SKA1 (spindle and kinetochore associated complex subunit 1) - Rat Genome Database

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Gene: SKA1 (spindle and kinetochore associated complex subunit 1) Canis lupus familiaris
Analyze
Symbol: SKA1
Name: spindle and kinetochore associated complex subunit 1
RGD ID: 12300543
Description: ENCODES a protein that exhibits microtubule binding (inferred); INVOLVED IN attachment of mitotic spindle microtubules to kinetochore (ortholog); mitotic sister chromatid segregation (ortholog); ASSOCIATED WITH COVID-19 (ortholog); hepatocellular carcinoma (ortholog); intellectual disability (ortholog); FOUND IN centriolar satellite (ortholog); intercellular bridge (ortholog); kinetochore (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: spindle and kinetochore-associated protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1780,552,249 - 80,561,732 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl780,552,292 - 80,560,565 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha779,962,642 - 79,972,669 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0780,638,908 - 80,648,942 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl780,638,967 - 80,648,939 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1780,352,216 - 80,362,248 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0780,382,115 - 80,392,144 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0780,669,635 - 80,679,677 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SKA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1780,552,249 - 80,561,732 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl780,552,292 - 80,560,565 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha779,962,642 - 79,972,669 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0780,638,908 - 80,648,942 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl780,638,967 - 80,648,939 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1780,352,216 - 80,362,248 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0780,382,115 - 80,392,144 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0780,669,635 - 80,679,677 (+)NCBIUU_Cfam_GSD_1.0
SKA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381850,375,046 - 50,394,168 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1850,375,040 - 50,394,168 (+)EnsemblGRCh38hg38GRCh38
GRCh371847,901,416 - 47,920,538 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361846,155,390 - 46,174,536 (+)NCBINCBI36Build 36hg18NCBI36
Build 341846,155,400 - 46,174,534NCBI
Celera1844,757,915 - 44,777,060 (+)NCBICelera
Cytogenetic Map18q21.1NCBI
HuRef1844,755,860 - 44,775,003 (+)NCBIHuRef
CHM1_11847,896,963 - 47,916,096 (+)NCBICHM1_1
T2T-CHM13v2.01850,576,800 - 50,595,915 (+)NCBIT2T-CHM13v2.0
Ska1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391874,328,370 - 74,340,889 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1874,328,370 - 74,340,889 (-)EnsemblGRCm39 Ensembl
GRCm381874,195,299 - 74,207,818 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1874,195,299 - 74,207,818 (-)EnsemblGRCm38mm10GRCm38
MGSCv371874,354,953 - 74,367,472 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361874,320,668 - 74,333,220 (-)NCBIMGSCv36mm8
Celera1875,425,305 - 75,437,850 (-)NCBICelera
Cytogenetic Map18E2NCBI
cM Map1850.67NCBI
Ska1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81870,069,957 - 70,080,303 (-)NCBIGRCr8
mRatBN7.21867,794,722 - 67,805,037 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1867,794,725 - 67,805,037 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1869,902,907 - 69,913,217 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01870,577,344 - 70,587,637 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01868,443,383 - 68,453,679 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01870,174,316 - 70,184,368 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1870,173,944 - 70,184,337 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01869,317,012 - 69,327,058 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41870,988,118 - 70,998,430 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11871,061,315 - 71,071,569 (-)NCBI
Celera1865,976,023 - 65,986,335 (-)NCBICelera
Cytogenetic Map18q12.2NCBI
Ska1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540235,382,412 - 35,395,814 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540235,382,531 - 35,395,787 (+)NCBIChiLan1.0ChiLan1.0
SKA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21767,892,960 - 67,911,063 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11853,585,562 - 53,603,666 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01843,745,560 - 43,764,452 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11847,093,106 - 47,111,996 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1847,093,115 - 47,111,996 (+)Ensemblpanpan1.1panPan2
Ska1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494437,538,531 - 37,554,979 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649712,777,334 - 12,794,032 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649712,777,454 - 12,793,992 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SKA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl199,976,485 - 99,993,462 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1199,976,354 - 99,993,492 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21109,665,390 - 109,732,836 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SKA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11830,562,320 - 30,579,966 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1830,560,284 - 30,579,938 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660504,702,946 - 4,722,276 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ska1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477813,953,390 - 13,968,683 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477813,948,567 - 13,968,643 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SKA1
178 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 4 16 6 6 1 12 10 6
Low 1 6 6 6 5 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_038482550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038544005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038579302 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038608113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038672821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_548812 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_002628837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005328853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005362741 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005380956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005397217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005430453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000021087   ⟹   ENSCAFP00000019582
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl780,552,292 - 80,560,565 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000072264   ⟹   ENSCAFP00000053469
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl780,552,292 - 80,560,565 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845031549   ⟹   ENSCAFP00845024699
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl780,638,967 - 80,648,939 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845031635   ⟹   ENSCAFP00845024762
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl780,638,967 - 80,648,939 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845031704   ⟹   ENSCAFP00845024816
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl780,638,971 - 80,648,939 (+)Ensembl
RefSeq Acc Id: XM_038482550   ⟹   XP_038338478
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1780,352,216 - 80,362,245 (+)NCBI
RefSeq Acc Id: XM_038544005   ⟹   XP_038399933
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0780,669,635 - 80,679,674 (+)NCBI
RefSeq Acc Id: XM_038579302   ⟹   XP_038435230
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha779,962,642 - 79,972,666 (+)NCBI
RefSeq Acc Id: XM_038608113   ⟹   XP_038464041
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0780,382,115 - 80,392,141 (+)NCBI
RefSeq Acc Id: XM_038672821   ⟹   XP_038528749
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0780,638,908 - 80,648,939 (+)NCBI
RefSeq Acc Id: XR_005328853
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1780,352,216 - 80,362,248 (+)NCBI
RefSeq Acc Id: XR_005362741
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0780,669,635 - 80,679,677 (+)NCBI
RefSeq Acc Id: XR_005380956
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha779,962,642 - 79,972,669 (+)NCBI
RefSeq Acc Id: XR_005397217
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0780,382,115 - 80,392,144 (+)NCBI
RefSeq Acc Id: XR_005430453
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0780,638,908 - 80,648,942 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000019582   ⟸   ENSCAFT00000021087
RefSeq Acc Id: ENSCAFP00000053469   ⟸   ENSCAFT00000072264
RefSeq Acc Id: XP_038338478   ⟸   XM_038482550
RefSeq Acc Id: XP_038464041   ⟸   XM_038608113
RefSeq Acc Id: XP_038528749   ⟸   XM_038672821
- UniProtKB: A0A8C0SQC0 (UniProtKB/TrEMBL),   A0A8C0LQH5 (UniProtKB/TrEMBL),   A0A8I3P1I3 (UniProtKB/TrEMBL),   A0A8C0SPN4 (UniProtKB/TrEMBL),   A0A8I3P4M8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038435230   ⟸   XM_038579302
- UniProtKB: A0A8C0SQC0 (UniProtKB/TrEMBL),   A0A8C0LQH5 (UniProtKB/TrEMBL),   A0A8I3P1I3 (UniProtKB/TrEMBL),   A0A8C0SPN4 (UniProtKB/TrEMBL),   A0A8I3P4M8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038399933   ⟸   XM_038544005
- UniProtKB: A0A8C0LQH5 (UniProtKB/TrEMBL),   A0A8C0SPN4 (UniProtKB/TrEMBL),   A0A8C0SQC0 (UniProtKB/TrEMBL),   A0A8I3P1I3 (UniProtKB/TrEMBL),   A0A8I3P4M8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845024816   ⟸   ENSCAFT00845031704
RefSeq Acc Id: ENSCAFP00845024762   ⟸   ENSCAFT00845031635
RefSeq Acc Id: ENSCAFP00845024699   ⟸   ENSCAFT00845031549

Promoters
RGD ID:13684122
Promoter ID:EPDNEW_C2190
Type:single initiation site
Name:SKA1_1
Description:spindle and kinetochore associated complex subunit 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1780,552,271 - 80,552,331EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000013294 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030000878 UniProtKB/TrEMBL
  ENSCAFG00040015185 UniProtKB/TrEMBL
  ENSCAFG00845017807 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000021087.5 UniProtKB/TrEMBL
  ENSCAFT00000072264.2 UniProtKB/TrEMBL
  ENSCAFT00000106935.1 UniProtKB/TrEMBL
  ENSCAFT00030001515.1 UniProtKB/TrEMBL
  ENSCAFT00030001520.1 UniProtKB/TrEMBL
  ENSCAFT00040028028.1 UniProtKB/TrEMBL
  ENSCAFT00040028131.1 UniProtKB/TrEMBL
  ENSCAFT00040028195.1 UniProtKB/TrEMBL
  ENSCAFT00845031549 ENTREZGENE
  ENSCAFT00845031549.1 UniProtKB/TrEMBL
  ENSCAFT00845031635.1 UniProtKB/TrEMBL
  ENSCAFT00845031704 ENTREZGENE
  ENSCAFT00845031704.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.1890 UniProtKB/TrEMBL
  6.10.250.1370 UniProtKB/TrEMBL
InterPro SKA1 UniProtKB/TrEMBL
  SKA1-MBD UniProtKB/TrEMBL
NCBI Gene SKA1 ENTREZGENE
PANTHER PTHR28573 UniProtKB/TrEMBL
  SPINDLE AND KINETOCHORE-ASSOCIATED PROTEIN 1 UniProtKB/TrEMBL
Pfam SKA1 UniProtKB/TrEMBL
UniProt A0A8C0LQH5 ENTREZGENE
  A0A8C0SPN4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SQ48_CANLF UniProtKB/TrEMBL
  A0A8C0SQC0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3P1I3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3P4M8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3S062_CANLF UniProtKB/TrEMBL
  A0A8P0TU07_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:46193 ENTREZGENE