Msantd3 (Myb/SANT DNA binding domain containing 3) - Rat Genome Database

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Gene: Msantd3 (Myb/SANT DNA binding domain containing 3) Rattus norvegicus
Analyze
Symbol: Msantd3
Name: Myb/SANT DNA binding domain containing 3
RGD ID: 1308165
Description: Orthologous to human MSANTD3 (Myb/SANT DNA binding domain containing 3); INTERACTS WITH (+)-schisandrin B; 1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC362516; LOC362516; Myb/SANT-like DNA-binding domain containing 3; myb/SANT-like DNA-binding domain-containing protein 3; RGD1308165; similar to hypothetical protein MGC17337; uncharacterized protein LOC362516
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8567,661,551 - 67,687,971 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl567,661,912 - 67,684,384 (+)EnsemblGRCr8
mRatBN7.2562,866,022 - 62,892,444 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl562,866,022 - 62,888,859 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx564,843,699 - 64,866,488 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0566,663,001 - 66,685,790 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0566,632,470 - 66,655,259 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0564,282,351 - 64,308,606 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl564,282,351 - 64,306,860 (+)Ensemblrn6Rnor6.0
Rnor_5.0568,798,535 - 68,824,561 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4565,226,927 - 65,249,757 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera564,707,406 - 64,730,233 (-)NCBICelera
RGSC_v3.1565,231,899 - 65,254,868 (+)NCBI
Cytogenetic Map5q22NCBI
JBrowse:




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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15931062  


Genomics

Comparative Map Data
Msantd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8567,661,551 - 67,687,971 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl567,661,912 - 67,684,384 (+)EnsemblGRCr8
mRatBN7.2562,866,022 - 62,892,444 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl562,866,022 - 62,888,859 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx564,843,699 - 64,866,488 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0566,663,001 - 66,685,790 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0566,632,470 - 66,655,259 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0564,282,351 - 64,308,606 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl564,282,351 - 64,306,860 (+)Ensemblrn6Rnor6.0
Rnor_5.0568,798,535 - 68,824,561 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4565,226,927 - 65,249,757 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera564,707,406 - 64,730,233 (-)NCBICelera
RGSC_v3.1565,231,899 - 65,254,868 (+)NCBI
Cytogenetic Map5q22NCBI
MSANTD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389100,427,143 - 100,451,734 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9100,426,693 - 100,451,734 (+)Ensemblhg38GRCh38
GRCh379103,189,425 - 103,214,016 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369102,229,463 - 102,253,334 (+)NCBIBuild 36Build 36hg18NCBI36
Celera973,702,878 - 73,726,749 (+)NCBICelera
Cytogenetic Map9q31.1NCBI
HuRef972,788,537 - 72,812,720 (+)NCBIHuRef
CHM1_19103,336,161 - 103,360,449 (+)NCBICHM1_1
T2T-CHM13v2.09112,598,812 - 112,623,397 (+)NCBIT2T-CHM13v2.0
Msantd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39448,539,532 - 48,565,892 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl448,539,935 - 48,561,919 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38448,539,854 - 48,565,892 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl448,539,935 - 48,561,919 (+)Ensemblmm10GRCm38
MGSCv37448,552,818 - 48,574,792 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36448,561,599 - 48,583,019 (+)NCBIMGSCv36mm8
Celera448,564,491 - 48,586,302 (+)NCBICelera
Cytogenetic Map4B1NCBI
cM Map426.13NCBI
Msantd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541925,189,131 - 25,329,985 (-)Ensembl
ChiLan1.0NW_00495541925,305,885 - 25,329,518 (-)NCBIChiLan1.0ChiLan1.0
MSANTD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21138,913,436 - 38,937,995 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1938,910,974 - 38,940,366 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0971,634,115 - 71,658,665 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1999,631,091 - 99,655,295 (+)NCBIPanPan1.1PanPan1.1panPan2
MSANTD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1155,774,354 - 55,796,206 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01158,451,209 - 58,473,250 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1158,450,990 - 58,580,389 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11156,955,818 - 56,977,823 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01156,981,048 - 57,003,083 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01157,680,708 - 57,702,770 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
MSANTD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1242,169,472 - 242,194,863 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11242,168,922 - 242,194,873 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21270,529,088 - 270,555,034 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MSANTD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11238,979,429 - 39,087,415 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660353,550,353 - 3,579,776 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Msantd3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11101,608,531 - 101,632,307 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Msantd3
155 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:389
Count of miRNA genes:230
Interacting mature miRNAs:274
Transcripts:ENSRNOT00000011273
Prediction methods:Microtar, 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
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)53275164977751649Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53801167083011670Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)55266537294894052Rat
6907115Mcs29Mammary carcinoma susceptibility QTL 29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)53800433183004331Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)52367149379046465Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)565089051103648916Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53801167083011670Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53801167083011670Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)539019942102105896Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)53331167378311673Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)53275164977751649Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)53998594884985948Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53331167378311673Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)53952692484526924Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54852312391770353Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)560511627105511627Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)564589016109589016Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52602321171023211Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)56458901693503770Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)556546393101546393Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)52367149368671493Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)56458901691762830Rat


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 67 162 91 90 59 51 59 6 315 151 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000011273   ⟹   ENSRNOP00000011273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl567,661,912 - 67,684,384 (+)Ensembl
mRatBN7.2 Ensembl562,866,022 - 62,888,859 (+)Ensembl
Rnor_6.0 Ensembl564,282,351 - 64,305,021 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000083796   ⟹   ENSRNOP00000073524
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl564,294,321 - 64,306,860 (+)Ensembl
RefSeq Acc Id: NM_001108664   ⟹   NP_001102134
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8567,661,551 - 67,684,386 (+)NCBI
mRatBN7.2562,866,022 - 62,888,859 (+)NCBI
Rnor_6.0564,282,351 - 64,305,021 (+)NCBI
Rnor_5.0568,798,535 - 68,824,561 (+)NCBI
RGSC_v3.4565,226,927 - 65,249,757 (+)RGD
Celera564,707,406 - 64,730,233 (-)RGD
Sequence:
RefSeq Acc Id: XM_039110241   ⟹   XP_038966169
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8567,661,892 - 67,687,971 (+)NCBI
mRatBN7.2562,866,394 - 62,892,444 (+)NCBI
RefSeq Acc Id: XM_039110242   ⟹   XP_038966170
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8567,661,589 - 67,687,971 (+)NCBI
mRatBN7.2562,866,063 - 62,892,444 (+)NCBI
RefSeq Acc Id: NP_001102134   ⟸   NM_001108664
- UniProtKB: D4A3I3 (UniProtKB/TrEMBL),   A6KJF2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000073524   ⟸   ENSRNOT00000083796
Ensembl Acc Id: ENSRNOP00000011273   ⟸   ENSRNOT00000011273
RefSeq Acc Id: XP_038966170   ⟸   XM_039110242
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966169   ⟸   XM_039110241
- Peptide Label: isoform X1
Protein Domains
Myb/SANT-like DNA-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A3I3-F1-model_v2 AlphaFold D4A3I3 1-275 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308165 AgrOrtholog
BioCyc Gene G2FUF-41353 BioCyc
Ensembl Genes ENSRNOG00000008159 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000011273 ENTREZGENE
  ENSRNOT00000011273.7 UniProtKB/TrEMBL
InterPro Myb_DNA-bind_5 UniProtKB/TrEMBL
KEGG Report rno:362516 UniProtKB/TrEMBL
NCBI Gene 362516 ENTREZGENE
PANTHER MYB/SANT-LIKE DNA-BINDING DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
  PTHR21632 UniProtKB/TrEMBL
Pfam Myb_DNA-bind_5 UniProtKB/TrEMBL
PhenoGen Msantd3 PhenoGen
RatGTEx ENSRNOG00000008159 RatGTEx
UniProt A6KJF2 ENTREZGENE, UniProtKB/TrEMBL
  D4A3I3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Msantd3  Myb/SANT DNA binding domain containing 3  Msantd3  Myb/SANT-like DNA-binding domain containing 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Msantd3  Myb/SANT-like DNA-binding domain containing 3  RGD1308165  similar to hypothetical protein MGC17337  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1308165  similar to hypothetical protein MGC17337   RGD1308165_predicted  similar to hypothetical protein MGC17337 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1308165_predicted  similar to hypothetical protein MGC17337 (predicted)  LOC362516_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC362516_predicted  similar to hypothetical protein MGC17337 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL