CG1915-PC (predicted)  LOC363259_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC363259_predicted  similar to sallimus CG1915-PC (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL