Smyd1 (SET and MYND domain containing 1) - Rat Genome Database

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Gene: Smyd1 (SET and MYND domain containing 1) Rattus norvegicus
Analyze
Symbol: Smyd1
Name: SET and MYND domain containing 1
RGD ID: 1305105
Description: Predicted to enable histone H3K4 methyltransferase activity and transcription corepressor activity. Predicted to be involved in heart development; negative regulation of DNA-templated transcription; and positive regulation of cell differentiation. Predicted to act upstream of or within chromatin remodeling and skeletal muscle cell differentiation. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human SMYD1 (SET and MYND domain containing 1); PARTICIPATES IN histone modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: histone-lysine N-methyltransferase SMYD1; LOC297333; SET and MYND domain-containing protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84104,757,281 - 104,811,307 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4104,760,475 - 104,870,081 (-)EnsemblGRCr8
mRatBN7.24103,195,330 - 103,252,989 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,200,322 - 103,311,766 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4108,590,805 - 108,642,610 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04104,365,906 - 104,417,714 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04102,972,276 - 103,022,881 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,071,122 - 99,125,143 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,074,535 - 99,125,111 (-)Ensemblrn6Rnor6.0
Rnor_5.04163,848,270 - 163,904,185 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44104,423,556 - 104,475,134 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera492,378,302 - 92,428,867 (-)NCBICelera
RGSC_v3.14104,664,623 - 104,728,216 (-)NCBI
Cytogenetic Map4q32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA,ISO)
nucleus  (IBA,IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Histone lysine methylation dynamics: establishment, regulation, and biological impact. Black JC, etal., Mol Cell. 2012 Nov 30;48(4):491-507. doi: 10.1016/j.molcel.2012.11.006.
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 MGI mouse gene data--August 2006 MGD data from the GO Consortium
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
7. Molecular mechanisms of ventricular hypoplasia. Srivastava D, etal., Cold Spring Harb Symp Quant Biol. 2002;67:121-5.
Additional References at PubMed
PMID:11923873   PMID:19783823   PMID:22147266   PMID:27663768   PMID:31904090   PMID:32977624  


Genomics

Comparative Map Data
Smyd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84104,757,281 - 104,811,307 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4104,760,475 - 104,870,081 (-)EnsemblGRCr8
mRatBN7.24103,195,330 - 103,252,989 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4103,200,322 - 103,311,766 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4108,590,805 - 108,642,610 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04104,365,906 - 104,417,714 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04102,972,276 - 103,022,881 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0499,071,122 - 99,125,143 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl499,074,535 - 99,125,111 (-)Ensemblrn6Rnor6.0
Rnor_5.04163,848,270 - 163,904,185 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44104,423,556 - 104,475,134 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera492,378,302 - 92,428,867 (-)NCBICelera
RGSC_v3.14104,664,623 - 104,728,216 (-)NCBI
Cytogenetic Map4q32NCBI
SMYD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38288,067,825 - 88,113,384 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl288,067,773 - 88,113,384 (+)Ensemblhg38GRCh38
GRCh37288,367,344 - 88,412,903 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36288,148,497 - 88,194,018 (+)NCBIBuild 36Build 36hg18NCBI36
Celera288,373,097 - 88,418,568 (-)NCBICelera
Cytogenetic Map2p11.2NCBI
HuRef287,289,577 - 87,335,154 (+)NCBIHuRef
CHM1_1288,296,599 - 88,342,189 (+)NCBICHM1_1
T2T-CHM13v2.0288,079,089 - 88,124,637 (+)NCBIT2T-CHM13v2.0
Smyd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39671,190,924 - 71,239,265 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl671,190,924 - 71,299,217 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38671,213,940 - 71,262,281 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl671,213,940 - 71,322,233 (-)Ensemblmm10GRCm38
MGSCv37671,163,934 - 71,212,275 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36671,144,757 - 71,191,832 (-)NCBIMGSCv36mm8
Celera673,293,207 - 73,341,506 (-)NCBICelera
Cytogenetic Map6C1NCBI
cM Map632.14NCBI
Smyd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955424769,287 - 800,885 (-)Ensembl
ChiLan1.0NW_004955424769,287 - 800,646 (-)NCBIChiLan1.0ChiLan1.0
SMYD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21239,189,326 - 39,234,524 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A39,192,086 - 39,237,284 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A87,201,207 - 87,246,416 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A89,109,444 - 89,155,797 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A89,108,642 - 89,155,797 (+)EnsemblpanPan2panpan1.1
SMYD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11738,260,897 - 38,298,248 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1738,259,624 - 38,298,183 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1737,945,978 - 37,983,287 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01738,993,154 - 39,030,296 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1738,991,672 - 39,030,254 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11738,160,034 - 38,197,325 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01738,196,046 - 38,233,224 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01738,544,368 - 38,581,633 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Smyd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629280,077,527 - 80,110,874 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936712747,841 - 780,517 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936712747,060 - 781,142 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMYD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl357,867,250 - 57,918,568 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1357,866,078 - 57,918,576 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2360,559,524 - 60,607,410 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMYD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11418,676,396 - 18,721,532 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1418,676,394 - 18,720,903 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660801,054,806 - 1,098,662 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smyd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474916,399,346 - 16,432,887 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474916,400,037 - 16,432,956 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Smyd1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1674,229,276 - 74,277,852 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Smyd1
412 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:345
Count of miRNA genes:205
Interacting mature miRNAs:247
Transcripts:ENSRNOT00000009184
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486583980149763391Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)496731383141731383Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)439431983123203361Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)492406430137406430Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1357342Bw40Body weight QTL 400.001body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
631556Bp135Blood pressure QTL 1350.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)480212111119233320Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)426234499134199155Rat
70167Bw22Body weight QTL 223.1body mass (VT:0001259)body weight (CMO:0000012)474233320119233320Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)471647492116647492Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482944895154403548Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)427862204126119996Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)465060960127749483Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)451085655113588029Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)488883695133883695Rat
2317588Eae27Experimental allergic encephalomyelitis QTL 27nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)469036742114036742Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)440490442117737312Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4103834277148834277Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)488883695133883695Rat
2306547Iddm38Insulin dependent diabetes mellitus QTL 38blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)468353567113353567Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
2306545Iddm39Insulin dependent diabetes mellitus QTL 39blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)478687630123687630Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)474169813134199155Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)486058928131411333Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)459836842104836842Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)484349032129349032Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463245026129846354Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)464209744109209744Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)457664252127749483Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)482336765127336765Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)464084079109084079Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)486583980131583980Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)463224393108224393Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)433538597116185060Rat


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 62 107 76 75 44 31 44 6 271 126 11 83 79 73 31 8 8

Sequence


Ensembl Acc Id: ENSRNOT00000009184   ⟹   ENSRNOP00000009184
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4104,760,694 - 104,811,272 (-)Ensembl
mRatBN7.2 Ensembl4103,200,322 - 103,252,952 (-)Ensembl
Rnor_6.0 Ensembl499,074,535 - 99,125,111 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093960   ⟹   ENSRNOP00000097130
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4104,760,694 - 104,870,081 (-)Ensembl
mRatBN7.2 Ensembl4103,200,322 - 103,311,766 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094006   ⟹   ENSRNOP00000077690
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4104,760,694 - 104,816,652 (-)Ensembl
mRatBN7.2 Ensembl4103,200,322 - 103,253,004 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000097634   ⟹   ENSRNOP00000093849
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4104,760,694 - 104,816,652 (-)Ensembl
mRatBN7.2 Ensembl4103,200,322 - 103,252,952 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000119454   ⟹   ENSRNOP00000086450
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4104,760,694 - 104,811,272 (-)Ensembl
mRatBN7.2 Ensembl4103,202,808 - 103,253,018 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000128930   ⟹   ENSRNOP00000101538
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4104,760,475 - 104,819,841 (-)Ensembl
RefSeq Acc Id: NM_001106595   ⟹   NP_001100065
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84104,760,694 - 104,811,272 (-)NCBI
mRatBN7.24103,202,369 - 103,252,956 (-)NCBI
Rnor_6.0499,074,535 - 99,125,111 (-)NCBI
Rnor_5.04163,848,270 - 163,904,185 (-)NCBI
RGSC_v3.44104,423,556 - 104,475,134 (-)RGD
Celera492,378,302 - 92,428,867 (-)RGD
Sequence:
RefSeq Acc Id: XM_006236632   ⟹   XP_006236694
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84104,757,281 - 104,811,296 (-)NCBI
mRatBN7.24103,195,330 - 103,252,973 (-)NCBI
Rnor_6.0499,071,122 - 99,125,142 (-)NCBI
Rnor_5.04163,848,270 - 163,904,185 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017592535   ⟹   XP_017448024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84104,757,281 - 104,811,293 (-)NCBI
mRatBN7.24103,195,330 - 103,252,989 (-)NCBI
Rnor_6.0499,071,122 - 99,125,143 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039107313   ⟹   XP_038963241
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84104,757,281 - 104,811,300 (-)NCBI
mRatBN7.24103,195,330 - 103,252,989 (-)NCBI
RefSeq Acc Id: XM_063285775   ⟹   XP_063141845
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84104,757,281 - 104,811,293 (-)NCBI
RefSeq Acc Id: XM_063285776   ⟹   XP_063141846
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84104,757,281 - 104,811,307 (-)NCBI
RefSeq Acc Id: NP_001100065   ⟸   NM_001106595
- UniProtKB: D4A3D2 (UniProtKB/TrEMBL),   A6IA68 (UniProtKB/TrEMBL),   A0A8I6AQZ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236694   ⟸   XM_006236632
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AKQ9 (UniProtKB/TrEMBL),   A6IA67 (UniProtKB/TrEMBL),   A0A8I6AQZ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448024   ⟸   XM_017592535
- Peptide Label: isoform X2
- UniProtKB: A0A8I6AQZ0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000009184   ⟸   ENSRNOT00000009184
RefSeq Acc Id: XP_038963241   ⟸   XM_039107313
- Peptide Label: isoform X4
- UniProtKB: A0A8I5YCG5 (UniProtKB/TrEMBL),   A0A8I6AQZ0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000093849   ⟸   ENSRNOT00000097634
Ensembl Acc Id: ENSRNOP00000097130   ⟸   ENSRNOT00000093960
Ensembl Acc Id: ENSRNOP00000086450   ⟸   ENSRNOT00000119454
Ensembl Acc Id: ENSRNOP00000077690   ⟸   ENSRNOT00000094006
RefSeq Acc Id: XP_063141846   ⟸   XM_063285776
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063141845   ⟸   XM_063285775
- Peptide Label: isoform X3
- UniProtKB: A0A8I6A681 (UniProtKB/TrEMBL),   A0A8I6AQZ0 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000101538   ⟸   ENSRNOT00000128930
Protein Domains
MYND-type   SET

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A3D2-F1-model_v2 AlphaFold D4A3D2 1-490 view protein structure

Transcriptome

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

Promoters
RGD ID:13693110
Promoter ID:EPDNEW_R3635
Type:single initiation site
Name:Smyd1_1
Description:SET and MYND domain containing 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_6.0499,125,102 - 99,125,162EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305105 AgrOrtholog
BioCyc Gene G2FUF-44191 BioCyc
Ensembl Genes ENSRNOG00000006776 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009184 ENTREZGENE
  ENSRNOT00000009184.7 UniProtKB/TrEMBL
  ENSRNOT00000093960.2 UniProtKB/TrEMBL
  ENSRNOT00000094006.2 UniProtKB/TrEMBL
  ENSRNOT00000097634.2 UniProtKB/TrEMBL
  ENSRNOT00000119454 ENTREZGENE
  ENSRNOT00000119454.2 UniProtKB/TrEMBL
  ENSRNOT00000128930.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.220.160 UniProtKB/TrEMBL
  1.25.40.10 UniProtKB/TrEMBL
  1.25.40.970 UniProtKB/TrEMBL
  2.170.270.10 UniProtKB/TrEMBL
  6.10.140.2220 UniProtKB/TrEMBL
InterPro H3K4_H4K5_MeTrfase UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SET_dom_sf UniProtKB/TrEMBL
  SMYD1_SET UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/TrEMBL
  Znf_MYND UniProtKB/TrEMBL
KEGG Report rno:297333 UniProtKB/TrEMBL
NCBI Gene 297333 ENTREZGENE
PANTHER HISTONE-LYSINE N-METHYLTRANSFERASE SMYD UniProtKB/TrEMBL
  HISTONE-LYSINE N-METHYLTRANSFERASE SMYD1 UniProtKB/TrEMBL
Pfam SET UniProtKB/TrEMBL
  zf-MYND UniProtKB/TrEMBL
PhenoGen Smyd1 PhenoGen
PROSITE SET UniProtKB/TrEMBL
  ZF_MYND_1 UniProtKB/TrEMBL
  ZF_MYND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006776 RatGTEx
SMART SET UniProtKB/TrEMBL
Superfamily-SCOP SSF82199 UniProtKB/TrEMBL
UniProt A0A8I5YCG5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A681 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AKQ9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AQZ0 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L979_RAT UniProtKB/TrEMBL
  A6IA67 ENTREZGENE, UniProtKB/TrEMBL
  A6IA68 ENTREZGENE, UniProtKB/TrEMBL
  D4A3D2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Smyd1  SET and MYND domain containing 1   Smyd1_predicted  SET and MYND domain containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Smyd1_predicted  SET and MYND domain containing 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED