Spatc1l (spermatogenesis and centriole associated 1-like) - Rat Genome Database

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Gene: Spatc1l (spermatogenesis and centriole associated 1-like) Rattus norvegicus
Analyze
Symbol: Spatc1l (Ensembl: Lss)
Name: spermatogenesis and centriole associated 1-like (Ensembl:lanosterol synthase)
RGD ID: 1562578
Description: Predicted to enable identical protein binding activity and protein kinase A regulatory subunit binding activity. Predicted to be involved in spermatogenesis. Predicted to act upstream of or within actin polymerization or depolymerization and positive regulation of cAMP/PKA signal transduction. Predicted to be located in cytoplasm. Predicted to be active in centrosome and sperm head-tail coupling apparatus. Orthologous to human SPATC1L (spermatogenesis and centriole associated 1 like); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC499418; LOC108348157; LOC499418; similar to Putative protein C21orf56 homolog; speriolin-like protein; uncharacterized protein LOC499418
RGD Orthologs
Human
Mouse
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82012,073,542 - 12,082,866 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2012,073,543 - 12,118,253 (-)EnsemblGRCr8
mRatBN7.22012,074,040 - 12,083,873 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2012,074,047 - 12,083,301 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2012,770,347 - 12,779,565 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02012,131,269 - 12,140,487 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,603,047 - 12,612,265 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,825,789 - 12,835,007 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2013,164,628 - 13,173,774 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl2012,825,775 - 12,835,044 (-)Ensemblrn6Rnor6.0
Rnor_5.02014,983,177 - 14,990,480 (-)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.02015,318,495 - 15,327,599 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42012,488,956 - 12,498,060 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2013,572,304 - 13,581,438 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse:




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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. 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:30026308  


Genomics

Comparative Map Data
Spatc1l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82012,073,542 - 12,082,866 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2012,073,543 - 12,118,253 (-)EnsemblGRCr8
mRatBN7.22012,074,040 - 12,083,873 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2012,074,047 - 12,083,301 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2012,770,347 - 12,779,565 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02012,131,269 - 12,140,487 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,603,047 - 12,612,265 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,825,789 - 12,835,007 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2013,164,628 - 13,173,774 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl2012,825,775 - 12,835,044 (-)Ensemblrn6Rnor6.0
Rnor_5.02014,983,177 - 14,990,480 (-)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.02015,318,495 - 15,327,599 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42012,488,956 - 12,498,060 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2013,572,304 - 13,581,438 (-)NCBICelera
Cytogenetic Map20p12NCBI
SPATC1L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382146,161,160 - 46,184,459 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2146,161,148 - 46,184,476 (-)Ensemblhg38GRCh38
GRCh372147,581,074 - 47,604,373 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362146,405,498 - 46,428,729 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342146,405,497 - 46,428,729NCBI
Celera2132,693,446 - 32,716,761 (-)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2132,963,847 - 32,985,837 (-)NCBIHuRef
CHM1_12147,141,961 - 47,163,904 (-)NCBICHM1_1
T2T-CHM13v2.02144,540,975 - 44,566,185 (-)NCBIT2T-CHM13v2.0
Spatc1l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391076,394,180 - 76,406,035 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1076,398,106 - 76,406,035 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381076,561,993 - 76,570,201 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1076,562,272 - 76,570,201 (+)Ensemblmm10GRCm38
MGSCv371076,025,017 - 76,032,945 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361076,005,988 - 76,013,916 (+)NCBIMGSCv36mm8
Celera1077,606,787 - 77,614,715 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.2NCBI
SPATC1L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.213218,494,437 - 218,512,240 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SPATC1L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,781,950 - 89,805,927 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl289,782,182 - 89,803,593 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605418,164,576 - 18,188,041 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Spatc1l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474531,292,684 - 31,302,306 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474531,290,119 - 31,302,261 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Spatc1l
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18106,575,597 - 106,584,711 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Spatc1l
105 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)20418947649189476Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804392029865039Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
1598870Bp289Blood pressure QTL 2892.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)20821635953216359Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804392015089182Rat
1598858Cm61Cardiac mass QTL 613.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)20821635953216359Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
13 20 76 61 53 29 51 29 12 163 99 4 49 22 82 24 8 8

Sequence


Ensembl Acc Id: ENSRNOT00000001704   ⟹   ENSRNOP00000001704
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2013,164,628 - 13,173,774 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000074268   ⟹   ENSRNOP00000065946
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,825,775 - 12,835,044 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000078412   ⟹   ENSRNOP00000069432
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,092,714 - 12,118,253 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081903   ⟹   ENSRNOP00000070074
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,092,714 - 12,118,253 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000102485   ⟹   ENSRNOP00000077795
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,073,543 - 12,082,760 (-)Ensembl
mRatBN7.2 Ensembl2012,074,047 - 12,083,301 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000121820   ⟹   ENSRNOP00000098940
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,073,543 - 12,082,760 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000161122   ⟹   ENSRNOP00000102733
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2012,073,543 - 12,093,871 (-)Ensembl
RefSeq Acc Id: NM_001024296   ⟹   NP_001019467
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82012,073,542 - 12,082,760 (-)NCBI
mRatBN7.22012,074,040 - 12,083,261 (-)NCBI
Rnor_6.02012,825,789 - 12,835,007 (-)NCBI
Rnor_5.02015,318,495 - 15,327,599 (-)NCBI
RGSC_v3.42012,488,956 - 12,498,060 (-)RGD
Celera2013,572,304 - 13,581,438 (-)RGD
Sequence:
RefSeq Acc Id: XM_063279459   ⟹   XP_063135529
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82012,074,483 - 12,082,866 (-)NCBI
RefSeq Acc Id: NP_001019467   ⟸   NM_001024296
- UniProtKB: Q68FV7 (UniProtKB/TrEMBL),   M0R8Y9 (UniProtKB/TrEMBL),   A0A8I5Y6R1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000065946   ⟸   ENSRNOT00000074268
Ensembl Acc Id: ENSRNOP00000001704   ⟸   ENSRNOT00000001704
Ensembl Acc Id: ENSRNOP00000077795   ⟸   ENSRNOT00000102485
RefSeq Acc Id: XP_063135529   ⟸   XM_063279459
- Peptide Label: isoform X1
- UniProtKB: A6JKC5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000069432   ⟸   ENSRNOT00000078412
Ensembl Acc Id: ENSRNOP00000098940   ⟸   ENSRNOT00000121820
Ensembl Acc Id: ENSRNOP00000070074   ⟸   ENSRNOT00000081903
Ensembl Acc Id: ENSRNOP00000102733   ⟸   ENSRNOT00000161122
Protein Domains
Speriolin C-terminal   Speriolin N-terminal   Squalene cyclase C-terminal   Squalene cyclase N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q68FV7-F1-model_v2 AlphaFold Q68FV7 1-342 view protein structure

Transcriptome

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

Promoters
RGD ID:13701515
Promoter ID:EPDNEW_R12039
Type:multiple initiation site
Name:Spatc1l_1
Description:spermatogenesis and centriole associated 1-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_6.02012,835,020 - 12,835,080EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562578 AgrOrtholog
BioCyc Gene G2FUF-4192 BioCyc
Ensembl Genes ENSRNOG00000001262 Ensembl
  ENSRNOG00000045929 Ensembl
  ENSRNOG00000054549 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000070409 Ensembl
Ensembl Transcript ENSRNOT00000081903.3 UniProtKB/TrEMBL
  ENSRNOT00000102485 ENTREZGENE
  ENSRNOT00000102485.2 UniProtKB/TrEMBL
  ENSRNOT00000121820.1 UniProtKB/TrEMBL
  ENSRNOT00000161122.1 UniProtKB/TrEMBL
Gene3D-CATH 1.50.10.20 UniProtKB/TrEMBL
  6.20.120.20 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7134390 IMAGE-MGC_LOAD
InterPro SPATC1 UniProtKB/TrEMBL
  Speriolin_C UniProtKB/TrEMBL
  Speriolin_N UniProtKB/TrEMBL
  SQ_cyclase_C UniProtKB/TrEMBL
  SQ_cyclase_N UniProtKB/TrEMBL
  Squalene_cyclase UniProtKB/TrEMBL
  Terpene_synthase_CS UniProtKB/TrEMBL
  Terpenoid_cyclase/PrenylTrfase UniProtKB/TrEMBL
KEGG Report rno:499418 UniProtKB/TrEMBL
MGC_CLONE MGC:94423 IMAGE-MGC_LOAD
NCBI Gene 499418 ENTREZGENE
PANTHER LANOSTEROL SYNTHASE UniProtKB/TrEMBL
  PTHR22192 UniProtKB/TrEMBL
  SPERIOLIN-LIKE PROTEIN UniProtKB/TrEMBL
  TERPENE CYCLASE/MUTASE FAMILY MEMBER UniProtKB/TrEMBL
Pfam Speriolin_C UniProtKB/TrEMBL
  Speriolin_N UniProtKB/TrEMBL
  SQHop_cyclase_C UniProtKB/TrEMBL
  SQHop_cyclase_N UniProtKB/TrEMBL
PhenoGen Spatc1l PhenoGen
PROSITE TERPENE_SYNTHASES UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001262 RatGTEx
  ENSRNOG00000045929 RatGTEx
  ENSRNOG00000054549 RatGTEx
  ENSRNOG00000070409 RatGTEx
Superfamily-SCOP Terpenoid cyclases/Protein prenyltransferases UniProtKB/TrEMBL
UniProt A0A096MK55_RAT UniProtKB/TrEMBL
  A0A8I5Y6R1 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LDV6_RAT UniProtKB/TrEMBL
  A0ABK0LH16_RAT UniProtKB/TrEMBL
  A6JKC5 ENTREZGENE, UniProtKB/TrEMBL
  M0R8Y9 ENTREZGENE
  Q68FV7 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary M0R8Y9 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Spatc1l  spermatogenesis and centriole associated 1-like  LOC108348157  speriolin-like protein  Data merged from RGD:11505374 737654 PROVISIONAL
2016-08-02 LOC108348157  speriolin-like protein      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-11-19 Spatc1l  spermatogenesis and centriole associated 1-like  LOC499418  similar to Putative protein C21orf56 homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC499418  similar to Putative protein C21orf56 homolog      Symbol and Name status set to provisional 70820 PROVISIONAL