Tssk1b (testis-specific serine kinase 1B) - Rat Genome Database

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Gene: Tssk1b (testis-specific serine kinase 1B) Rattus norvegicus
Analyze
Symbol: Tssk1b
Name: testis-specific serine kinase 1B
RGD ID: 1307352
Description: Predicted to enable ATP binding activity; magnesium ion binding activity; and protein serine/threonine kinase activity. Predicted to be involved in spermatid development. Predicted to be located in motile cilium. Orthologous to human TSSK1B (testis specific serine kinase 1B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; copper atom.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC288358; serine/threonine kinase 22A (spermiogenesis associated); spermiogenesis associated; Stk22a; testis-specific serine kinase 1; testis-specific serine/threonine-protein kinase 1; Tssk1
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,595,216 - 96,596,639 (-)NCBIGRCr8
mRatBN7.21183,090,930 - 83,092,353 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1183,086,578 - 83,093,011 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1191,819,546 - 91,820,969 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,480,680 - 84,482,103 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01183,534,295 - 83,535,718 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01187,239,410 - 87,240,833 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1187,239,412 - 87,240,833 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01190,330,973 - 90,332,396 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,079,063 - 85,080,486 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11185,119,659 - 85,121,083 (-)NCBI
Celera1181,866,941 - 81,868,364 (-)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component
cytoplasm  (IEA)
motile cilium  (ISO)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15733851   PMID:18533145   PMID:19530700   PMID:20729278   PMID:23599433  


Genomics

Comparative Map Data
Tssk1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81196,595,216 - 96,596,639 (-)NCBIGRCr8
mRatBN7.21183,090,930 - 83,092,353 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1183,086,578 - 83,093,011 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1191,819,546 - 91,820,969 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,480,680 - 84,482,103 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01183,534,295 - 83,535,718 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01187,239,410 - 87,240,833 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1187,239,412 - 87,240,833 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01190,330,973 - 90,332,396 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,079,063 - 85,080,486 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11185,119,659 - 85,121,083 (-)NCBI
Celera1181,866,941 - 81,868,364 (-)NCBICelera
Cytogenetic Map11q23NCBI
TSSK1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385113,432,553 - 113,434,989 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5113,432,553 - 113,434,989 (-)EnsemblGRCh38hg38GRCh38
GRCh375112,768,250 - 112,770,686 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365112,796,570 - 112,798,565 (-)NCBINCBI36Build 36hg18NCBI36
Celera5108,716,065 - 108,718,542 (-)NCBICelera
Cytogenetic Map5q22.2NCBI
HuRef5107,951,168 - 107,953,645 (-)NCBIHuRef
CHM1_15112,201,716 - 112,204,193 (-)NCBICHM1_1
T2T-CHM13v2.05113,945,250 - 113,947,686 (-)NCBIT2T-CHM13v2.0
Tssk1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391617,712,067 - 17,713,517 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1617,712,087 - 17,715,786 (+)EnsemblGRCm39 Ensembl
GRCm381617,894,203 - 17,895,653 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,894,223 - 17,897,922 (+)EnsemblGRCm38mm10GRCm38
MGSCv371617,894,296 - 17,895,746 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361617,807,857 - 17,809,216 (+)NCBIMGSCv36mm8
Celera1618,467,268 - 18,468,718 (+)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1611.09NCBI
TSSK1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24108,684,587 - 108,695,058 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15106,840,770 - 106,848,713 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05108,790,115 - 108,794,426 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15114,592,477 - 114,594,528 (-)NCBIpanpan1.1PanPan1.1panPan2
TSSK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12630,050,195 - 30,051,599 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2630,009,919 - 30,011,391 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02631,457,133 - 31,458,602 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2631,457,334 - 31,458,443 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12629,505,288 - 29,506,757 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02629,129,731 - 29,131,200 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02630,217,878 - 30,219,347 (-)NCBIUU_Cfam_GSD_1.0
Tssk1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118139,629,594 - 139,633,538 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366193,123,157 - 3,124,266 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366193,121,338 - 3,124,475 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TSSK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1450,937,885 - 50,938,979 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11450,937,885 - 50,938,979 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21454,444,011 - 54,445,105 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TSSK1B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12316,721,966 - 16,724,314 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2316,722,742 - 16,723,842 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603461,709,688 - 61,712,498 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tssk1b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477110,522,506 - 10,523,615 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477110,522,357 - 10,523,770 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tssk1b
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:87
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000052200
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
2302043Pia27Pristane induced arthritis QTL 2718.60.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)118256654583440803Rat

Markers in Region
Stk22a  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,091,094 - 83,091,334 (+)MAPPERmRatBN7.2
Rnor_6.01187,239,575 - 87,239,814NCBIRnor6.0
Rnor_5.01190,331,138 - 90,331,377UniSTSRnor5.0
RGSC_v3.41185,079,228 - 85,079,467UniSTSRGSC3.4
Celera1181,867,106 - 81,867,345UniSTS
Cytogenetic Map11q23UniSTS
UniSTS:260493  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,090,999 - 83,091,478 (+)MAPPERmRatBN7.2
Rnor_6.01187,239,480 - 87,239,958NCBIRnor6.0
Rnor_5.01190,331,043 - 90,331,521UniSTSRnor5.0
RGSC_v3.41185,079,133 - 85,079,611UniSTSRGSC3.4
Celera1181,867,011 - 81,867,489UniSTS
Cytogenetic Map11q23UniSTS
Stk22a  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,091,652 - 83,092,200 (+)MAPPERmRatBN7.2
Rnor_6.01187,240,133 - 87,240,680NCBIRnor6.0
Rnor_5.01190,331,696 - 90,332,243UniSTSRnor5.0
RGSC_v3.41185,079,786 - 85,080,333UniSTSRGSC3.4
Celera1181,867,664 - 81,868,211UniSTS
Cytogenetic Map11q23UniSTS


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 appendage
High
Medium 7
Low 10 8 2 6 2 3 3 2 12 2 2 3
Below cutoff 3 31 40 30 13 30 5 8 60 23 29 9 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000052200   ⟹   ENSRNOP00000051117
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1187,239,412 - 87,240,833 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113304   ⟹   ENSRNOP00000095483
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1183,086,578 - 83,093,011 (-)Ensembl
RefSeq Acc Id: NM_001011900   ⟹   NP_001011900
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81196,595,216 - 96,596,639 (-)NCBI
mRatBN7.21183,090,930 - 83,092,353 (-)NCBI
Rnor_6.01187,239,410 - 87,240,833 (-)NCBI
Rnor_5.01190,330,973 - 90,332,396 (-)NCBI
RGSC_v3.41185,079,063 - 85,080,486 (-)RGD
Celera1181,866,941 - 81,868,364 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001011900 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83661 (Get FASTA)   NCBI Sequence Viewer  
  AAQ24208 (Get FASTA)   NCBI Sequence Viewer  
  EDL77909 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000095483
  ENSRNOP00000095483.1
Reference Protein Sequences
RefSeq Acc Id: NP_001011900   ⟸   NM_001011900
- UniProtKB: Q6V9Y2 (UniProtKB/TrEMBL),   A0A8I6AN48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051117   ⟸   ENSRNOT00000052200
RefSeq Acc Id: ENSRNOP00000095483   ⟸   ENSRNOT00000113304
Protein Domains
Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6V9Y2-F1-model_v2 AlphaFold Q6V9Y2 1-365 view protein structure

Transcriptome

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

Promoters
RGD ID:13698317
Promoter ID:EPDNEW_R8841
Type:initiation region
Name:Tssk1b_1
Description:testis-specific serine kinase 1B
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_6.01187,240,847 - 87,240,907EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307352 AgrOrtholog
BioCyc Gene G2FUF-20618 BioCyc
Ensembl Genes ENSRNOG00000032856 Ensembl
  ENSRNOG00000068894 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000113304 ENTREZGENE
  ENSRNOT00000113304.1 UniProtKB/TrEMBL
Gene3D-CATH Transferase(Phosphotransferase) domain 1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7135375 IMAGE-MGC_LOAD
InterPro Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  Ser/Thr_prot_kinase_AS UniProtKB/TrEMBL
KEGG Report rno:288358 UniProtKB/TrEMBL
MGC_CLONE MGC:94496 IMAGE-MGC_LOAD
NCBI Gene 288358 ENTREZGENE
PANTHER MAP/MICROTUBULE AFFINITY-REGULATING KINASE UniProtKB/TrEMBL
  TESTIS-SPECIFIC SERINE_THREONINE-PROTEIN KINASE 1 UniProtKB/TrEMBL
Pfam Pkinase UniProtKB/TrEMBL
PhenoGen Tssk1b PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
RatGTEx ENSRNOG00000032856 RatGTEx
  ENSRNOG00000068894 RatGTEx
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
UniProt A0A8I6AN48 ENTREZGENE, UniProtKB/TrEMBL
  Q6V9Y2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-02-02 Tssk1b  testis-specific serine kinase 1B  Tssk1  testis-specific serine kinase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Tssk1  testis-specific serine kinase 1  Stk22a  serine/threonine kinase 22A (spermiogenesis associated)  Symbol and Name updated 1299863 APPROVED
2005-12-06 Stk22a  serine/threonine kinase 22A (spermiogenesis associated)  Stk22a_predicted  serine/threonine kinase 22A (spermiogenesis associated) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Stk22a_predicted  serine/threonine kinase 22A (spermiogenesis associated) (predicted)      Symbol and Name status set to approved 70820 APPROVED