Syap1 (synapse associated protein 1) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Syap1 (synapse associated protein 1) Rattus norvegicus
Analyze
Symbol: Syap1
Name: synapse associated protein 1
RGD ID: 1303113
Description: Predicted to be involved in several processes, including TORC2 signaling; cellular response to epidermal growth factor stimulus; and cellular response to peptide hormone stimulus. Predicted to be located in several cellular components, including cytoplasmic side of plasma membrane; perikaryon; and synaptic membrane. Predicted to be active in Golgi apparatus; nucleus; and synapse. Orthologous to human SYAP1 (synapse associated protein 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: MGC94115; synapse-associated protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
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
GRCr8X35,423,947 - 35,458,472 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX35,423,969 - 35,458,864 (+)EnsemblGRCr8
mRatBN7.2X31,792,180 - 31,826,672 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX31,792,193 - 31,826,667 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX32,826,576 - 32,860,973 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X36,262,037 - 36,296,470 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X32,450,970 - 32,485,371 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X33,528,071 - 33,562,584 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX33,528,081 - 33,562,589 (+)Ensemblrn6Rnor6.0
Rnor_5.0X33,875,296 - 33,909,818 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X52,547,035 - 52,580,729 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX32,096,512 - 32,130,214 (+)NCBICelera
RGSC_v3.1X52,600,503 - 52,634,197 (+)NCBI
Cytogenetic MapXq14NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon  (IEA,ISO)
cytoplasm  (IBA)
cytoplasmic side of plasma membrane  (IEA,ISO)
cytosol  (IEA,ISO)
dendrite  (IEA,ISO)
Golgi apparatus  (IBA,IEA,ISO)
growth cone  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)
perikaryon  (IEA,ISO)
perinuclear region of cytoplasm  (IEA,ISO)
postsynaptic membrane  (IEA,ISO)
presynaptic membrane  (IEA,ISO)
synapse  (IBA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. 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:11555636   PMID:18570454   PMID:23300339   PMID:27344443  


Genomics

Comparative Map Data
Syap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X35,423,947 - 35,458,472 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX35,423,969 - 35,458,864 (+)EnsemblGRCr8
mRatBN7.2X31,792,180 - 31,826,672 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX31,792,193 - 31,826,667 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX32,826,576 - 32,860,973 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X36,262,037 - 36,296,470 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X32,450,970 - 32,485,371 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X33,528,071 - 33,562,584 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX33,528,081 - 33,562,589 (+)Ensemblrn6Rnor6.0
Rnor_5.0X33,875,296 - 33,909,818 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X52,547,035 - 52,580,729 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX32,096,512 - 32,130,214 (+)NCBICelera
RGSC_v3.1X52,600,503 - 52,634,197 (+)NCBI
Cytogenetic MapXq14NCBI
SYAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X16,719,612 - 16,765,340 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX16,719,545 - 16,765,340 (+)Ensemblhg38GRCh38
GRCh37X16,737,735 - 16,783,463 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X16,647,676 - 16,689,274 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34X16,497,411 - 16,538,990NCBI
CeleraX20,856,106 - 20,899,205 (+)NCBICelera
Cytogenetic MapXp22.2NCBI
HuRefX14,492,402 - 14,537,626 (+)NCBIHuRef
CHM1_1X16,768,134 - 16,811,230 (+)NCBICHM1_1
T2T-CHM13v2.0X16,302,094 - 16,347,824 (+)NCBIT2T-CHM13v2.0
Syap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X161,639,839 - 161,671,458 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX161,640,053 - 161,671,443 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38X162,856,843 - 162,888,462 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX162,857,057 - 162,888,447 (-)Ensemblmm10GRCm38
MGSCv37X159,294,775 - 159,326,394 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X158,200,957 - 158,232,536 (-)NCBIMGSCv36mm8
CeleraX146,080,878 - 146,112,325 (-)NCBICelera
Cytogenetic MapXF4NCBI
cM MapX75.06NCBI
Syap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555191,553,463 - 1,575,198 (-)Ensembl
ChiLan1.0NW_0049555191,556,376 - 1,575,144 (-)NCBIChiLan1.0ChiLan1.0
SYAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X18,513,953 - 18,559,863 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X18,517,355 - 18,563,264 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X9,339,052 - 9,384,940 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X16,706,612 - 16,747,610 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX16,706,612 - 16,747,610 (+)EnsemblpanPan2panpan1.1
SYAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X12,869,824 - 12,902,677 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX12,869,932 - 12,901,258 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX12,721,005 - 12,753,430 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X12,833,223 - 12,865,316 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX12,833,182 - 12,871,736 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X12,900,899 - 12,933,036 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X12,887,326 - 12,919,524 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X12,955,747 - 12,987,897 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Syap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X5,994,221 - 6,027,555 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364705,994,177 - 6,028,037 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364705,994,217 - 6,026,057 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX13,181,953 - 13,208,341 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X13,181,948 - 13,206,948 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X14,160,817 - 14,185,753 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X15,150,457 - 15,206,076 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX15,150,502 - 15,206,554 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605617,002,411 - 17,045,791 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Syap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248291,459,233 - 1,479,890 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248291,459,301 - 1,479,548 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Syap1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X23,475,294 - 23,509,347 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Syap1
153 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:128
Count of miRNA genes:96
Interacting mature miRNAs:111
Transcripts:ENSRNOT00000006584
Prediction methods:Microtar, Miranda, Targetscan
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2447036044931007Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X400149344939387Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2447036045082063Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X197044046970440Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X811148653111486Rat

Markers in Region
RH131465  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X31,824,328 - 31,825,685 (+)MAPPERmRatBN7.2
Rnor_6.0X33,560,246 - 33,561,602NCBIRnor6.0
Rnor_5.0X33,907,475 - 33,908,831UniSTSRnor5.0
RGSC_v3.4X52,579,196 - 52,580,552UniSTSRGSC3.4
CeleraX32,128,681 - 32,130,037UniSTS
RH 3.4 MapX453.8UniSTS
Cytogenetic MapXq21UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
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
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000006584   ⟹   ENSRNOP00000006584
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX35,423,983 - 35,458,864 (+)Ensembl
mRatBN7.2 EnsemblX31,792,207 - 31,826,667 (+)Ensembl
Rnor_6.0 EnsemblX33,528,081 - 33,562,589 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097677   ⟹   ENSRNOP00000090944
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX35,423,969 - 35,456,717 (+)Ensembl
mRatBN7.2 EnsemblX31,792,193 - 31,824,917 (+)Ensembl
RefSeq Acc Id: NM_001395553   ⟹   NP_001382482
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X35,424,034 - 35,458,472 (+)NCBI
mRatBN7.2X31,792,258 - 31,826,672 (+)NCBI
RefSeq Acc Id: XM_039099662   ⟹   XP_038955590
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X35,423,947 - 35,458,467 (+)NCBI
mRatBN7.2X31,792,180 - 31,826,672 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001382482 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955590 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79116 (Get FASTA)   NCBI Sequence Viewer  
  EDL90495 (Get FASTA)   NCBI Sequence Viewer  
  EDL90496 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006584
  ENSRNOP00000006584.5
  ENSRNOP00000090944.1
Ensembl Acc Id: ENSRNOP00000006584   ⟸   ENSRNOT00000006584
RefSeq Acc Id: XP_038955590   ⟸   XM_039099662
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000090944   ⟸   ENSRNOT00000097677
RefSeq Acc Id: NP_001382482   ⟸   NM_001395553
- UniProtKB: F7F350 (UniProtKB/TrEMBL),   A6K2N4 (UniProtKB/TrEMBL),   Q6AYB6 (UniProtKB/TrEMBL)
Protein Domains
BSD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F7F350-F1-model_v2 AlphaFold F7F350 1-360 view protein structure

Transcriptome

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

Promoters
RGD ID:13701804
Promoter ID:EPDNEW_R12328
Type:initiation region
Name:Syap1_1
Description:synapse associated protein 1
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_6.0X33,528,099 - 33,528,159EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303113 AgrOrtholog
BioCyc Gene G2FUF-2540 BioCyc
Ensembl Genes ENSRNOG00000004304 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006584 ENTREZGENE
  ENSRNOT00000006584.8 UniProtKB/TrEMBL
  ENSRNOT00000097677.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.3970.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7126243 IMAGE-MGC_LOAD
InterPro BSD UniProtKB/TrEMBL
  BSD_dom_sf UniProtKB/TrEMBL
  BSD_domain-containing UniProtKB/TrEMBL
MGC_CLONE MGC:94115 IMAGE-MGC_LOAD
NCBI Gene 302678 ENTREZGENE
PANTHER SYNAPSE-ASSOCIATED PROTEIN UniProtKB/TrEMBL
  SYNAPSE-ASSOCIATED PROTEIN 1 UniProtKB/TrEMBL
Pfam BSD UniProtKB/TrEMBL
PhenoGen Syap1 PhenoGen
PROSITE BSD UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004304 RatGTEx
SMART BSD UniProtKB/TrEMBL
Superfamily-SCOP SSF140383 UniProtKB/TrEMBL
UniProt A0A8I6AEQ4_RAT UniProtKB/TrEMBL
  A6K2N4 ENTREZGENE, UniProtKB/TrEMBL
  A6K2N5_RAT UniProtKB/TrEMBL
  F7F350 ENTREZGENE, UniProtKB/TrEMBL
  Q6AYB6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Syap1  synapse associated protein 1    SYAP1 protein  Name updated 1299863 APPROVED
2005-09-30 Syap1        Symbol and Name status set to provisional 70820 PROVISIONAL