Trim28 (tripartite motif-containing 28) - Rat Genome Database

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Gene: Trim28 (tripartite motif-containing 28) Rattus norvegicus
Analyze
Symbol: Trim28
Name: tripartite motif-containing 28
RGD ID: 620289
Description: Predicted to enable several functions, including protein domain specific binding activity; transcription coregulator activity; and ubiquitin-like protein transferase activity. Predicted to be involved in several processes, including positive regulation of protein import into nucleus; regulation of macromolecule metabolic process; and suppression of viral release by host. Predicted to act upstream of or within several processes, including convergent extension involved in axis elongation; embryo implantation; and negative regulation of RNA biosynthetic process. Predicted to be located in euchromatin; heterochromatin; and nucleoplasm. Predicted to be part of RNA polymerase II transcription regulator complex. Orthologous to human TRIM28 (tripartite motif containing 28); PARTICIPATES IN p53 signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: E3 SUMO-protein ligase TRIM28; Kap1; KRAB-associated protein 1; Krip1; nuclear corepressor KAP-1; RING-type E3 ubiquitin transferase TIF1-beta; TIF1-beta; Tif1b; transcription intermediary factor 1-beta; tripartite motif protein 28; tripartite motif-containing protein 28
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
GRCr8182,724,842 - 82,731,566 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl182,724,838 - 82,731,572 (+)EnsemblGRCr8
mRatBN7.2173,652,441 - 73,659,388 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,652,709 - 73,659,380 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx179,033,135 - 79,039,789 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0187,597,476 - 87,604,130 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0180,788,217 - 80,794,871 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0165,544,369 - 65,551,043 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl165,544,373 - 65,551,043 (-)Ensemblrn6Rnor6.0
Rnor_5.0166,355,602 - 66,362,276 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4172,892,399 - 72,899,070 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera160,180,424 - 60,187,048 (-)NCBICelera
RGSC_v3.1172,973,571 - 72,973,906 (-)NCBI
Cytogenetic Map1q21NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-dichlorobenzene  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dimethoxyphenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-amino-2,6-dinitrotoluene  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aphidicolin  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
benzatropine  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
bisphenol F  (EXP)
bleomycin A2  (ISO)
Bufotalin  (ISO)
C60 fullerene  (EXP)
caffeine  (ISO)
camptothecin  (ISO)
cannabidiol  (ISO)
captan  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clozapine  (ISO)
cocaine  (EXP)
coumarin  (ISO)
Cuprizon  (ISO)
deoxynivalenol  (ISO)
diazinon  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (EXP)
doxorubicin  (ISO)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
folic acid  (ISO)
folpet  (ISO)
FR900359  (ISO)
furfural  (ISO)
gentamycin  (EXP)
haloperidol  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
miconazole  (ISO)
N,N-dimethylformamide  (ISO)
N-acetyl-L-cysteine  (ISO)
nicotine  (ISO)
nitrates  (ISO)
Nivalenol  (ISO)
paracetamol  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
potassium chromate  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sodium dichromate  (ISO)
tetrachloromethane  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
triphenyl phosphate  (ISO)
uranium atom  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (IEA,ISO)
euchromatin  (IEA,ISO)
heterochromatin  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO,ISS)
protein-containing complex  (IEA,ISO)
RNA polymerase II transcription regulator complex  (IBA,IEA,ISO,ISS)

Molecular Pathway Annotations     Click to see Annotation Detail View
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 GOA human gene data--August 2006 GOA data from the GO Consortium
3. Identification of a novel Kruppel-associated box domain protein, Krim-1, that interacts with c-Myc and inhibits its oncogenic activity. Hennemann H, etal., J Biol Chem 2003 Aug 1;278(31):28799-811. Epub 2003 May 13.
4. Expression of the transcriptional repressor protein Kid-1 leads to the disintegration of the nucleolus. Huang Z, etal., J Biol Chem 1999 Mar 19;274(12):7640-8.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
8. GOA pipeline RGD automated data pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8769649   PMID:8986806   PMID:9016654   PMID:10562550   PMID:10653693   PMID:11226167   PMID:11331580   PMID:11331592   PMID:12477932   PMID:15469996   PMID:15882967   PMID:17178852  
PMID:17273560   PMID:17298944   PMID:17512541   PMID:18082607   PMID:18248090   PMID:19270682   PMID:19321449   PMID:20164836   PMID:21518874   PMID:22082260   PMID:22110054   PMID:22495301  
PMID:22681889   PMID:22801370   PMID:22871113   PMID:23665872   PMID:24623306   PMID:24625528   PMID:25002582   PMID:27029610   PMID:30053369   PMID:35799276  


Genomics

Comparative Map Data
Trim28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8182,724,842 - 82,731,566 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl182,724,838 - 82,731,572 (+)EnsemblGRCr8
mRatBN7.2173,652,441 - 73,659,388 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,652,709 - 73,659,380 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx179,033,135 - 79,039,789 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0187,597,476 - 87,604,130 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0180,788,217 - 80,794,871 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0165,544,369 - 65,551,043 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl165,544,373 - 65,551,043 (-)Ensemblrn6Rnor6.0
Rnor_5.0166,355,602 - 66,362,276 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4172,892,399 - 72,899,070 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera160,180,424 - 60,187,048 (-)NCBICelera
RGSC_v3.1172,973,571 - 72,973,906 (-)NCBI
Cytogenetic Map1q21NCBI
TRIM28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381958,544,064 - 58,550,715 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1958,543,740 - 58,550,773 (+)Ensemblhg38GRCh38
GRCh371959,055,431 - 59,062,082 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361963,747,648 - 63,753,894 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341963,747,647 - 63,753,894NCBI
Celera1956,099,015 - 56,105,261 (+)NCBICelera
Cytogenetic Map19q13.43NCBI
HuRef1955,366,200 - 55,372,319 (+)NCBIHuRef
CHM1_11959,049,665 - 59,055,911 (+)NCBICHM1_1
T2T-CHM13v2.01961,641,740 - 61,648,391 (+)NCBIT2T-CHM13v2.0
Trim28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39712,758,079 - 12,764,959 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl712,733,041 - 12,764,962 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38713,024,152 - 13,031,032 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl712,999,114 - 13,031,035 (+)Ensemblmm10GRCm38
MGSCv37713,609,501 - 13,616,381 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36711,924,340 - 11,931,208 (+)NCBIMGSCv36mm8
Celera710,651,338 - 10,658,223 (+)NCBICelera
Cytogenetic Map7A1NCBI
cM Map77.73NCBI
Trim28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555841,149,598 - 1,156,266 (+)Ensembl
ChiLan1.0NW_0049555841,148,903 - 1,156,001 (+)NCBIChiLan1.0ChiLan1.0
TRIM28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22064,829,636 - 64,836,289 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11966,612,502 - 66,619,155 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01955,557,130 - 55,563,802 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11964,369,979 - 64,377,144 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1964,371,477 - 64,377,144 (+)EnsemblpanPan2panpan1.1
TRIM28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1199,408,920 - 99,415,432 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl199,408,925 - 99,415,146 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha199,786,699 - 99,813,478 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01100,001,554 - 100,028,322 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1100,022,040 - 100,028,984 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1199,646,919 - 99,673,683 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0199,359,536 - 99,386,515 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01100,114,388 - 100,141,157 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Trim28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,986,447 - 217,992,258 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004937062126,708 - 134,366 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004937062126,832 - 132,938 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,094,648 - 63,101,531 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1663,094,382 - 63,101,532 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRIM28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1650,820,188 - 50,826,376 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl650,819,833 - 50,827,010 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660454,125,654 - 4,132,206 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trim28
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462483249,324 - 56,113 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Trim28
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12174,155,178 - 174,161,797 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Trim28
31 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:130
Count of miRNA genes:98
Interacting mature miRNAs:107
Transcripts:ENSRNOT00000029996
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
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)14345783787558729Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14630261591302615Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)14345783787558729Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)14630261591302615Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)14212296887122968Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)14630261591302615Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)18126986099645535Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14345783787558729Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)14630261591302615Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15190920691302615Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)14630261591302615Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)14630261591302615Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)14350995288509952Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)14212296887122968Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)14630261591302615Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)14350995288509952Rat

Markers in Region
RH137168  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2173,659,062 - 73,659,270 (-)MAPPERmRatBN7.2
Rnor_6.0165,544,483 - 65,544,690NCBIRnor6.0
Rnor_5.0166,355,716 - 66,355,923UniSTSRnor5.0
RGSC_v3.4172,892,510 - 72,892,717UniSTSRGSC3.4
Celera160,180,535 - 60,180,742UniSTS
Cytogenetic Map1q21UniSTS
RH143061  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2173,648,021 - 73,648,135 (-)MAPPERmRatBN7.2
Rnor_6.0165,555,613 - 65,555,726NCBIRnor6.0
Rnor_5.0166,366,846 - 66,366,959UniSTSRnor5.0
RGSC_v3.4172,903,644 - 72,903,757UniSTSRGSC3.4
Celera160,191,344 - 60,191,457UniSTS
RH 3.4 Map4624.54UniSTS
Cytogenetic Map1q21UniSTS
RH126533  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2173,659,159 - 73,659,362 (-)MAPPERmRatBN7.2
Rnor_6.0165,544,391 - 65,544,593NCBIRnor6.0
Rnor_5.0166,355,624 - 66,355,826UniSTSRnor5.0
RGSC_v3.4172,892,418 - 72,892,620UniSTSRGSC3.4
Celera160,180,443 - 60,180,645UniSTS
Cytogenetic Map1q21UniSTS
Trim28  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21842,845,774 - 42,846,639 (+)MAPPERmRatBN7.2
Rnor_6.01843,889,372 - 43,890,236NCBIRnor6.0
Rnor_5.01446,101,219 - 46,102,083UniSTSRnor5.0
RGSC_v3.41844,661,266 - 44,662,130UniSTSRGSC3.4
Celera1841,074,256 - 41,075,120UniSTS
Cytogenetic Map18q11UniSTS
Cytogenetic Map1q21UniSTS
Cytogenetic Map14p11UniSTS


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 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000029996   ⟹   ENSRNOP00000031061
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl182,724,838 - 82,731,572 (+)Ensembl
mRatBN7.2 Ensembl173,652,709 - 73,659,380 (+)Ensembl
Rnor_6.0 Ensembl165,544,373 - 65,551,043 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000100960   ⟹   ENSRNOP00000090373
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl182,724,838 - 82,731,572 (+)Ensembl
mRatBN7.2 Ensembl173,652,709 - 73,659,380 (+)Ensembl
RefSeq Acc Id: NM_053916   ⟹   NP_446368
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8182,724,895 - 82,731,566 (+)NCBI
mRatBN7.2173,652,709 - 73,659,381 (+)NCBI
Rnor_6.0165,544,372 - 65,551,043 (-)NCBI
Rnor_5.0166,355,602 - 66,362,276 (-)NCBI
RGSC_v3.4172,892,399 - 72,899,070 (-)RGD
Celera160,180,424 - 60,187,048 (-)RGD
Sequence:
RefSeq Acc Id: XM_063265893   ⟹   XP_063121963
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8182,724,842 - 82,731,558 (+)NCBI
Protein Sequences
Protein RefSeqs NP_446368 (Get FASTA)   NCBI Sequence Viewer  
  XP_063121963 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB51518 (Get FASTA)   NCBI Sequence Viewer  
  AAI66843 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000031061
  ENSRNOP00000031061.2
GenBank Protein O08629 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446368   ⟸   NM_053916
- UniProtKB: B2RYN5 (UniProtKB/Swiss-Prot),   O08629 (UniProtKB/Swiss-Prot),   A0A8I6ADF3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000031061   ⟸   ENSRNOT00000029996
Ensembl Acc Id: ENSRNOP00000090373   ⟸   ENSRNOT00000100960
RefSeq Acc Id: XP_063121963   ⟸   XM_063265893
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ADF3 (UniProtKB/TrEMBL)
Protein Domains
B box-type   Bromo   PHD-type   RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O08629-F1-model_v2 AlphaFold O08629 1-835 view protein structure

Transcriptome

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

Promoters
RGD ID:13689671
Promoter ID:EPDNEW_R196
Type:initiation region
Name:Trim28_2
Description:tripartite motif-containing 28
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R197  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0165,550,772 - 65,550,832EPDNEW
RGD ID:13689672
Promoter ID:EPDNEW_R197
Type:initiation region
Name:Trim28_1
Description:tripartite motif-containing 28
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R196  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0165,551,068 - 65,551,128EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620289 AgrOrtholog
BioCyc Gene G2FUF-60692 BioCyc
Ensembl Genes ENSRNOG00000027487 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000029996 ENTREZGENE
  ENSRNOT00000029996.3 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.920.10 UniProtKB/Swiss-Prot
  3.30.40.10 UniProtKB/Swiss-Prot
  Classic Zinc Finger UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:9028761 IMAGE-MGC_LOAD
InterPro Bbox_C UniProtKB/Swiss-Prot
  Bromodomain UniProtKB/Swiss-Prot
  Bromodomain-like_sf UniProtKB/Swiss-Prot
  KAP1 UniProtKB/Swiss-Prot
  TIF1b_Bbox1_Znf UniProtKB/Swiss-Prot
  TIF1b_Bbox2_Znf UniProtKB/Swiss-Prot
  TIF1beta_RING-HC UniProtKB/Swiss-Prot
  Zinc_finger_PHD-type_CS UniProtKB/Swiss-Prot
  Znf_B-box UniProtKB/Swiss-Prot
  Znf_FYVE_PHD UniProtKB/Swiss-Prot
  Znf_PHD UniProtKB/Swiss-Prot
  Znf_PHD-finger UniProtKB/Swiss-Prot
  Znf_RING UniProtKB/Swiss-Prot
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot
KEGG Report rno:116698 UniProtKB/Swiss-Prot
MGC_CLONE MGC:188735 IMAGE-MGC_LOAD
NCBI Gene 116698 ENTREZGENE
PANTHER TRANSCRIPTION INTERMEDIARY FACTOR UniProtKB/Swiss-Prot
  TRIPARTITE MOTIF CONTAINING 28 UniProtKB/Swiss-Prot
Pfam PHD UniProtKB/Swiss-Prot
  zf-B_box UniProtKB/Swiss-Prot
  zf-RING_5 UniProtKB/Swiss-Prot
PhenoGen Trim28 PhenoGen
PROSITE BROMODOMAIN_2 UniProtKB/Swiss-Prot
  ZF_BBOX UniProtKB/Swiss-Prot
  ZF_PHD_1 UniProtKB/Swiss-Prot
  ZF_PHD_2 UniProtKB/Swiss-Prot
  ZF_RING_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000027487 RatGTEx
SMART BBC UniProtKB/Swiss-Prot
  BBOX UniProtKB/Swiss-Prot
  BROMO UniProtKB/Swiss-Prot
  PHD UniProtKB/Swiss-Prot
  RING UniProtKB/Swiss-Prot
Superfamily-SCOP B-box zinc-binding domain UniProtKB/Swiss-Prot
  RING/U-box UniProtKB/Swiss-Prot
  SSF57903 UniProtKB/Swiss-Prot
UniProt A0A8I6ADF3 ENTREZGENE, UniProtKB/TrEMBL
  B2RYN5 ENTREZGENE
  O08629 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary B2RYN5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-31 Trim28  tripartite motif-containing 28  Trim28  tripartite motif protein 28  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Trim28  tripartite motif protein 28      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Trim28  tripartite motif protein 28      Symbol and Name status set to provisional 70820 PROVISIONAL