Ct55l1 (cancer/testis antigen 55 like 1) - Rat Genome Database

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Gene: Ct55l1 (cancer/testis antigen 55 like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Ct55l1 (Ensembl: LOC100360296)
Name: cancer/testis antigen 55 like 1 (Ensembl:BRCA2-interacting protein-like)
RGD ID: 2322455
Description: Predicted to be located in cytoplasm. Human ortholog(s) of this gene implicated in spermatogenic failure. Orthologous to human CT55 (cancer/testis antigen 55).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: BRCA2-interacting protein-like; cancer/testis antigen 55-like; LOC100360296; LOC317624; RGD1559599; similar to chromosome X open reading frame 48; similar to Protein CXorf48 (Tumor antigen BJ-HCC-20)
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X138,777,117 - 138,788,585 (+)NCBIGRCr8
mRatBN7.2X133,754,358 - 133,765,931 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX133,631,948 - 133,643,904 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X73,288,755 - 73,360,235 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX73,288,728 - 73,360,204 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X74,110,553 - 74,182,730 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X140,696,212 - 140,719,265 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX68,614,020 - 68,629,349 (+)NCBICelera
Cytogenetic MapXq36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Genomics

Variants

.
Variants in Ct55l1
6 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX112934952138400867Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat

Markers in Region
BE114401  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X133,765,578 - 133,765,774 (-)MAPPERmRatBN7.2
mRatBN7.2X133,675,360 - 133,675,556 (+)MAPPERmRatBN7.2
mRatBN7.2X133,815,186 - 133,815,382 (-)MAPPERmRatBN7.2
Rnor_6.0X73,288,800 - 73,288,995NCBIRnor6.0
Rnor_6.0X73,305,414 - 73,305,609NCBIRnor6.0
Rnor_5.0X74,127,925 - 74,128,120UniSTSRnor5.0
Rnor_5.0X74,110,592 - 74,110,787UniSTSRnor5.0
CeleraX68,629,037 - 68,629,232UniSTS
CeleraX68,498,065 - 68,498,260UniSTS
RH 3.4 MapX949.11UniSTS
Cytogenetic MapXq36UniSTS


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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system appendage
High
Medium 7
Low 9
Below cutoff 1 5 3 3 3 6 6 2 7 3 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000091278   ⟹   ENSRNOP00000074922
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX133,631,948 - 133,643,904 (-)Ensembl
Rnor_6.0 EnsemblX73,288,728 - 73,360,204 (-)Ensembl
RefSeq Acc Id: XM_008773323   ⟹   XP_008771545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X138,777,117 - 138,788,585 (+)NCBI
mRatBN7.2X133,754,358 - 133,765,813 (+)NCBI
Rnor_6.0X73,288,755 - 73,360,235 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039100385   ⟹   XP_038956313
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X138,777,117 - 138,788,585 (+)NCBI
mRatBN7.2X133,754,358 - 133,765,931 (+)NCBI
RefSeq Acc Id: XM_039100386   ⟹   XP_038956314
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X138,777,117 - 138,788,585 (+)NCBI
mRatBN7.2X133,754,358 - 133,765,688 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008771545 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956313 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956314 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000089304.1
  ENSRNOP00000095355.1
Reference Protein Sequences
RefSeq Acc Id: XP_008771545   ⟸   XM_008773323
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AQ28 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074922   ⟸   ENSRNOT00000091278
RefSeq Acc Id: XP_038956313   ⟸   XM_039100385
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038956314   ⟸   XM_039100386
- Peptide Label: isoform X3
- UniProtKB: A0A8I6ACE4 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K9A4-F1-model_v2 AlphaFold A0A0G2K9A4 1-239 view protein structure

Transcriptome

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

Promoters
RGD ID:13701887
Promoter ID:EPDNEW_R12410
Type:single initiation site
Name:LOC100360296_1
Description:BRCA2-interacting protein-like
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_6.0X73,360,171 - 73,360,231EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2322455 AgrOrtholog
BioCyc Gene G2FUF-946 BioCyc
Ensembl Genes ENSRNOG00000061094 Ensembl
  ENSRNOG00000064144 UniProtKB/TrEMBL
  ENSRNOG00000070796 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000107596.1 UniProtKB/TrEMBL
  ENSRNOT00000109926.1 UniProtKB/TrEMBL
NCBI Gene 100360296 ENTREZGENE
PANTHER CANCER/TESTIS ANTIGEN 55 UniProtKB/TrEMBL
  CANCER_TESTIS ANTIGEN 55-LIKE-RELATED UniProtKB/TrEMBL
PhenoGen Ct55l1 PhenoGen
RatGTEx ENSRNOG00000061094 RatGTEx
  ENSRNOG00000064144 RatGTEx
  ENSRNOG00000070796 RatGTEx
UniProt A0A8I6ACE4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AQ28 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Ct55l1  cancer/testis antigen 55 like 1  LOC100360296  BRCA2-interacting protein-like  Symbol and Name Changed 1299863 APPROVED
2015-07-29 LOC100360296  BRCA2-interacting protein-like  RGD1559599  similar to chromosome X open reading frame 48  Data merged from RGD:1559599 737654 PROVISIONAL
2013-05-24 RGD1559599  similar to chromosome X open reading frame 48  LOC688227  similar to Protein CXorf48 (Tumor antigen BJ-HCC-20)  Data merged from RGD:1591198 1643240 APPROVED
2010-05-06 LOC100360296  BRCA2-interacting protein-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1559599  similar to chromosome X open reading frame 48   RGD1559599_predicted  similar to chromosome X open reading frame 48 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-20 LOC688227  similar to Protein CXorf48 (Tumor antigen BJ-HCC-20)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1559599_predicted  similar to chromosome X open reading frame 48 (predicted)  LOC317624  similar to chromosome X open reading frame 48  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317624  similar to chromosome X open reading frame 48      Symbol and Name status set to provisional 70820 PROVISIONAL