Crispld1 (cysteine-rich secretory protein LCCL domain containing 1) - Rat Genome Database

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Gene: Crispld1 (cysteine-rich secretory protein LCCL domain containing 1) Rattus norvegicus
Analyze
Symbol: Crispld1
Name: cysteine-rich secretory protein LCCL domain containing 1
RGD ID: 1564813
Description: Predicted to be involved in face morphogenesis and hematopoietic stem cell homeostasis. Predicted to localize to extracellular space. Orthologous to human CRISPLD1 (cysteine rich secretory protein LCCL domain containing 1); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; cocaine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cocoacrisp; cysteine-rich secretory protein LCCL domain-containing 1; LOC316482; MGC189557; RGD1564813; similar to Cocoacrisp protein
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
mRatBN7.251,267,347 - 1,314,926 (-)NCBI
Rnor_6.0 Ensembl5670,754 - 711,033 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05663,750 - 711,033 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05665,941 - 706,220 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45343,493 - 383,772 (-)NCBIRGSC3.4rn4RGSC3.4
Celera5918,823 - 959,103 (-)NCBICelera
Cytogenetic Map5q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

Additional References at PubMed
PMID:12477932   PMID:19199708   PMID:19552621   PMID:21254358   PMID:23533145  


Genomics

Comparative Map Data
Crispld1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.251,267,347 - 1,314,926 (-)NCBI
Rnor_6.0 Ensembl5670,754 - 711,033 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05663,750 - 711,033 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05665,941 - 706,220 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45343,493 - 383,772 (-)NCBIRGSC3.4rn4RGSC3.4
Celera5918,823 - 959,103 (-)NCBICelera
Cytogenetic Map5q11NCBI
CRISPLD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl874,984,505 - 75,034,558 (+)EnsemblGRCh38hg38GRCh38
GRCh38874,984,505 - 75,034,558 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37875,896,740 - 75,946,793 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36876,059,531 - 76,109,348 (+)NCBINCBI36hg18NCBI36
Celera871,891,960 - 71,942,045 (+)NCBI
Cytogenetic Map8q21.13NCBI
HuRef871,385,701 - 71,435,787 (+)NCBIHuRef
CHM1_1875,948,305 - 75,998,390 (+)NCBICHM1_1
Crispld1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39117,797,255 - 17,840,350 (+)NCBIGRCm39mm39
GRCm39 Ensembl117,797,269 - 17,836,568 (+)Ensembl
GRCm38117,727,029 - 17,767,235 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl117,727,045 - 17,766,344 (+)EnsemblGRCm38mm10GRCm38
MGSCv37117,717,498 - 17,756,288 (+)NCBIGRCm37mm9NCBIm37
MGSCv36117,712,636 - 17,749,962 (+)NCBImm8
Celera117,639,320 - 17,678,082 (+)NCBICelera
Cytogenetic Map1A3NCBI
Crispld1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554445,494,540 - 5,537,887 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554445,495,253 - 5,536,277 (-)NCBIChiLan1.0ChiLan1.0
CRISPLD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1873,160,653 - 73,210,388 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl873,160,442 - 73,210,388 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0871,516,510 - 71,566,266 (+)NCBIMhudiblu_PPA_v0panPan3
CRISPLD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12923,353,872 - 23,397,768 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2923,350,781 - 23,396,682 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2923,616,775 - 23,662,427 (+)NCBI
ROS_Cfam_1.02923,461,848 - 23,509,733 (+)NCBI
UMICH_Zoey_3.12923,520,404 - 23,568,335 (+)NCBI
UNSW_CanFamBas_1.02923,555,953 - 23,603,710 (+)NCBI
UU_Cfam_GSD_1.02923,907,355 - 23,955,156 (+)NCBI
LOC101971898
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945146,117,448 - 146,158,203 (-)NCBI
SpeTri2.0NW_00493720759,248 - 100,088 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CRISPLD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl460,948,329 - 60,998,368 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1460,948,326 - 60,998,364 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2466,612,154 - 66,662,096 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CRISPLD1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1870,543,446 - 70,590,649 (+)NCBI
Crispld1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474416,180,504 - 16,223,362 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5189432042Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5193273395Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:531
Count of miRNA genes:247
Interacting mature miRNAs:310
Transcripts:ENSRNOT00000024199
Prediction methods:Microtar, Miranda, 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

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 14
Low 27 8 6 6 3 3 74 25 19 6 3
Below cutoff 14 42 28 16 28 5 8 10 5 5 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024199   ⟹   ENSRNOP00000024199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5670,754 - 711,033 (-)Ensembl
RefSeq Acc Id: NM_001134963   ⟹   NP_001128435
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.251,274,647 - 1,314,926 (-)NCBI
Rnor_6.05670,754 - 711,033 (-)NCBI
Rnor_5.05665,941 - 706,220 (-)NCBI
RGSC_v3.45343,493 - 383,772 (-)RGD
Celera5918,823 - 959,103 (-)RGD
Sequence:
RefSeq Acc Id: XM_008763477   ⟹   XP_008761699
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.251,267,348 - 1,314,695 (-)NCBI
Rnor_6.05663,750 - 710,717 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763478   ⟹   XP_008761700
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05663,750 - 710,714 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593445   ⟹   XP_017448934
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05663,750 - 693,154 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039110140   ⟹   XP_038966068
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.251,267,347 - 1,314,696 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001128435 (Get FASTA)   NCBI Sequence Viewer  
  XP_008761699 (Get FASTA)   NCBI Sequence Viewer  
  XP_038966068 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI69118 (Get FASTA)   NCBI Sequence Viewer  
  EDM11481 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001128435   ⟸   NM_001134963
- UniProtKB: B5DFM5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761699   ⟸   XM_008763477
- Peptide Label: isoform X1
- UniProtKB: B5DFM5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761700   ⟸   XM_008763478
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017448934   ⟸   XM_017593445
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000024199   ⟸   ENSRNOT00000024199
RefSeq Acc Id: XP_038966068   ⟸   XM_039110140
- Peptide Label: isoform X2
Protein Domains
LCCL

Transcriptome

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


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)
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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WKY/Gcrc (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
WKY/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
WKY/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
WKY/NHsd (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
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564813 AgrOrtholog
Ensembl Genes ENSRNOG00000017773 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024199 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024199 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.170.130.20 UniProtKB/TrEMBL
  3.40.33.10 UniProtKB/TrEMBL
InterPro Allrgn_V5/Tpx1 UniProtKB/TrEMBL
  Allrgn_V5/Tpx1_CS UniProtKB/TrEMBL
  CAP_sf UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
  LCCL_sf UniProtKB/TrEMBL
  SCP-like_extracellular UniProtKB/TrEMBL
KEGG Report rno:316482 UniProtKB/TrEMBL
NCBI Gene 316482 ENTREZGENE
PANTHER Allrgn_V5/Tpx1 UniProtKB/TrEMBL
Pfam LCCL UniProtKB/TrEMBL
  SCP UniProtKB/TrEMBL
PhenoGen Crispld1 PhenoGen
PRINTS V5TPXLIKE UniProtKB/TrEMBL
PROSITE CRISP_2 UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
SMART LCCL UniProtKB/TrEMBL
  SCP UniProtKB/TrEMBL
Superfamily-SCOP LCCL UniProtKB/TrEMBL
  SCP-like_extracellular UniProtKB/TrEMBL
UniProt B5DFM5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Crispld1  cysteine-rich secretory protein LCCL domain containing 1   Crispld1_predicted  cysteine-rich secretory protein LCCL domain containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Crispld1_predicted  cysteine-rich secretory protein LCCL domain containing 1 (predicted)  RGD1564813_predicted  similar to Cocoacrisp protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1564813_predicted  similar to Cocoacrisp protein (predicted)  LOC316482  similar to Cocoacrisp protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC316482  similar to Cocoacrisp protein      Symbol and Name status set to provisional 70820 PROVISIONAL