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

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
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. Predicted to act upstream of or within hematopoietic stem cell homeostasis. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Orthologous to human CRISPLD1 (cysteine rich secretory protein LCCL domain containing 1); INTERACTS WITH 6-propyl-2-thiouracil; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr856,050,970 - 6,098,265 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl56,051,891 - 6,098,265 (-)EnsemblGRCr8
mRatBN7.251,267,347 - 1,314,926 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl51,274,647 - 1,314,926 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx53,391,366 - 3,431,657 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.055,030,247 - 5,070,534 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.054,716,685 - 4,757,020 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05663,750 - 711,033 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5670,754 - 711,033 (-)Ensemblrn6Rnor6.0
Rnor_5.05665,941 - 706,220 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45343,493 - 383,772 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5918,823 - 959,103 (-)NCBICelera
Cytogenetic Map5q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
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
GRCr856,050,970 - 6,098,265 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl56,051,891 - 6,098,265 (-)EnsemblGRCr8
mRatBN7.251,267,347 - 1,314,926 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl51,274,647 - 1,314,926 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx53,391,366 - 3,431,657 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.055,030,247 - 5,070,534 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.054,716,685 - 4,757,020 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05663,750 - 711,033 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5670,754 - 711,033 (-)Ensemblrn6Rnor6.0
Rnor_5.05665,941 - 706,220 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45343,493 - 383,772 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5918,823 - 959,103 (-)NCBICelera
Cytogenetic Map5q11NCBI
CRISPLD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38874,984,505 - 75,034,558 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl874,984,502 - 75,034,558 (+)Ensemblhg38GRCh38
GRCh37875,896,740 - 75,946,793 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36876,059,531 - 76,109,348 (+)NCBIBuild 36Build 36hg18NCBI36
Celera871,891,960 - 71,942,045 (+)NCBICelera
Cytogenetic Map8q21.13NCBI
HuRef871,385,701 - 71,435,787 (+)NCBIHuRef
CHM1_1875,948,305 - 75,998,390 (+)NCBICHM1_1
T2T-CHM13v2.0875,414,017 - 75,464,071 (+)NCBIT2T-CHM13v2.0
Crispld1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39117,797,276 - 17,840,350 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl117,797,269 - 17,836,568 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38117,727,029 - 17,767,235 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl117,727,045 - 17,766,344 (+)Ensemblmm10GRCm38
MGSCv37117,717,498 - 17,756,288 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36117,712,636 - 17,749,962 (+)NCBIMGSCv36mm8
Celera117,639,320 - 17,678,082 (+)NCBICelera
Cytogenetic Map1A3NCBI
cM Map15.32NCBI
Crispld1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554445,494,540 - 5,537,887 (-)Ensembl
ChiLan1.0NW_0049554445,495,253 - 5,536,277 (-)NCBIChiLan1.0ChiLan1.0
CRISPLD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2790,725,528 - 90,780,206 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1866,353,210 - 66,403,303 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0871,516,510 - 71,566,266 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1873,160,653 - 73,210,388 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl873,160,442 - 73,210,388 (+)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2923,616,775 - 23,662,427 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02923,461,848 - 23,509,733 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2923,461,535 - 23,507,954 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12923,520,404 - 23,568,335 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02923,555,953 - 23,603,710 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02923,907,355 - 23,955,156 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
LOC101971898
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945146,117,448 - 146,158,203 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493720759,248 - 100,088 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CRISPLD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl460,948,335 - 60,998,368 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1460,948,326 - 60,998,364 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2466,612,154 - 66,662,096 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CRISPLD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1870,543,446 - 70,590,649 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603970,774,418 - 70,820,357 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Crispld1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474416,180,413 - 16,223,321 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474416,180,504 - 16,223,362 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Crispld1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11151,278,641 - 151,315,955 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Crispld1
249 total Variants
miRNA Target Status (No longer updated)

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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)519895442Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
8 12 65 165 84 83 52 22 52 6 268 120 11 142 80 89 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000024199   ⟹   ENSRNOP00000024199
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl56,057,986 - 6,098,265 (-)Ensembl
mRatBN7.2 Ensembl51,274,647 - 1,314,926 (-)Ensembl
Rnor_6.0 Ensembl5670,754 - 711,033 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000134665   ⟹   ENSRNOP00000108783
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl56,051,891 - 6,098,265 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000165344   ⟹   ENSRNOP00000102992
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl56,059,192 - 6,098,265 (-)Ensembl
RefSeq Acc Id: NM_001134963   ⟹   NP_001128435
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr856,057,986 - 6,098,265 (-)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr856,050,970 - 6,098,028 (-)NCBI
mRatBN7.251,267,348 - 1,314,695 (-)NCBI
Rnor_6.05663,750 - 710,717 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039110140   ⟹   XP_038966068
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr856,050,970 - 6,098,029 (-)NCBI
mRatBN7.251,267,347 - 1,314,696 (-)NCBI
RefSeq Acc Id: XM_063287849   ⟹   XP_063143919
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr856,053,532 - 6,080,386 (-)NCBI
RefSeq Acc Id: NP_001128435   ⟸   NM_001134963
- UniProtKB: B5DFM5 (UniProtKB/TrEMBL),   F7EU15 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761699   ⟸   XM_008763477
- Peptide Label: isoform X1
- UniProtKB: B5DFM5 (UniProtKB/TrEMBL),   F7EU15 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000024199   ⟸   ENSRNOT00000024199
RefSeq Acc Id: XP_038966068   ⟸   XM_039110140
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063143919   ⟸   XM_063287849
- Peptide Label: isoform X3
Ensembl Acc Id: ENSRNOP00000102992   ⟸   ENSRNOT00000165344
Ensembl Acc Id: ENSRNOP00000108783   ⟸   ENSRNOT00000134665
Protein Domains
LCCL

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DFM5-F1-model_v2 AlphaFold B5DFM5 1-500 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564813 AgrOrtholog
BioCyc Gene G2FUF-42330 BioCyc
Ensembl Genes ENSRNOG00000017773 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024199 ENTREZGENE
  ENSRNOT00000024199.7 UniProtKB/TrEMBL
  ENSRNOT00000134665 ENTREZGENE
  ENSRNOT00000134665.1 UniProtKB/TrEMBL
  ENSRNOT00000165344.1 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
  CRISP-LCCL_domain 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 LCCL DOMAIN PROTEIN (AFU_ORTHOLOGUE AFUA_5G08630) UniProtKB/TrEMBL
  LCCL DOMAIN PROTEIN (AFU_ORTHOLOGUE AFUA_5G08630) UniProtKB/TrEMBL
Pfam LCCL UniProtKB/TrEMBL
  SCP UniProtKB/TrEMBL
PhenoGen Crispld1 PhenoGen
PRINTS V5TPXLIKE UniProtKB/TrEMBL
PROSITE CRISP_2 UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017773 RatGTEx
SMART LCCL UniProtKB/TrEMBL
  SCP UniProtKB/TrEMBL
Superfamily-SCOP LCCL UniProtKB/TrEMBL
  SCP-like_extracellular UniProtKB/TrEMBL
UniProt A0ABK0LDE6_RAT UniProtKB/TrEMBL
  A0ABK0LM27_RAT UniProtKB/TrEMBL
  B5DFM5 ENTREZGENE, UniProtKB/TrEMBL
  F7EU15 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