Snta1 (syntrophin, alpha 1) - Rat Genome Database

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Gene: Snta1 (syntrophin, alpha 1) Rattus norvegicus
Analyze
Symbol: Snta1
Name: syntrophin, alpha 1
RGD ID: 1307068
Description: Enables PDZ domain binding activity. Predicted to be involved in several processes, including regulation of sodium ion transmembrane transport; regulation of ventricular cardiac muscle cell membrane repolarization; and ventricular cardiac muscle cell action potential. Predicted to act upstream of or within neuromuscular junction development and regulation of vasoconstriction by circulating norepinephrine. Located in neuromuscular junction and sarcolemma. Biomarker of status epilepticus. Human ortholog(s) of this gene implicated in long QT syndrome; long QT syndrome 12; and sudden infant death syndrome. Orthologous to human SNTA1 (syntrophin alpha 1); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH (+)-pilocarpine; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: alpha-1-syntrophin; LOC362242; syntrophin, acidic 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
GRCr83163,336,509 - 163,366,954 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3163,336,516 - 163,366,927 (-)EnsemblGRCr8
mRatBN7.23142,876,285 - 142,906,737 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3142,876,296 - 142,906,709 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3146,743,646 - 146,773,763 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03155,361,813 - 155,391,929 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03153,101,175 - 153,131,287 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,874,023 - 149,905,980 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,874,030 - 149,905,944 (-)Ensemblrn6Rnor6.0
Rnor_5.03156,245,190 - 156,278,486 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43144,843,678 - 144,874,238 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3141,611,616 - 141,641,783 (-)NCBICelera
RGSC_v3.13144,749,301 - 144,779,860 (-)NCBI
Cytogenetic Map3q41NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
acebutolol pharmacodynamics pathway   (ISO)
adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway  (ISO)
amiodarone pharmacodynamics pathway  (ISO)
amlodipine pharmacodynamics pathway  (ISO)
atenolol pharmacodynamics pathway  (ISO)
betaxolol pharmacodynamics pathway  (ISO)
bisoprolol pharmacodynamics pathway  (ISO)
bupranolol drug pathway  (ISO)
bupranolol pharmacodynamics pathway  (ISO)
carvedilol pharmacodynamics pathway  (ISO)
diltiazem pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
flecainde pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
fosphenytoin pharmacokinetics pathway  (ISO)
ibutilide pharmacodynamics pathway  (ISO)
isoprenaline pharmacodynamics pathway  (ISO)
isradipine pharmacodynamics pathway  (ISO)
levobunolol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
metoprolol pharmacodynamics pathway  (ISO)
mexiletine pharmacodynamics pathway  (ISO)
nadolol pharmacodynamics pathway  (ISO)
nebivolol pharmacodynamics pathway  (ISO)
nifedipine pharmacodynamics pathway  (ISO)
nimodipine pharmacodynamics pathway  (ISO)
nisoldipine pharmacodynamics pathway  (ISO)
nitrendipine pharmacodynamics pathway  (ISO)
penbutolol pharmacodynamics pathway  (ISO)
phenytoin pharmacodynamics pathway  (ISO)
pindolol pharmacodynamics pathway  (ISO)
procainamide pharmacodynamics pathway  (ISO)
propranolol pharmacodynamics pathway  (ISO)
quinidine pharmacodynamics pathway  (ISO)
sotalol pharmacodynamics pathway  (ISO)
timolol pharmacodynamics pathway  (ISO)
verapamil pharmacodynamics pathway  (ISO)

References

References - curated
# Reference Title Reference Citation
1. Alpha1-syntrophin mutations identified in sudden infant death syndrome cause an increase in late cardiac sodium current. Cheng J, etal., Circ Arrhythm Electrophysiol. 2009 Dec;2(6):667-76. Epub .
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Astroglial loss and edema formation in the rat piriform cortex and hippocampus following pilocarpine-induced status epilepticus. Kim JE, etal., J Comp Neurol. 2010 Nov 15;518(22):4612-28.
5. MLC1 trafficking and membrane expression in astrocytes: role of caveolin-1 and phosphorylation. Lanciotti A, etal., Neurobiol Dis. 2010 Mar;37(3):581-95. Epub 2009 Nov 26.
6. Protein trafficking and anchoring complexes revealed by proteomic analysis of inward rectifier potassium channel (Kir2.x)-associated proteins. Leonoudakis D, etal., J Biol Chem. 2004 May 21;279(21):22331-46. Epub 2004 Mar 15.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. beta 2-Syntrophin: localization at the neuromuscular junction in skeletal muscle. Peters MF, etal., Neuroreport. 1994 Aug 15;5(13):1577-80.
10. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
14. alpha-1-syntrophin mutation and the long-QT syndrome: a disease of sodium channel disruption. Wu G, etal., Circ Arrhythm Electrophysiol. 2008 Aug;1(3):193-201.
Additional References at PubMed
PMID:10995443   PMID:11043403   PMID:11115849   PMID:11717465   PMID:12477932   PMID:12600881   PMID:16935300   PMID:17628813   PMID:18591664   PMID:25931508  


Genomics

Comparative Map Data
Snta1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83163,336,509 - 163,366,954 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3163,336,516 - 163,366,927 (-)EnsemblGRCr8
mRatBN7.23142,876,285 - 142,906,737 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3142,876,296 - 142,906,709 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3146,743,646 - 146,773,763 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03155,361,813 - 155,391,929 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03153,101,175 - 153,131,287 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03149,874,023 - 149,905,980 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3149,874,030 - 149,905,944 (-)Ensemblrn6Rnor6.0
Rnor_5.03156,245,190 - 156,278,486 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43144,843,678 - 144,874,238 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3141,611,616 - 141,641,783 (-)NCBICelera
RGSC_v3.13144,749,301 - 144,779,860 (-)NCBI
Cytogenetic Map3q41NCBI
SNTA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382033,407,957 - 33,443,763 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2033,407,955 - 33,443,885 (-)Ensemblhg38GRCh38
GRCh372031,995,763 - 32,031,569 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362031,459,424 - 31,495,359 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342031,459,423 - 31,495,359NCBI
Celera2028,749,527 - 28,785,451 (-)NCBICelera
Cytogenetic Map20q11.21NCBI
HuRef2028,783,561 - 28,819,451 (-)NCBIHuRef
CHM1_12031,896,842 - 31,932,765 (-)NCBICHM1_1
T2T-CHM13v2.02035,135,186 - 35,170,977 (-)NCBIT2T-CHM13v2.0
Snta1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392154,218,234 - 154,250,004 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2154,218,233 - 154,250,019 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm382154,376,313 - 154,408,107 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2154,376,313 - 154,408,099 (-)Ensemblmm10GRCm38
MGSCv372154,202,050 - 154,233,820 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362154,067,769 - 154,099,522 (-)NCBIMGSCv36mm8
Celera2160,280,592 - 160,313,658 (-)NCBICelera
Cytogenetic Map2H1NCBI
cM Map276.52NCBI
Snta1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542227,844,853 - 27,871,547 (+)Ensembl
ChiLan1.0NW_00495542227,844,699 - 27,872,104 (+)NCBIChiLan1.0ChiLan1.0
SNTA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22139,099,698 - 39,135,847 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12039,092,798 - 39,128,921 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02029,696,137 - 29,732,258 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12030,810,787 - 30,844,472 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2030,810,787 - 30,844,476 (-)EnsemblpanPan2panpan1.1
SNTA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12422,636,716 - 22,665,828 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2422,636,756 - 22,665,741 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2422,281,583 - 22,313,637 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02423,322,134 - 23,354,134 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2423,322,133 - 23,354,191 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12422,597,383 - 22,628,609 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02422,708,067 - 22,740,033 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02423,139,650 - 23,170,903 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Snta1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640171,615,021 - 171,653,713 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365617,101,654 - 7,133,988 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365617,101,654 - 7,134,529 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SNTA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1736,915,953 - 36,946,187 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11736,917,276 - 36,946,232 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21741,867,614 - 41,896,571 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SNTA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1237,703,002 - 37,737,529 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl237,702,971 - 37,737,423 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605089,152,431 - 89,194,359 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Snta1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248425,805,342 - 5,834,022 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248425,805,409 - 5,834,553 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Snta1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15133,739,884 - 133,770,294 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Snta1
140 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:62
Count of miRNA genes:56
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000021715
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
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
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
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161799493176036425Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3161799270187311134Rat
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
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
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3160357340167835660Rat

Markers in Region
U00677  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23142,876,653 - 142,876,733 (+)MAPPERmRatBN7.2
Rnor_6.03149,874,388 - 149,874,467NCBIRnor6.0
Rnor_5.03156,245,559 - 156,245,638UniSTSRnor5.0
RGSC_v3.43144,844,039 - 144,844,118UniSTSRGSC3.4
Celera3141,611,977 - 141,612,056UniSTS
Cytogenetic Map3q41UniSTS
RH134532  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23142,876,382 - 142,876,576 (+)MAPPERmRatBN7.2
Rnor_6.03149,874,117 - 149,874,310NCBIRnor6.0
Rnor_5.03156,245,288 - 156,245,481UniSTSRnor5.0
RGSC_v3.43144,843,768 - 144,843,961UniSTSRGSC3.4
Celera3141,611,706 - 141,611,899UniSTS
RH 3.4 Map31294.8UniSTS
Cytogenetic Map3q41UniSTS
AU048638  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23142,879,770 - 142,880,170 (+)MAPPERmRatBN7.2
mRatBN7.23142,879,945 - 142,880,170 (+)MAPPERmRatBN7.2
Rnor_6.03149,877,682 - 149,877,906NCBIRnor6.0
Rnor_6.03149,877,505 - 149,877,906NCBIRnor6.0
Rnor_5.03156,248,676 - 156,249,077UniSTSRnor5.0
Rnor_5.03156,248,853 - 156,249,077UniSTSRnor5.0
RGSC_v3.43144,847,156 - 144,847,557UniSTSRGSC3.4
RGSC_v3.43144,847,333 - 144,847,557UniSTSRGSC3.4
Celera3141,615,104 - 141,615,330UniSTS
Cytogenetic Map3q41UniSTS


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 67 160 91 90 59 83 59 6 347 183 11 139 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000021715   ⟹   ENSRNOP00000021715
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3163,336,516 - 163,366,927 (-)Ensembl
mRatBN7.2 Ensembl3142,876,296 - 142,906,709 (-)Ensembl
Rnor_6.0 Ensembl3149,874,030 - 149,905,944 (-)Ensembl
RefSeq Acc Id: NM_001100901   ⟹   NP_001094371
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83163,336,513 - 163,366,927 (-)NCBI
mRatBN7.23142,876,293 - 142,906,709 (-)NCBI
Rnor_6.03149,874,027 - 149,905,944 (-)NCBI
Rnor_5.03156,245,190 - 156,278,486 (-)NCBI
RGSC_v3.43144,843,678 - 144,874,238 (-)RGD
Celera3141,611,616 - 141,641,783 (-)RGD
Sequence:
RefSeq Acc Id: XM_006235326   ⟹   XP_006235388
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83163,336,509 - 163,366,954 (-)NCBI
mRatBN7.23142,876,285 - 142,906,737 (-)NCBI
Rnor_6.03149,874,023 - 149,905,980 (-)NCBI
Rnor_5.03156,245,190 - 156,278,486 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001094371 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235388 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI00087 (Get FASTA)   NCBI Sequence Viewer  
  AAI69101 (Get FASTA)   NCBI Sequence Viewer  
  EDL85970 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000021715
  ENSRNOP00000021715.6
RefSeq Acc Id: NP_001094371   ⟸   NM_001100901
- UniProtKB: B5DFL0 (UniProtKB/TrEMBL),   F1MA17 (UniProtKB/TrEMBL),   A0A8J8Y1B9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235388   ⟸   XM_006235326
- Peptide Label: isoform X1
- UniProtKB: A0A8J8Y1B9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000021715   ⟸   ENSRNOT00000021715
Protein Domains
PDZ   PH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DFL0-F1-model_v2 AlphaFold B5DFL0 1-499 view protein structure

Transcriptome

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

Promoters
RGD ID:13692572
Promoter ID:EPDNEW_R3097
Type:initiation region
Name:Snta1_1
Description:syntrophin, alpha 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_6.03149,905,921 - 149,905,981EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307068 AgrOrtholog
BioCyc Gene G2FUF-47177 BioCyc
Ensembl Genes ENSRNOG00000016062 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000021715 ENTREZGENE
  ENSRNOT00000021715.8 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/TrEMBL
  2.30.42.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7370211 IMAGE-MGC_LOAD
InterPro PDZ UniProtKB/TrEMBL
  PDZ_sf UniProtKB/TrEMBL
  PH_dom-like UniProtKB/TrEMBL
  PHsplit_syntrophin UniProtKB/TrEMBL
  Pleckstrin_homology UniProtKB/TrEMBL
  Syntrophin UniProtKB/TrEMBL
  Syntrophin_4th UniProtKB/TrEMBL
KEGG Report rno:362242 UniProtKB/TrEMBL
MGC_CLONE MGC:112776 IMAGE-MGC_LOAD
NCBI Gene 362242 ENTREZGENE
PANTHER PTHR10554:SF6 UniProtKB/TrEMBL
  Syntrophin UniProtKB/TrEMBL
Pfam PDZ UniProtKB/TrEMBL
  PF00169 UniProtKB/TrEMBL
  PH_17 UniProtKB/TrEMBL
  Syntrophin_4th UniProtKB/TrEMBL
PhenoGen Snta1 PhenoGen
PROSITE PDZ UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000016062 RatGTEx
SMART PDZ UniProtKB/TrEMBL
  SM00233 UniProtKB/TrEMBL
Superfamily-SCOP PDZ UniProtKB/TrEMBL
  PH domain-like UniProtKB/TrEMBL
UniProt A0A8J8Y1B9 ENTREZGENE, UniProtKB/TrEMBL
  A6KHY5_RAT UniProtKB/TrEMBL
  B5DFL0 ENTREZGENE, UniProtKB/TrEMBL
  F1MA17 ENTREZGENE
  Q498T0_RAT UniProtKB/TrEMBL
UniProt Secondary F1MA17 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-04 Snta1  syntrophin, alpha 1  Snta1  syntrophin, acidic 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Snta1  syntrophin, acidic 1  Snta1_predicted  syntrophin, acidic 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Snta1_predicted  syntrophin, acidic 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED