Csn1s2b (casein alpha s2-like B) - Rat Genome Database

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Gene: Csn1s2b (casein alpha s2-like B) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Csn1s2b
Name: casein alpha s2-like B
RGD ID: 628794
Description: Predicted to enable protein homodimerization activity and zymogen binding activity. Predicted to be located in extracellular region. Predicted to be active in extracellular space; INTERACTS WITH 6-propyl-2-thiouracil; amitrole; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha-S2-casein-like B; casein delta; Csnd; delta-casein
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81420,529,498 - 20,545,618 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1420,529,498 - 20,545,749 (-)EnsemblGRCr8
mRatBN7.21420,250,257 - 20,266,377 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1420,250,257 - 20,264,609 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1420,180,329 - 20,196,445 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01421,499,215 - 21,515,331 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01420,230,035 - 20,252,573 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01421,899,954 - 21,916,068 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1421,899,954 - 21,914,300 (-)Ensemblrn6Rnor6.0
Rnor_5.01421,815,030 - 21,831,138 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41421,773,271 - 21,790,743 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1419,653,029 - 19,668,974 (-)NCBICelera
RGSC_v3.11421,773,270 - 21,790,743 (-)NCBI
Cytogenetic Map14p21NCBI
JBrowse:




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

Cellular Component

Molecular Function

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Multispecies comparative analysis of a mammalian-specific genomic domain encoding secretory proteins. Rijnkels M, etal., Genomics 2003 Oct;82(4):417-32.

Genomics

Variants

.
Variants in Csn1s2b
96 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:89
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000060280
Prediction methods:Microtar, Miranda, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14395787821572472Rat
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141787564536079022Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141133490630674469Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141133471628389666Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14395787831121464Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141891545442433608Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14395787824886169Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141790672654251504Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14131893212Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141513759431238250Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
1 6 4 3 3 5 3 6 1 20 3

Sequence


Ensembl Acc Id: ENSRNOT00000087672   ⟹   ENSRNOP00000068969
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1420,529,498 - 20,543,850 (-)Ensembl
mRatBN7.2 Ensembl1420,250,257 - 20,264,609 (-)Ensembl
Rnor_6.0 Ensembl1421,901,441 - 21,914,300 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000088024   ⟹   ENSRNOP00000074666
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1420,529,498 - 20,543,850 (-)Ensembl
mRatBN7.2 Ensembl1420,250,257 - 20,264,609 (-)Ensembl
Rnor_6.0 Ensembl1421,899,954 - 21,909,646 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000143958   ⟹   ENSRNOP00000102145
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1420,529,498 - 20,543,850 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000160686   ⟹   ENSRNOP00000111249
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1420,529,498 - 20,545,749 (-)Ensembl
RefSeq Acc Id: NM_173106   ⟹   NP_775129
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81420,529,498 - 20,545,618 (-)NCBI
mRatBN7.21420,250,257 - 20,266,377 (-)NCBI
Rnor_6.01421,899,954 - 21,916,068 (-)NCBI
Rnor_5.01421,815,030 - 21,831,138 (-)NCBI
RGSC_v3.41421,773,271 - 21,790,743 (-)RGD
Celera1419,653,029 - 19,668,974 (-)RGD
Sequence:
RefSeq Acc Id: XM_063272888   ⟹   XP_063128958
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81420,529,498 - 20,543,864 (-)NCBI
Protein Sequences
Protein RefSeqs NP_775129 (Get FASTA)   NCBI Sequence Viewer  
  XP_063128958 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAN85582 (Get FASTA)   NCBI Sequence Viewer  
  EDL83146 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000102145
  ENSRNOP00000111249
GenBank Protein Q8CGR3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_775129   ⟸   NM_173106
- Peptide Label: precursor
- UniProtKB: Q8CGR3 (UniProtKB/Swiss-Prot),   A6KU18 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000068969   ⟸   ENSRNOT00000087672
Ensembl Acc Id: ENSRNOP00000074666   ⟸   ENSRNOT00000088024
RefSeq Acc Id: XP_063128958   ⟸   XM_063272888
- Peptide Label: isoform X1
- UniProtKB: Q8CGR3 (UniProtKB/Swiss-Prot),   A6KU18 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000111249   ⟸   ENSRNOT00000160686
Ensembl Acc Id: ENSRNOP00000102145   ⟸   ENSRNOT00000143958

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CGR3-F1-model_v2 AlphaFold Q8CGR3 1-169 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:628794 AgrOrtholog
BioCyc Gene G2FUF-16132 BioCyc
Ensembl Genes ENSRNOG00000055083 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000143958 ENTREZGENE
  ENSRNOT00000160686 ENTREZGENE
InterPro Alpha-s2_casein UniProtKB/Swiss-Prot
  Casein UniProtKB/Swiss-Prot
  Casein_CS UniProtKB/Swiss-Prot
KEGG Report rno:286759 UniProtKB/Swiss-Prot
NCBI Gene 286759 ENTREZGENE
PANTHER ALPHA-S2-CASEIN-LIKE B UniProtKB/Swiss-Prot
  PTHR16656 UniProtKB/Swiss-Prot
Pfam Casein UniProtKB/Swiss-Prot
PhenoGen Csn1s2b PhenoGen
PIRSF Alpha-s2-casein UniProtKB/Swiss-Prot
PROSITE CASEIN_ALPHA_BETA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000055083 RatGTEx
UniProt A0A0G2JU53_RAT UniProtKB/TrEMBL
  A0A0G2K8M6_RAT UniProtKB/TrEMBL
  A0ABK0LFG3_RAT UniProtKB/TrEMBL
  A0ABK0LZK1_RAT UniProtKB/TrEMBL
  A6KU18 ENTREZGENE, UniProtKB/TrEMBL
  CS2LB_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-25 Csn1s2b  casein alpha s2-like B  Csnd  casein delta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Csnd  casein delta      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 Csnd  casein delta      Symbol and Name status set to provisional 70820 PROVISIONAL