Smad9 (SMAD family member 9) - Rat Genome Database

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Gene: Smad9 (SMAD family member 9) Rattus norvegicus
Analyze
Symbol: Smad9
Name: SMAD family member 9
RGD ID: 71004
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; I-SMAD binding activity; and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including Mullerian duct regression; positive regulation of DNA-templated transcription; and response to hypoxia. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of heteromeric SMAD protein complex. Biomarker of pulmonary hypertension. Human ortholog(s) of this gene implicated in primary pulmonary hypertension. Orthologous to human SMAD9 (SMAD family member 9); PARTICIPATES IN Bone morphogenetic proteins signaling pathway; transforming growth factor-beta superfamily mediated signaling pathway; INTERACTS WITH 3,3',4,4',5-pentachlorobiphenyl; acrylamide; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC103691556; MAD homolog 9; MAD homolog 9 (Drosophila); Madh9; mothers against decapentaplegic homolog 9; mothers against DPP homolog 9; SMAD 9; Smad8
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22138,956,326 - 139,006,315 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2138,986,471 - 139,006,307 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2145,530,752 - 145,581,180 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02143,642,776 - 143,692,620 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02138,274,611 - 138,325,053 (+)NCBIRnor_WKY
Rnor_6.02143,951,725 - 144,002,025 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2143,951,838 - 143,998,205 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl2144,191,846 - 144,212,138 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02163,609,377 - 163,629,230 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42144,014,436 - 144,030,672 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12143,964,398 - 143,980,635 (+)NCBI
Celera2133,441,288 - 133,491,482 (+)NCBICelera
RH 3.4 Map2858.9RGD
Cytogenetic Map2q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-naphthylamine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-methoxypsoralen  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
aucubin  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dioxygen  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
furan  (ISO)
gentamycin  (EXP)
glycerol 2-phosphate  (ISO)
GW 4064  (ISO)
imperatorin  (ISO)
L-ascorbic acid  (ISO)
lead diacetate  (ISO)
leflunomide  (ISO)
methylmercury chloride  (ISO)
neomycin  (ISO)
nicotine  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
phenylmercury acetate  (ISO)
pioglitazone  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
rifampicin  (ISO)
Salidroside  (ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
simvastatin  (ISO)
sirtinol  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloroethene  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
valproic acid  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Smad8 mediates the signaling of the ALK-2 receptor serine kinase. Chen Y, etal., Proc Natl Acad Sci U S A 1997 Nov 25;94(24):12938-43.
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. Neotendon formation induced by manipulation of the Smad8 signalling pathway in mesenchymal stem cells. Hoffmann A, etal., J Clin Invest. 2006 Apr;116(4):940-52.
5. Loss of BMP2, Smad8, and Smad4 expression in prostate cancer progression. Horvath LG, etal., Prostate. 2004 May 15;59(3):234-42.
6. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
7. Gene Data Set MGD Curation, June 12, 2002
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Dysregulated bone morphogenetic protein signaling in monocrotaline-induced pulmonary arterial hypertension. Morty RE, etal., Arterioscler Thromb Vasc Biol. 2007 May;27(5):1072-8. Epub 2007 Mar 8.
10. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. Altered expression of Smad family members in injured motor neurons of rat. Okuyama N, etal., Brain Res. 2007 Feb 9;1132(1):36-41. Epub 2006 Dec 12.
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
14. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
15. GOA pipeline RGD automated data pipeline
16. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
18. Comprehensive gene review and curation RGD comprehensive gene curation
19. Downregulation of type II bone morphogenetic protein receptor in hypoxic pulmonary hypertension. Takahashi H, etal., Am J Physiol Lung Cell Mol Physiol. 2006 Mar;290(3):L450-8. Epub 2005 Dec 16.
20. Hypoxia induces alteration of bone morphogenetic protein receptor signaling in pulmonary artery endothelial cell. Takahashi K, etal., Pediatr Res. 2007 Apr;61(4):392-7.
21. Mullerian inhibiting substance regulates its receptor/SMAD signaling and causes mesenchymal transition of the coelomic epithelial cells early in Mullerian duct regression. Zhan Y, etal., Development. 2006 Jun;133(12):2359-69. Epub 2006 May 10.
Additional References at PubMed
PMID:12714599   PMID:14656760   PMID:15899870   PMID:18590716   PMID:18776146   PMID:19103752   PMID:19224984   PMID:19252488   PMID:19793887   PMID:21515935   PMID:26687945   PMID:27035233  


Genomics

Comparative Map Data
Smad9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22138,956,326 - 139,006,315 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2138,986,471 - 139,006,307 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2145,530,752 - 145,581,180 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02143,642,776 - 143,692,620 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02138,274,611 - 138,325,053 (+)NCBIRnor_WKY
Rnor_6.02143,951,725 - 144,002,025 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2143,951,838 - 143,998,205 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl2144,191,846 - 144,212,138 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02163,609,377 - 163,629,230 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42144,014,436 - 144,030,672 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12143,964,398 - 143,980,635 (+)NCBI
Celera2133,441,288 - 133,491,482 (+)NCBICelera
RH 3.4 Map2858.9RGD
Cytogenetic Map2q26NCBI
SMAD9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381336,844,831 - 36,920,854 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1336,844,831 - 36,920,765 (-)EnsemblGRCh38hg38GRCh38
GRCh371337,418,968 - 37,494,375 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361336,320,321 - 36,351,966 (-)NCBINCBI36Build 36hg18NCBI36
Build 341336,320,320 - 36,351,966NCBI
Celera1318,486,256 - 18,561,694 (-)NCBICelera
Cytogenetic Map13q13.3NCBI
HuRef1318,230,428 - 18,265,347 (-)NCBIHuRef
CHM1_11337,386,514 - 37,421,563 (-)NCBICHM1_1
T2T-CHM13v2.01336,064,076 - 36,139,231 (-)NCBIT2T-CHM13v2.0
Smad9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39354,662,873 - 54,709,162 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl354,663,003 - 54,708,678 (+)EnsemblGRCm39 Ensembl
GRCm38354,755,455 - 54,801,662 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl354,755,582 - 54,801,257 (+)EnsemblGRCm38mm10GRCm38
MGSCv37354,559,504 - 54,605,179 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36354,843,511 - 54,889,186 (+)NCBIMGSCv36mm8
Celera354,477,243 - 54,523,151 (+)NCBICelera
Cytogenetic Map3CNCBI
Smad9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554319,117,616 - 9,184,920 (+)NCBIChiLan1.0ChiLan1.0
SMAD9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11336,486,595 - 36,521,646 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1336,486,597 - 36,521,646 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01318,055,427 - 18,130,571 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SMAD9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1253,768,851 - 3,844,645 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl253,779,197 - 3,841,321 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha253,798,972 - 3,874,799 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0253,867,196 - 3,943,051 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl253,867,166 - 3,943,035 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1253,817,322 - 3,845,450 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0253,767,514 - 3,842,931 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0253,833,387 - 3,909,198 (+)NCBIUU_Cfam_GSD_1.0
Smad9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945164,902,130 - 164,971,217 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647230,980,928 - 31,049,618 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493647230,980,850 - 31,050,138 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMAD9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1112,705,368 - 12,763,008 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11112,705,652 - 12,727,981 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21112,653,062 - 12,675,499 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMAD9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1315,369,119 - 15,444,599 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl315,372,933 - 15,405,836 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605728,840,614 - 28,916,197 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smad9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624776332,591 - 378,199 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Smad9
182 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:37
Count of miRNA genes:31
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000000102
Prediction methods:Miranda, Rnahybrid, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)259324377141596857Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)272532993157142209Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)276539322150540526Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
2299162Iddm32Insulin dependent diabetes mellitus QTL 322.36blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)278665616143657569Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2102803808147803808Rat
8662836Vetf8Vascular elastic tissue fragility QTL 80.66thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2104559726149559726Rat
1581552Pur12Proteinuria QTL 125.190.0009urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)2112103657148076632Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1354594Despr10Despair related QTL 100.00000249locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)2114654253159654253Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527143657569Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527143657569Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
5135226Leukc2Leukocyte quantity QTL 2eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)2118111229149559726Rat
1582257Gluco21Glucose level QTL 213.10.0035blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2118111229157142209Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2118189491163189491Rat
1581578Cm49Cardiac mass QTL 494.90.01heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2127447387143657569Rat
1358360Sradr2Stress Responsive Adrenal Weight QTL 210.24adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)2129164097152195315Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2129540907174540907Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
12879830Bw178Body weight QTL 1780.001body mass (VT:0001259)body weight (CMO:0000012)2137219876142323610Rat
12879831Cm82Cardiac mass QTL 820.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2137219876142323610Rat
12879832Cm83Cardiac mass QTL 830.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2137219876142323610Rat
12879833Cm84Cardiac mass QTL 840.001heart right ventricle mass (VT:0007033)heart weight to body weight ratio (CMO:0000074)2137219876142323610Rat
12879834Am1Aortic mass QTL 10.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2137219876142323610Rat
12879835Kidm60Kidney mass QTL 600.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2137219876142323610Rat
1549841Bp256Blood pressure QTL 2560.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2137219876142323610Rat

Markers in Region
RH143177  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22138,991,502 - 138,991,613 (+)MAPPERmRatBN7.2
Rnor_6.02144,196,866 - 144,196,976NCBIRnor6.0
Rnor_6.02143,986,905 - 143,987,015NCBIRnor6.0
Rnor_5.02163,614,419 - 163,614,529UniSTSRnor5.0
RGSC_v3.42144,019,412 - 144,019,522UniSTSRGSC3.4
Celera2133,476,642 - 133,476,752UniSTS
RH 3.4 Map2860.2UniSTS
Cytogenetic Map2q26UniSTS
RH94763  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22139,002,602 - 139,002,762 (+)MAPPERmRatBN7.2
Rnor_6.02144,207,965 - 144,208,124NCBIRnor6.0
Rnor_6.02143,998,004 - 143,998,163NCBIRnor6.0
Rnor_5.02163,625,518 - 163,625,677UniSTSRnor5.0
RGSC_v3.42144,030,511 - 144,030,670UniSTSRGSC3.4
Celera2133,487,461 - 133,487,620UniSTS
RH 3.4 Map2858.9UniSTS
Cytogenetic Map2q26UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 10
Low 3 43 29 13 19 13 4 4 60 33 36 4 4
Below cutoff 2 27 37 32 1 32 4 6 35 8 26 8 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000102   ⟹   ENSRNOP00000000102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2138,986,471 - 139,006,307 (+)Ensembl
Rnor_6.0 Ensembl2144,191,846 - 144,212,138 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079544   ⟹   ENSRNOP00000070480
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2138,986,575 - 139,006,307 (+)Ensembl
Rnor_6.0 Ensembl2143,951,838 - 143,998,205 (+)Ensembl
RefSeq Acc Id: NM_138872   ⟹   NP_620227
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,956,505 - 139,006,315 (+)NCBI
Rnor_6.02143,981,929 - 143,998,165 (+)NCBI
Rnor_5.02163,609,377 - 163,629,230 (+)NCBI
RGSC_v3.42144,014,436 - 144,030,672 (+)RGD
Sequence:
RefSeq Acc Id: XM_017591146   ⟹   XP_017446635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,956,326 - 139,006,315 (+)NCBI
Rnor_6.02143,951,725 - 144,002,025 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103275   ⟹   XP_038959203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,956,329 - 139,006,315 (+)NCBI
RefSeq Acc Id: XM_039103277   ⟹   XP_038959205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,956,326 - 139,006,315 (+)NCBI
RefSeq Acc Id: XM_039103278   ⟹   XP_038959206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22138,956,326 - 139,006,315 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_620227   ⟸   NM_138872
- UniProtKB: G3V603 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446635   ⟸   XM_017591146
- Peptide Label: isoform X1
- UniProtKB: G3V603 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070480   ⟸   ENSRNOT00000079544
RefSeq Acc Id: ENSRNOP00000000102   ⟸   ENSRNOT00000000102
RefSeq Acc Id: XP_038959206   ⟸   XM_039103278
- Peptide Label: isoform X1
- UniProtKB: G3V603 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038959205   ⟸   XM_039103277
- Peptide Label: isoform X1
- UniProtKB: G3V603 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038959203   ⟸   XM_039103275
- Peptide Label: isoform X1
- UniProtKB: G3V603 (UniProtKB/TrEMBL)
Protein Domains
MH1   MH2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O54835-F1-model_v2 AlphaFold O54835 1-434 view protein structure

Transcriptome

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

Promoters
RGD ID:13691329
Promoter ID:EPDNEW_R1854
Type:single initiation site
Name:LOC103691556_1
Description:mothers against decapentaplegic homolog 9
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_6.02143,951,779 - 143,951,839EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:71004 AgrOrtholog
BioCyc Gene G2FUF-53074 BioCyc
Ensembl Genes ENSRNOG00000000091 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000058416 Ensembl
Ensembl Protein ENSRNOP00000000102 ENTREZGENE
  ENSRNOP00000000102.1 UniProtKB/TrEMBL
  ENSRNOP00000070480 ENTREZGENE
  ENSRNOP00000070480.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000102 ENTREZGENE
  ENSRNOT00000000102.4 UniProtKB/TrEMBL
  ENSRNOT00000079544 ENTREZGENE
  ENSRNOT00000079544.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.200.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.520.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Dwarfin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAD_homology1_Dwarfin-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAD_homology_MH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMAD-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMAD_dom_Dwarfin-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMAD_FHA_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMAD_MH1_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:85435 UniProtKB/Swiss-Prot
NCBI Gene 85435 ENTREZGENE
PANTHER PTHR13703 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam MH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Smad9 PhenoGen
PROSITE MH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART DWA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DWB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49879 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56366 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JY15_RAT UniProtKB/TrEMBL
  G3V603 ENTREZGENE, UniProtKB/TrEMBL
  O54835 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Smad9  SMAD family member 9  LOC103691556  mothers against decapentaplegic homolog 9  Data Merged 737654 PROVISIONAL
2014-08-25 LOC103691556  mothers against decapentaplegic homolog 9      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-10-23 Smad9  SMAD family member 9  Smad9  MAD homolog 9 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Smad9  MAD homolog 9 (Drosophila)  Madh9    Symbol updated 1299863 APPROVED
2002-07-09 Madh9  MAD homolog 9 (Drosophila)      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction associates with Smad4 70780
gene_process activates gene transcription when associated with Smad4 70780
gene_regulation phosphorylated by a constitutively active activin receptor-like kinase (ALK-2) 70780