Spg11 (SPG11 vesicle trafficking associated, spatacsin) - Rat Genome Database

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Gene: Spg11 (SPG11 vesicle trafficking associated, spatacsin) Chinchilla lanigera
Analyze
Symbol: Spg11
Name: SPG11 vesicle trafficking associated, spatacsin
RGD ID: 8794785
Description: ENCODES a protein that exhibits protein kinase binding (ortholog); INVOLVED IN autophagosome organization (ortholog); axo-dendritic transport (ortholog); axon extension (ortholog); ASSOCIATED WITH AGAT deficiency (ortholog); amyotrophic lateral sclerosis (ortholog); autism spectrum disorder (ortholog); FOUND IN axon (ortholog); cytoplasm (ortholog); cytoplasmic vesicle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: spastic paraplegia 11 (autosomal recessive); spatacsin; SPG11, spatacsin vesicle trafficking associated
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541611,086,176 - 11,168,332 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541611,084,448 - 11,168,478 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon  (ISO)
cytoplasm  (ISO)
cytoplasmic vesicle  (ISO)
cytosol  (ISO)
dendrite  (ISO)
nucleolus  (ISO)
plasma membrane  (ISO)
synapse  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Spg11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541611,086,176 - 11,168,332 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541611,084,448 - 11,168,478 (-)NCBIChiLan1.0ChiLan1.0
SPG11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381544,562,696 - 44,663,662 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1544,554,818 - 44,663,688 (-)EnsemblGRCh38hg38GRCh38
GRCh371544,854,894 - 44,955,860 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361542,642,186 - 42,743,168 (-)NCBINCBI36Build 36hg18NCBI36
Celera1521,744,647 - 21,845,628 (-)NCBICelera
Cytogenetic Map15q21.1NCBI
HuRef1521,678,554 - 21,779,155 (-)NCBIHuRef
CHM1_11544,972,998 - 45,073,973 (-)NCBICHM1_1
T2T-CHM13v2.01542,370,662 - 42,471,634 (-)NCBIT2T-CHM13v2.0
Spg11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392121,884,001 - 121,949,915 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2121,884,001 - 121,948,867 (-)EnsemblGRCm39 Ensembl
GRCm382122,053,526 - 122,119,434 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2122,053,520 - 122,118,386 (-)EnsemblGRCm38mm10GRCm38
MGSCv372121,879,262 - 121,944,122 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera2155,871,768 - 155,874,475 (-)NCBICelera
Cytogenetic Map2E5NCBI
cM Map260.5NCBI
Spg11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83129,453,118 - 129,526,469 (-)NCBIGRCr8
mRatBN7.23109,007,658 - 109,072,904 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3109,008,135 - 109,072,911 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3112,682,104 - 112,746,807 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03121,277,640 - 121,342,332 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03118,938,014 - 119,002,708 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03113,999,600 - 114,064,438 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3113,999,719 - 114,065,170 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03120,539,553 - 120,604,712 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43108,839,055 - 108,905,008 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3107,906,940 - 107,971,094 (-)NCBICelera
Cytogenetic Map3q35NCBI
SPG11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21633,811,472 - 33,912,784 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11537,974,171 - 38,076,040 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01523,519,311 - 23,620,532 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11541,688,081 - 41,788,616 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1541,688,081 - 41,788,616 (-)Ensemblpanpan1.1panPan2
SPG11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13011,233,709 - 11,305,454 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3011,233,718 - 11,305,485 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3011,290,282 - 11,362,060 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03011,370,230 - 11,442,064 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3011,370,232 - 11,442,889 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13011,277,612 - 11,349,334 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03011,400,030 - 11,471,816 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03011,519,270 - 11,591,057 (-)NCBIUU_Cfam_GSD_1.0
Spg11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864089,693,796 - 89,770,733 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364717,540,647 - 7,618,783 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPG11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1126,902,186 - 127,003,397 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1 Ensembl1126,890,892 - 126,899,991 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11126,890,464 - 126,998,014 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SPG11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12638,386,000 - 38,482,236 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666048102,561,369 - 102,665,640 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Spg11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480411,569,150 - 11,670,373 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462480411,569,024 - 11,672,037 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000024326   ⟹   ENSCLAP00000024094
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541611,086,176 - 11,168,332 (-)Ensembl
RefSeq Acc Id: XM_005381419   ⟹   XP_005381476
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541611,084,448 - 11,168,463 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005381422   ⟹   XP_005381479
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541611,093,232 - 11,168,478 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013512469   ⟹   XP_013367923
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541611,090,641 - 11,168,472 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005381476 (Get FASTA)   NCBI Sequence Viewer  
  XP_005381479 (Get FASTA)   NCBI Sequence Viewer  
  XP_013367923 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000024094
  ENSCLAP00000024094.1
Reference Protein Sequences
RefSeq Acc Id: XP_005381476   ⟸   XM_005381419
- Peptide Label: isoform X1
- UniProtKB: A0A8C2WA88 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005381479   ⟸   XM_005381422
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_013367923   ⟸   XM_013512469
- Peptide Label: isoform X2
- UniProtKB: A0A8C2WA88 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000024094   ⟸   ENSCLAT00000024326
Protein Domains
Spatacsin C-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000016540 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000024326 ENTREZGENE
  ENSCLAT00000024326.1 UniProtKB/TrEMBL
InterPro Spatacsin UniProtKB/TrEMBL
  Spatacsin_C_dom UniProtKB/TrEMBL
NCBI Gene Spg11 ENTREZGENE
PANTHER PTHR13650 UniProtKB/TrEMBL
  SPATACSIN UniProtKB/TrEMBL
Pfam Spatacsin_C UniProtKB/TrEMBL
UniProt A0A8C2WA88 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-02-05 Spg11  SPG11 vesicle trafficking associated, spatacsin    SPG11, spatacsin vesicle trafficking associated  Symbol and/or name change 5135510 APPROVED
2017-02-07 Spg11  SPG11, spatacsin vesicle trafficking associated    spastic paraplegia 11 (autosomal recessive)  Symbol and/or name change 5135510 APPROVED