Camsap3 (calmodulin regulated spectrin-associated protein family, member 3) - Rat Genome Database
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Gene: Camsap3 (calmodulin regulated spectrin-associated protein family, member 3) Rattus norvegicus
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Symbol: Camsap3
Name: calmodulin regulated spectrin-associated protein family, member 3
RGD ID: 1597412
Description: Predicted to have actin filament binding activity and microtubule minus-end binding activity. Predicted to be involved in several processes, including microtubule cytoskeleton organization; regulation of organelle organization; and zonula adherens maintenance. Predicted to localize to several cellular components, including cytoskeleton; motile cilium; and zonula adherens. Orthologous to human CAMSAP3 (calmodulin regulated spectrin associated protein family member 3); PARTICIPATES IN E-cadherin signaling pathway; INTERACTS WITH bisphenol A; Brodifacoum; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: calmodulin-regulated spectrin-associated protein 3; hypothetical protein LOC689074; LOC288373; LOC689074; RGD1307246; similar to CG33130-PA; similar to Protein KIAA1543; uncharacterized protein LOC689074
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
mRatBN7.2121,643,062 - 1,666,685 (+)NCBI
Rnor_6.0 Ensembl122,134,022 - 2,157,403 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0122,133,935 - 2,157,403 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0124,296,348 - 4,319,735 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,546,678 - 2,572,951 (-)NCBIRGSC3.4rn4RGSC3.4
Celera123,498,429 - 3,522,426 (+)NCBICelera
Cytogenetic Map12p12NCBI
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

Cellular Component
axoneme  (IEA,ISO)
centrosome  (ISO)
ciliary basal body  (IEA,ISO)
cytoplasm  (ISO,ISS)
microtubule cytoskeleton  (ISO)
microtubule minus-end  (IBA,ISO)
motile cilium  (IEA,ISO)
nucleoplasm  (IEA,ISO)
zonula adherens  (ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:15632090   PMID:19041755   PMID:19389623   PMID:23169647   PMID:24486153   PMID:24706919   PMID:26715742   PMID:27693509   PMID:27802168   PMID:27996060   PMID:28089391   PMID:28860385  


Genomics

Comparative Map Data
Camsap3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2121,643,062 - 1,666,685 (+)NCBI
Rnor_6.0 Ensembl122,134,022 - 2,157,403 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0122,133,935 - 2,157,403 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0124,296,348 - 4,319,735 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,546,678 - 2,572,951 (-)NCBIRGSC3.4rn4RGSC3.4
Celera123,498,429 - 3,522,426 (+)NCBICelera
Cytogenetic Map12p12NCBI
CAMSAP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl197,595,902 - 7,618,304 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl197,595,863 - 7,618,304 (+)EnsemblGRCh38hg38GRCh38
GRCh38197,595,863 - 7,618,304 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37197,660,749 - 7,683,190 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36197,566,788 - 7,589,196 (+)NCBINCBI36hg18NCBI36
Celera197,533,272 - 7,554,380 (+)NCBI
Cytogenetic Map19p13.2NCBI
HuRef197,306,514 - 7,352,872 (+)NCBIHuRef
CHM1_1197,660,679 - 7,682,947 (+)NCBICHM1_1
Camsap3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,637,237 - 3,659,075 (+)NCBIGRCm39mm39
GRCm39 Ensembl83,637,293 - 3,659,075 (+)Ensembl
GRCm3883,587,237 - 3,609,075 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,587,293 - 3,609,075 (+)EnsemblGRCm38mm10GRCm38
MGSCv3783,587,450 - 3,609,075 (+)NCBIGRCm37mm9NCBIm37
MGSCv3683,587,676 - 3,609,047 (+)NCBImm8
Celera83,817,778 - 3,839,404 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
Camsap3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555631,639,600 - 1,648,818 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555631,639,369 - 1,648,826 (-)NCBIChiLan1.0ChiLan1.0
CAMSAP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1197,750,065 - 7,763,056 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl197,749,945 - 7,763,056 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0196,885,979 - 6,908,067 (+)NCBIMhudiblu_PPA_v0panPan3
CAMSAP3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2052,381,567 - 52,391,203 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12052,378,532 - 52,391,452 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Camsap3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365884,660,664 - 4,669,836 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CAMSAP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl271,531,607 - 71,547,419 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1271,531,607 - 71,547,413 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2271,891,789 - 71,901,026 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CAMSAP3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.167,085,113 - 7,104,133 (+)NCBI
ChlSab1.1 Ensembl67,085,282 - 7,103,885 (+)Ensembl
Camsap3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624828689,010 - 703,496 (+)NCBI

Position Markers
RH131967  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0122,157,042 - 2,157,252NCBIRnor6.0
Rnor_5.0124,319,374 - 4,319,584UniSTSRnor5.0
RGSC_v3.4122,546,829 - 2,547,039UniSTSRGSC3.4
Celera123,522,065 - 3,522,275UniSTS
Cytogenetic Map12p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)12111765163Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12122650917Rat
10450854Stl34Serum triglyceride level QTL 343.50.05blood LDL triglyceride amount (VT:0010699)blood lipoprotein triglyceride level (CMO:0002685)12122853017Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12123035872Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123758197Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12130749723Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12136919844Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12138334225Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)1215081045150810Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1215081045150810Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)1249257845492578Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)12125813910257059Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:168
Count of miRNA genes:127
Interacting mature miRNAs:142
Transcripts:ENSRNOT00000001305
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 2 66 27 20
Low 1 20 57 41 16 41 1 1 8 8 21 11 1
Below cutoff 20 3 7 9 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001305   ⟹   ENSRNOP00000001305
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl122,134,022 - 2,157,403 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084906   ⟹   ENSRNOP00000073369
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl122,140,203 - 2,157,381 (+)Ensembl
RefSeq Acc Id: NM_001144840   ⟹   NP_001138312
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,251 - 1,666,685 (+)NCBI
Rnor_6.0122,134,022 - 2,157,403 (+)NCBI
Rnor_5.0124,296,348 - 4,319,735 (+)NCBI
RGSC_v3.4122,546,678 - 2,572,951 (-)RGD
Celera123,498,429 - 3,522,426 (+)RGD
Sequence:
RefSeq Acc Id: XM_006248776   ⟹   XP_006248838
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,064 - 1,666,637 (+)NCBI
Rnor_6.0122,133,936 - 2,157,355 (+)NCBI
Rnor_5.0124,296,348 - 4,319,735 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006248777   ⟹   XP_006248839
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,066 - 1,666,637 (+)NCBI
Rnor_6.0122,133,937 - 2,157,355 (+)NCBI
Rnor_5.0124,296,348 - 4,319,735 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006248779   ⟹   XP_006248841
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,066 - 1,666,637 (+)NCBI
Rnor_6.0122,133,936 - 2,157,355 (+)NCBI
Rnor_5.0124,296,348 - 4,319,735 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006248781   ⟹   XP_006248843
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,066 - 1,666,637 (+)NCBI
Rnor_6.0122,133,936 - 2,157,355 (+)NCBI
Rnor_5.0124,296,348 - 4,319,735 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006248782   ⟹   XP_006248844
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,068 - 1,666,637 (+)NCBI
Rnor_6.0122,133,937 - 2,157,355 (+)NCBI
Rnor_5.0124,296,348 - 4,319,735 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769001   ⟹   XP_008767223
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,068 - 1,666,637 (+)NCBI
Rnor_6.0122,133,937 - 2,157,355 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598455   ⟹   XP_017453944
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,062 - 1,666,637 (+)NCBI
Rnor_6.0122,133,935 - 2,157,355 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598456   ⟹   XP_017453945
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,648,072 - 1,666,637 (+)NCBI
Rnor_6.0122,139,081 - 2,157,355 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039089766   ⟹   XP_038945694
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2121,643,064 - 1,666,637 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001138312   ⟸   NM_001144840
- UniProtKB: D3ZXQ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248838   ⟸   XM_006248776
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006248839   ⟸   XM_006248777
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006248841   ⟸   XM_006248779
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006248843   ⟸   XM_006248781
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_006248844   ⟸   XM_006248782
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_008767223   ⟸   XM_008769001
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017453944   ⟸   XM_017598455
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017453945   ⟸   XM_017598456
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: ENSRNOP00000073369   ⟸   ENSRNOT00000084906
RefSeq Acc Id: ENSRNOP00000001305   ⟸   ENSRNOT00000001305
RefSeq Acc Id: XP_038945694   ⟸   XM_039089766
- Peptide Label: isoform X3
Protein Domains
Calponin-homology (CH)   CKK

Transcriptome

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

Promoters
RGD ID:13698369
Promoter ID:EPDNEW_R8894
Type:initiation region
Name:Camsap3_1
Description:calmodulin regulated spectrin-associated protein family, member3
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_6.0122,134,005 - 2,134,065EPDNEW

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)
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
LL/MavRrrc (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
LN/MavRrrc (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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 4314729 4314730 G C snv LEC/Tj (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 2148339 2148340 G A snv ACI/N (MCW), Buf/N (MCW)
12 2156152 2156153 C T snv MR/N (MCW), M520/N (MCW), WN/N (MCW), F344/NRrrc (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1597412 AgrOrtholog
Ensembl Genes ENSRNOG00000000986 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001305 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073369 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001305 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000084906 UniProtKB/TrEMBL
Gene3D-CATH 3.10.20.360 UniProtKB/TrEMBL
InterPro Calponin-like_dom_sf UniProtKB/TrEMBL
  CAMSAP UniProtKB/TrEMBL
  CAMSAP_CC1 UniProtKB/TrEMBL
  CAMSAP_CH UniProtKB/TrEMBL
  CH-domain UniProtKB/TrEMBL
  CKK_dom_sf UniProtKB/TrEMBL
  CKK_domain UniProtKB/TrEMBL
  PRC_barrell-like UniProtKB/TrEMBL
KEGG Report rno:689074 UniProtKB/TrEMBL
NCBI Gene 689074 ENTREZGENE
PANTHER PTHR21595 UniProtKB/TrEMBL
Pfam CAMSAP_CC1 UniProtKB/TrEMBL
  CAMSAP_CH UniProtKB/TrEMBL
  CAMSAP_CKK UniProtKB/TrEMBL
PhenoGen Camsap3 PhenoGen
PROSITE CKK UniProtKB/TrEMBL
  PS50021 UniProtKB/TrEMBL
SMART CAMSAP_CKK UniProtKB/TrEMBL
Superfamily-SCOP Calponin-homology UniProtKB/TrEMBL
  PRCH_cytoplasmic UniProtKB/TrEMBL
UniProt A0A0G2K5C0_RAT UniProtKB/TrEMBL
  D3ZXQ2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-02 Camsap3  calmodulin regulated spectrin-associated protein family, member 3  LOC689074  similar to Protein KIAA1543  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-06-15 LOC689074  similar to Protein KIAA1543  LOC682941  similar to Protein KIAA1543  Data Merged 1643240 APPROVED
2009-06-15 LOC689074  similar to Protein KIAA1543  RGD1307246  similar to CG33130-PA   Data Merged 1643240 APPROVED
2008-04-30 RGD1307246  similar to CG33130-PA   RGD1307246_predicted  similar to CG33130-PA (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-20 LOC689074  similar to Protein KIAA1543      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC682941  similar to Protein KIAA1543      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1307246_predicted  similar to CG33130-PA (predicted)  LOC288373_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC288373_predicted  similar to CG33130-PA (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL