Cldnd1 (claudin domain containing 1) - Rat Genome Database

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Gene: Cldnd1 (claudin domain containing 1) Rattus norvegicus
Analyze
Symbol: Cldnd1
Name: claudin domain containing 1
RGD ID: 1359273
Description: Predicted to be located in apical plasma membrane. Orthologous to human CLDND1 (claudin domain containing 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: claudin domain-containing protein 1; MGC94479; similar to Protein C3orf4 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21141,883,120 - 41,889,471 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1141,883,134 - 41,889,354 (-)Ensembl
Rnor_6.01143,986,352 - 43,992,703 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1143,986,386 - 43,992,598 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01147,176,044 - 47,182,452 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41142,694,705 - 42,700,946 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11142,752,295 - 42,758,535 (-)NCBI
Celera1141,682,496 - 41,688,847 (-)NCBICelera
Cytogenetic Map11q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. null JRS Domain-based curation
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:19581412   PMID:21276448   PMID:22871113   PMID:29530526  


Genomics

Comparative Map Data
Cldnd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21141,883,120 - 41,889,471 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1141,883,134 - 41,889,354 (-)Ensembl
Rnor_6.01143,986,352 - 43,992,703 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1143,986,386 - 43,992,598 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01147,176,044 - 47,182,452 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41142,694,705 - 42,700,946 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11142,752,295 - 42,758,535 (-)NCBI
Celera1141,682,496 - 41,688,847 (-)NCBICelera
Cytogenetic Map11q12NCBI
CLDND1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38398,515,483 - 98,522,902 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl398,497,912 - 98,523,066 (-)EnsemblGRCh38hg38GRCh38
GRCh37398,234,327 - 98,241,746 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36399,717,007 - 99,724,600 (-)NCBINCBI36hg18NCBI36
Build 34399,717,016 - 99,724,048NCBI
Celera396,625,975 - 96,633,568 (-)NCBI
Cytogenetic Map3q11.2NCBI
HuRef395,606,453 - 95,614,046 (-)NCBIHuRef
CHM1_1398,197,474 - 98,205,067 (-)NCBICHM1_1
T2T-CHM13v2.03101,219,167 - 101,226,586 (-)NCBI
Cldnd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391658,548,269 - 58,554,610 (+)NCBIGRCm39mm39
GRCm39 Ensembl1658,548,273 - 58,554,614 (+)Ensembl
GRCm381658,727,910 - 58,734,247 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1658,727,910 - 58,734,251 (+)EnsemblGRCm38mm10GRCm38
MGSCv371658,728,157 - 58,734,350 (+)NCBIGRCm37mm9NCBIm37
MGSCv361658,670,587 - 58,676,780 (+)NCBImm8
Celera1659,018,687 - 59,024,882 (+)NCBICelera
Cytogenetic Map16C1.2NCBI
Cldnd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955427101,159 - 108,183 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955427101,159 - 108,655 (-)NCBIChiLan1.0ChiLan1.0
CLDND1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13102,285,782 - 102,302,395 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3102,280,672 - 102,302,184 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0395,611,469 - 95,619,065 (-)NCBIMhudiblu_PPA_v0panPan3
CLDND1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1335,379,480 - 5,387,254 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl335,378,037 - 5,387,321 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha335,530,245 - 5,538,012 (-)NCBI
ROS_Cfam_1.0335,518,875 - 5,526,645 (-)NCBI
ROS_Cfam_1.0 Ensembl335,504,139 - 5,526,712 (-)Ensembl
UMICH_Zoey_3.1335,396,462 - 5,404,181 (-)NCBI
UNSW_CanFamBas_1.0335,459,882 - 5,467,573 (-)NCBI
UU_Cfam_GSD_1.0335,736,591 - 5,744,356 (-)NCBI
Cldnd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494621,215,386 - 21,217,647 (-)NCBI
SpeTri2.0NW_00493719292,813 - 94,438 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLDND1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13160,397,511 - 160,425,722 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113160,397,444 - 160,405,675 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213170,586,984 - 170,595,207 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLDND1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12282,324,571 - 82,332,143 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2282,324,650 - 82,333,261 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604184,222,095 - 84,264,989 (-)NCBIVero_WHO_p1.0
Cldnd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478911,384,535 - 11,393,103 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462478911,382,835 - 11,391,324 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH125651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21141,883,154 - 41,883,400 (+)MAPPERmRatBN7.2
Rnor_6.01143,986,387 - 43,986,632NCBIRnor6.0
Rnor_5.01147,176,079 - 47,176,324UniSTSRnor5.0
RGSC_v3.41142,694,735 - 42,694,980UniSTSRGSC3.4
Celera1141,682,531 - 41,682,776UniSTS
Cytogenetic Map11q12UniSTS
AI849195  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21141,884,220 - 41,884,309 (+)MAPPERmRatBN7.2
Rnor_6.01143,987,453 - 43,987,541NCBIRnor6.0
Rnor_5.01147,177,145 - 47,177,233UniSTSRnor5.0
RGSC_v3.41142,695,801 - 42,695,889UniSTSRGSC3.4
Celera1141,683,597 - 41,683,685UniSTS
Cytogenetic Map11q12UniSTS
AW489850  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21141,884,220 - 41,884,341 (+)MAPPERmRatBN7.2
Rnor_6.01143,987,453 - 43,987,573NCBIRnor6.0
Rnor_5.01147,177,145 - 47,177,265UniSTSRnor5.0
RGSC_v3.41142,695,801 - 42,695,921UniSTSRGSC3.4
Celera1141,683,597 - 41,683,717UniSTS
Cytogenetic Map11q12UniSTS
AA945780  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21141,883,390 - 41,883,526 (+)MAPPERmRatBN7.2
Rnor_6.01143,986,623 - 43,986,758NCBIRnor6.0
Rnor_5.01147,176,315 - 47,176,450UniSTSRnor5.0
RGSC_v3.41142,694,971 - 42,695,106UniSTSRGSC3.4
Celera1141,682,767 - 41,682,902UniSTS
RH 3.4 Map11307.0UniSTS
Cytogenetic Map11q12UniSTS
RH124562  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21141,883,309 - 41,883,468 (+)MAPPERmRatBN7.2
Rnor_6.01143,986,542 - 43,986,700NCBIRnor6.0
Rnor_5.01147,176,234 - 47,176,392UniSTSRnor5.0
RGSC_v3.41142,694,890 - 42,695,048UniSTSRGSC3.4
Celera1141,682,686 - 41,682,844UniSTS
Cytogenetic Map11q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:682
Count of miRNA genes:263
Interacting mature miRNAs:331
Transcripts:ENSRNOT00000002260
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 3 36 57 41 19 41 8 11 74 35 41 11 8
Low 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002260   ⟹   ENSRNOP00000002260
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1141,883,134 - 41,889,354 (-)Ensembl
Rnor_6.0 Ensembl1143,986,386 - 43,992,598 (-)Ensembl
RefSeq Acc Id: NM_001006955   ⟹   NP_001006956
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21141,883,120 - 41,889,471 (-)NCBI
Rnor_6.01143,986,352 - 43,992,703 (-)NCBI
Rnor_5.01147,176,044 - 47,182,452 (-)NCBI
RGSC_v3.41142,694,705 - 42,700,946 (-)RGD
Celera1141,682,496 - 41,688,847 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248204   ⟹   XP_006248266
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21141,883,120 - 41,889,402 (-)NCBI
Rnor_6.01143,986,352 - 43,992,626 (-)NCBI
Rnor_5.01147,176,044 - 47,182,452 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006248206   ⟹   XP_006248268
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21141,883,120 - 41,889,355 (-)NCBI
Rnor_6.01143,986,352 - 43,992,605 (-)NCBI
Rnor_5.01147,176,044 - 47,182,452 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001006956   ⟸   NM_001006955
- UniProtKB: G3V674 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248266   ⟸   XM_006248204
- Peptide Label: isoform X1
- UniProtKB: G3V674 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248268   ⟸   XM_006248206
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000002260   ⟸   ENSRNOT00000002260

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V674-F1-model_v2 AlphaFold G3V674 1-253 view protein structure

Transcriptome

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

Promoters
RGD ID:13698104
Promoter ID:EPDNEW_R8629
Type:multiple initiation site
Name:Cldnd1_1
Description:claudin domain containing 1
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_6.01143,992,565 - 43,992,625EPDNEW

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)
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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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359273 AgrOrtholog
BioCyc Gene G2FUF-21572 BioCyc
Ensembl Genes ENSRNOG00000001657 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002260 ENTREZGENE
  ENSRNOP00000002260.3 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002260 ENTREZGENE
  ENSRNOT00000002260.5 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135100 IMAGE-MGC_LOAD
InterPro CLDN1 UniProtKB/TrEMBL
  PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
KEGG Report rno:288182 UniProtKB/TrEMBL
MGC_CLONE MGC:94479 IMAGE-MGC_LOAD
NCBI Gene 288182 ENTREZGENE
PANTHER PTHR14347 UniProtKB/TrEMBL
Pfam Claudin_2 UniProtKB/TrEMBL
PhenoGen Cldnd1 PhenoGen
UniProt G3V674 ENTREZGENE, UniProtKB/TrEMBL
  Q5XIN0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Cldnd1  claudin domain containing 1  MGC94479  similar to Protein C3orf4 homolog  Symbol and Name updated 1299863 APPROVED
2005-07-29 MGC94479  similar to Protein C3orf4 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL