Syndig1 (synapse differentiation inducing 1) - Rat Genome Database

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Pathways
Gene: Syndig1 (synapse differentiation inducing 1) Rattus norvegicus
Analyze
Symbol: Syndig1
Name: synapse differentiation inducing 1
RGD ID: 1310753
Description: Predicted to enable glutamate receptor binding activity and protein homodimerization activity. Involved in positive regulation of synapse assembly; regulation of postsynapse assembly; and synaptic vesicle clustering. Located in cell body; dendrite; and excitatory synapse. Is active in glutamatergic synapse and postsynaptic density membrane. Orthologous to human SYNDIG1 (synapse differentiation inducing 1); INTERACTS WITH acrylamide; bisphenol A; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: dispanin subfamily C member 2; DSPC2; LOC103691925; LOC362235; RGD1310753; similar to chromosome 20 open reading frame 39; synapse differentiation-inducing gene protein 1; Tmem90b; transmembrane protein 90B; uncharacterized LOC103691925
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Syndig1Tn(sb-T2/Bart3)2.171Mcwi
Genetic Models: F344-Syndig1Tn(sb-T2/Bart3)2.171Mcwi
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83158,491,474 - 158,695,174 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3158,491,996 - 158,658,652 (+)EnsemblGRCr8
mRatBN7.23138,030,995 - 138,234,646 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3138,031,769 - 138,198,122 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3141,965,844 - 142,132,031 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03150,549,574 - 150,715,761 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03148,264,722 - 148,431,040 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03145,031,427 - 145,199,273 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3145,032,200 - 145,199,356 (+)Ensemblrn6Rnor6.0
Rnor_5.03151,405,855 - 151,571,801 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43139,434,170 - 139,834,916 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3136,716,149 - 136,879,658 (+)NCBICelera
RGSC_v3.13139,339,742 - 139,740,488 (+)NCBI
Cytogenetic Map3q41NCBI
JBrowse:




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

Biological Process

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. SynDIG1: an activity-regulated, AMPA- receptor-interacting transmembrane protein that regulates excitatory synapse development. Kalashnikova E, etal., Neuron. 2010 Jan 14;65(1):80-93. doi: 10.1016/j.neuron.2009.12.021.
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
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:21878521   PMID:23785483   PMID:29490264  


Genomics

Comparative Map Data
Syndig1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83158,491,474 - 158,695,174 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3158,491,996 - 158,658,652 (+)EnsemblGRCr8
mRatBN7.23138,030,995 - 138,234,646 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3138,031,769 - 138,198,122 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3141,965,844 - 142,132,031 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03150,549,574 - 150,715,761 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03148,264,722 - 148,431,040 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03145,031,427 - 145,199,273 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3145,032,200 - 145,199,356 (+)Ensemblrn6Rnor6.0
Rnor_5.03151,405,855 - 151,571,801 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43139,434,170 - 139,834,916 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3136,716,149 - 136,879,658 (+)NCBICelera
RGSC_v3.13139,339,742 - 139,740,488 (+)NCBI
Cytogenetic Map3q41NCBI
SYNDIG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382024,469,629 - 24,666,616 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2024,469,629 - 24,666,616 (+)Ensemblhg38GRCh38
GRCh372024,450,265 - 24,647,252 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362024,397,835 - 24,595,167 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342024,397,834 - 24,595,167NCBI
Celera2024,524,151 - 24,721,487 (+)NCBICelera
Cytogenetic Map20p11.21NCBI
HuRef2024,405,607 - 24,604,629 (+)NCBIHuRef
CHM1_12024,450,308 - 24,648,495 (+)NCBICHM1_1
T2T-CHM13v2.02024,531,610 - 24,729,659 (+)NCBIT2T-CHM13v2.0
Syndig1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392149,672,703 - 149,846,312 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2149,671,131 - 149,846,312 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm382149,830,783 - 150,004,392 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2149,829,211 - 150,004,392 (+)Ensemblmm10GRCm38
MGSCv372149,656,519 - 149,830,128 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362149,522,238 - 149,695,833 (+)NCBIMGSCv36mm8
Celera2151,074,984 - 151,248,632 (+)NCBICelera
Cytogenetic Map2G3NCBI
cM Map273.8NCBI
Syndig1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541530,909,014 - 31,005,533 (+)Ensembl
ChiLan1.0NW_00495541530,909,654 - 31,005,421 (+)NCBIChiLan1.0ChiLan1.0
SYNDIG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22125,333,573 - 25,559,619 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12025,330,408 - 25,563,465 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02024,402,471 - 24,629,365 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12024,751,062 - 24,947,280 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2024,825,380 - 24,947,370 (+)EnsemblpanPan2panpan1.1
SYNDIG1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.123759,787 - 865,659 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl23685,782 - 865,359 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha23707,338 - 896,758 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.023919,502 - 1,109,045 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl23918,789 - 1,108,951 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.123819,974 - 925,587 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.023859,317 - 1,048,759 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.023848,398 - 1,037,785 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Syndig1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640147,745,538 - 147,938,240 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366201,165,709 - 1,359,179 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366201,165,312 - 1,359,127 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNDIG1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1730,638,039 - 30,709,382 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11730,621,622 - 30,709,387 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21734,684,454 - 34,720,447 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYNDIG1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1253,532,455 - 53,682,063 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl253,533,174 - 53,682,056 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605092,177,743 - 92,250,156 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Syndig1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624939560,106 - 661,570 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624939560,192 - 698,100 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Syndig1
467 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:95
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000068210
Prediction methods: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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
1582233Insul10Insulin level QTL 105.40.0015blood insulin amount (VT:0001560)serum insulin level times blood glucose level (CMO:0002040)3133259579178259579Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3129154923182114333Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3141508991166376254Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)379649560177741895Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)3145335553189428310Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)3117537367162537367Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3125116475170116475Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3139299381184299381Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3122395989167395989Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3141508991177728348Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)3131036586176036586Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3137114333182114333Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)3131036586176036586Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)398651826167012663Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)3116188400161188400Rat


Genetic Models
This gene Syndig1 is modified in the following models/strains:


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
14 12 66 150 69 68 37 47 37 6 283 146 11 124 78 92 31 12 12

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001025020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591915 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591918 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105480 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC092131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000068210   ⟹   ENSRNOP00000060788
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3158,491,996 - 158,658,652 (+)Ensembl
mRatBN7.2 Ensembl3138,031,769 - 138,198,122 (+)Ensembl
Rnor_6.0 Ensembl3145,032,200 - 145,199,356 (+)Ensembl
RefSeq Acc Id: NM_001025020   ⟹   NP_001020191
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,290 - 158,658,653 (+)NCBI
mRatBN7.23138,031,769 - 138,198,123 (+)NCBI
Rnor_6.03145,032,177 - 145,199,196 (+)NCBI
Rnor_5.03151,405,855 - 151,571,801 (+)NCBI
RGSC_v3.43139,434,170 - 139,834,916 (+)RGD
Celera3136,716,149 - 136,879,658 (+)RGD
Sequence:
RefSeq Acc Id: XM_017591912   ⟹   XP_017447401
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,626 - 158,658,653 (+)NCBI
mRatBN7.23138,032,091 - 138,198,128 (+)NCBI
Rnor_6.03145,032,420 - 145,199,273 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591913   ⟹   XP_017447402
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,626 - 158,658,653 (+)NCBI
mRatBN7.23138,032,091 - 138,198,128 (+)NCBI
Rnor_6.03145,032,420 - 145,199,273 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591916   ⟹   XP_017447405
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,434 - 158,658,653 (+)NCBI
mRatBN7.23138,031,993 - 138,198,128 (+)NCBI
Rnor_6.03145,032,320 - 145,199,273 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591918   ⟹   XP_017447407
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,491,474 - 158,658,653 (+)NCBI
mRatBN7.23138,031,004 - 138,198,128 (+)NCBI
Rnor_6.03145,031,427 - 145,199,273 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591920   ⟹   XP_017447409
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,624 - 158,658,653 (+)NCBI
mRatBN7.23138,032,090 - 138,198,128 (+)NCBI
Rnor_6.03145,032,420 - 145,199,273 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591922   ⟹   XP_017447411
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,429 - 158,658,653 (+)NCBI
mRatBN7.23138,031,993 - 138,198,128 (+)NCBI
Rnor_6.03145,032,320 - 145,199,273 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039105477   ⟹   XP_038961405
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,102 - 158,658,653 (+)NCBI
mRatBN7.23138,031,003 - 138,198,128 (+)NCBI
RefSeq Acc Id: XM_039105478   ⟹   XP_038961406
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,624 - 158,658,653 (+)NCBI
mRatBN7.23138,032,090 - 138,198,128 (+)NCBI
RefSeq Acc Id: XM_039105480   ⟹   XP_038961408
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,624 - 158,658,653 (+)NCBI
mRatBN7.23138,032,090 - 138,198,128 (+)NCBI
RefSeq Acc Id: XM_039105481   ⟹   XP_038961409
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,095 - 158,695,174 (+)NCBI
mRatBN7.23138,030,995 - 138,234,646 (+)NCBI
RefSeq Acc Id: XR_005501940
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83158,492,103 - 158,695,174 (+)NCBI
mRatBN7.23138,031,004 - 138,234,646 (+)NCBI
RefSeq Acc Id: NP_001020191   ⟸   NM_001025020
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447407   ⟸   XM_017591918
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447405   ⟸   XM_017591916
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447411   ⟸   XM_017591922
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447401   ⟸   XM_017591912
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447402   ⟸   XM_017591913
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447409   ⟸   XM_017591920
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000060788   ⟸   ENSRNOT00000068210
RefSeq Acc Id: XP_038961409   ⟸   XM_039105481
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038961405   ⟸   XM_039105477
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038961406   ⟸   XM_039105478
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038961408   ⟸   XM_039105480
- Peptide Label: isoform X1
- UniProtKB: Q58DZ9 (UniProtKB/Swiss-Prot),   A6K7G0 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q58DZ9-F1-model_v2 AlphaFold Q58DZ9 1-258 view protein structure

Transcriptome

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

Promoters
RGD ID:13692512
Promoter ID:EPDNEW_R3037
Type:initiation region
Name:Syndig1_1
Description:synapse differentiation inducing 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_6.03145,032,132 - 145,032,192EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310753 AgrOrtholog
BioCyc Gene G2FUF-47456 BioCyc
Ensembl Genes ENSRNOG00000031536 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000068210 ENTREZGENE
  ENSRNOT00000068210.4 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7312153 IMAGE-MGC_LOAD
InterPro CD225/Dispanin_fam UniProtKB/Swiss-Prot
KEGG Report rno:362235 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105581 IMAGE-MGC_LOAD
NCBI Gene 362235 ENTREZGENE
PANTHER SYNAPSE DIFFERENTIATION-INDUCING GENE PROTEIN 1 UniProtKB/Swiss-Prot
  UPF0338 PROTEIN UniProtKB/Swiss-Prot
Pfam CD225 UniProtKB/Swiss-Prot
PhenoGen Syndig1 PhenoGen
RatGTEx ENSRNOG00000031536 RatGTEx
UniProt A6K7G0 ENTREZGENE, UniProtKB/TrEMBL
  Q58DZ9 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Syndig1  synapse differentiation inducing 1  LOC103691925  uncharacterized LOC103691925  Data merged from RGD:9408152 737654 PROVISIONAL
2014-08-25 LOC103691925  uncharacterized LOC103691925      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 RGD1310753  similar to chromosome 20 open reading frame 39  RGD1310753_predicted  similar to chromosome 20 open reading frame 39 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1310753_predicted  similar to chromosome 20 open reading frame 39 (predicted)  LOC362235_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC362235_predicted  similar to chromosome 20 open reading frame 39 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL