CA5BP1 (carbonic anhydrase 5B pseudogene 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 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   new 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
Gene: CA5BP1 (carbonic anhydrase 5B pseudogene 1) Homo sapiens
Analyze
Symbol: CA5BP1
Name: carbonic anhydrase 5B pseudogene 1
RGD ID: 1346033
HGNC Page HGNC:29544
Description: Predicted to enable carbonate dehydratase activity. Predicted to be involved in one-carbon metabolic process. Predicted to be active in mitochondrion; INTERACTS WITH acetylsalicylic acid; aflatoxin B1; Aflatoxin B2 alpha.
Type: pseudo (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: CA5BL; CA5BP; carbonic anhydrase VB pseudogene 1; PRO2325
Related Functional Gene: CA5B  
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X15,674,916 - 15,703,721 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX15,681,053 - 15,703,192 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 EnsemblX15,674,932 - 15,703,724 (+)EnsemblGRCh38hg38GRCh38
GRCh37X15,693,039 - 15,721,844 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X15,602,213 - 15,631,236 (+)NCBINCBI36Build 36hg18NCBI36
CeleraX19,808,527 - 19,836,963 (+)NCBICelera
Cytogenetic MapXp22.2NCBI
HuRefX13,447,987 - 13,476,385 (+)NCBIHuRef
CHM1_1X15,724,004 - 15,752,439 (+)NCBICHM1_1
T2T-CHM13v2.0X15,257,858 - 15,286,673 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)
mitochondrion  (IBA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. 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:12107413   PMID:14702039   PMID:16344560   PMID:21873635  


Genomics

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1388
Count of miRNA genes:780
Interacting mature miRNAs:900
Transcripts:ENST00000380331, ENST00000380333, ENST00000380334, ENST00000380336, ENST00000435806, ENST00000448692
Prediction methods:Microtar, Miranda, Pita, Rnahybrid
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.

Markers in Region
G31008  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37X15,706,784 - 15,706,914UniSTSGRCh37
GRCh37X15,782,701 - 15,782,831UniSTSGRCh37
Build 36X15,616,705 - 15,616,835RGDNCBI36
CeleraX19,822,272 - 19,822,402RGD
CeleraX19,900,186 - 19,900,316UniSTS
Cytogenetic MapXp21.1UniSTS
Cytogenetic MapXp22.2UniSTS
HuRefX13,461,775 - 13,461,905UniSTS
HuRefX13,536,168 - 13,536,298UniSTS
RH103251  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37X15,719,176 - 15,719,298UniSTSGRCh37
Build 36X15,629,097 - 15,629,219RGDNCBI36
CeleraX19,834,665 - 19,834,787RGD
Cytogenetic MapXp22.2UniSTS
HuRefX13,474,087 - 13,474,209UniSTS
GeneMap99-GB4 RH MapX88.99UniSTS
G63217  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37X15,694,200 - 15,694,470UniSTSGRCh37
Build 36X15,604,121 - 15,604,391RGDNCBI36
CeleraX19,809,688 - 19,809,958RGD
Cytogenetic MapXp22.2UniSTS
HuRefX13,449,355 - 13,449,625UniSTS
TNG Radiation Hybrid MapX4495.0UniSTS
TNG Radiation Hybrid MapX4490.0UniSTS
RH78665  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37X15,721,052 - 15,721,174UniSTSGRCh37
Build 36X15,630,973 - 15,631,095RGDNCBI36
CeleraX19,836,541 - 19,836,663RGD
Cytogenetic MapXp22.2UniSTS
HuRefX13,475,963 - 13,476,085UniSTS
GeneMap99-GB4 RH MapX90.7UniSTS
NCBI RH MapX10.0UniSTS


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 sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 183 22 142 55 324 58 281 55 167 166 413 355 8 8 19
Low 2256 2945 1584 569 1613 407 4076 2132 3567 253 1047 1258 166 1 1196 2769 6 2
Below cutoff 24 14 10

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000380331
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 EnsemblX15,676,294 - 15,697,460 (+)Ensembl
RefSeq Acc Id: ENST00000380333
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 EnsemblX15,675,715 - 15,703,349 (+)Ensembl
RefSeq Acc Id: ENST00000380334
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 EnsemblX15,675,546 - 15,703,724 (+)Ensembl
RefSeq Acc Id: ENST00000380336
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 EnsemblX15,674,932 - 15,697,751 (+)Ensembl
RefSeq Acc Id: ENST00000435806
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 EnsemblX15,681,053 - 15,703,192 (+)Ensembl
RefSeq Acc Id: ENST00000448692
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 EnsemblX15,674,973 - 15,691,241 (+)Ensembl
RefSeq Acc Id: NR_026551
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38X15,674,916 - 15,703,721 (+)NCBI
GRCh37X15,693,039 - 15,721,474 (+)RGD
CeleraX19,808,527 - 19,836,963 (+)RGD
HuRefX13,447,987 - 13,476,385 (+)RGD
CHM1_1X15,724,004 - 15,752,439 (+)NCBI
T2T-CHM13v2.0X15,257,858 - 15,286,673 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160541
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38X15,674,916 - 15,698,082 (+)NCBI
T2T-CHM13v2.0X15,257,858 - 15,281,038 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160542
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38X15,675,458 - 15,698,082 (+)NCBI
T2T-CHM13v2.0X15,258,418 - 15,281,038 (+)NCBI
Sequence:
RefSeq Acc Id: NR_160543
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38X15,675,458 - 15,698,082 (+)NCBI
T2T-CHM13v2.0X15,258,418 - 15,281,038 (+)NCBI
Sequence:
Protein Sequences
GenBank Protein Q8WTZ4 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8WTZ4-F1-model_v2 AlphaFold Q8WTZ4 1-195 view protein structure

Promoters
RGD ID:6808786
Promoter ID:HG_KWN:66083
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell_12Hour,   K562,   Lymphoblastoid
Transcripts:ENST00000380336,   NR_026551,   OTTHUMT00000055881
Position:
Human AssemblyChrPosition (strand)Source
Build 36X15,602,774 - 15,603,274 (+)MPROMDB
RGD ID:6808777
Promoter ID:HG_KWN:66084
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:ENST00000380333,   ENST00000380334
Position:
Human AssemblyChrPosition (strand)Source
Build 36X15,602,931 - 15,603,792 (+)MPROMDB
RGD ID:6808768
Promoter ID:HG_KWN:66085
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   K562
Transcripts:ENST00000380331
Position:
Human AssemblyChrPosition (strand)Source
Build 36X15,603,229 - 15,603,729 (+)MPROMDB
RGD ID:6808776
Promoter ID:HG_KWN:66087
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:K562
Transcripts:ENST00000334569,   UC004CXD.1
Position:
Human AssemblyChrPosition (strand)Source
Build 36X15,628,581 - 15,629,081 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
COSMIC CA5BP1 COSMIC
Ensembl Genes ENSG00000186312 Ensembl
  ENSG00000290746 Ensembl
Gene3D-CATH 3.10.200.10 UniProtKB/Swiss-Prot
GTEx ENSG00000186312 GTEx
  ENSG00000290746 GTEx
HGNC ID HGNC:29544 ENTREZGENE
Human Proteome Map CA5BP1 Human Proteome Map
InterPro CA_dom UniProtKB/Swiss-Prot
  CA_dom_sf UniProtKB/Swiss-Prot
NCBI Gene 340591 ENTREZGENE
Pfam Carb_anhydrase UniProtKB/Swiss-Prot
PharmGKB PA134953520 PharmGKB
Superfamily-SCOP SSF51069 UniProtKB/Swiss-Prot
UniProt CA5BL_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A6NEZ4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-28 CA5BP1  carbonic anhydrase 5B pseudogene 1    carbonic anhydrase VB pseudogene 1  Symbol and/or name change 5135510 APPROVED
2011-07-27 CA5BP1  carbonic anhydrase VB pseudogene 1  CA5BP  carbonic anhydrase VB pseudogene  Symbol and/or name change 5135510 APPROVED