TRIM28 (tripartite motif containing 28) - Rat Genome Database

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Gene: TRIM28 (tripartite motif containing 28) Sus scrofa
Analyze
Symbol: TRIM28
Name: tripartite motif containing 28
RGD ID: 14073181
Description: ENCODES a protein that exhibits chromatin binding (ortholog); SUMO transferase activity (ortholog); INVOLVED IN convergent extension involved in axis elongation (ortholog); DNA methylation involved in embryo development (ortholog); embryo implantation (ortholog); PARTICIPATES IN p53 signaling pathway; ASSOCIATED WITH atherosclerosis (ortholog); Colorectal Neoplasms (ortholog); nephroblastoma (ortholog); FOUND IN chromatin (ortholog); nucleolus (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: transcription intermediary factor 1-beta
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,094,648 - 63,101,532 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,094,382 - 63,101,532 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:17145712  


Genomics

Comparative Map Data
TRIM28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,094,648 - 63,101,532 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,094,382 - 63,101,532 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRIM28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1958,544,064 - 58,550,722 (+)EnsemblGRCh38hg38GRCh38
GRCh381958,544,064 - 58,550,722 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371959,055,431 - 59,062,082 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361963,747,648 - 63,753,894 (+)NCBINCBI36hg18NCBI36
Build 341963,747,647 - 63,753,894NCBI
Celera1956,099,015 - 56,105,261 (+)NCBI
Cytogenetic Map19q13.43NCBI
HuRef1955,366,200 - 55,372,319 (+)NCBIHuRef
CHM1_11959,049,665 - 59,055,911 (+)NCBICHM1_1
Trim28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39712,758,079 - 12,764,959 (+)NCBIGRCm39mm39
GRCm39 Ensembl712,733,041 - 12,764,962 (+)Ensembl
GRCm38713,024,152 - 13,031,032 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl712,999,114 - 13,031,035 (+)EnsemblGRCm38mm10GRCm38
MGSCv37713,609,501 - 13,616,381 (+)NCBIGRCm37mm9NCBIm37
MGSCv36711,924,340 - 11,931,208 (+)NCBImm8
Celera710,651,338 - 10,658,223 (+)NCBICelera
Cytogenetic Map7A1NCBI
Trim28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2173,652,441 - 73,659,388 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl173,652,709 - 73,659,380 (+)Ensembl
Rnor_6.0165,544,369 - 65,551,043 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl165,544,373 - 65,551,043 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0166,355,602 - 66,362,276 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4172,892,399 - 72,899,070 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1172,973,571 - 72,973,906 (-)NCBI
Celera160,180,424 - 60,187,048 (-)NCBICelera
Cytogenetic Map1q12NCBI
Trim28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555841,148,903 - 1,156,001 (+)NCBIChiLan1.0ChiLan1.0
TRIM28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11964,369,979 - 64,377,144 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1964,371,477 - 64,377,144 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01955,557,130 - 55,563,802 (+)NCBIMhudiblu_PPA_v0panPan3
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha199,786,699 - 99,813,478 (-)NCBI
ROS_Cfam_1.01100,001,554 - 100,028,322 (-)NCBI
UMICH_Zoey_3.1199,646,919 - 99,673,683 (-)NCBI
UNSW_CanFamBas_1.0199,359,536 - 99,386,515 (-)NCBI
UU_Cfam_GSD_1.01100,114,388 - 100,141,157 (-)NCBI
Trim28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,986,447 - 217,992,258 (-)NCBI
SpeTri2.0NW_004937062126,832 - 132,938 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1650,820,188 - 50,826,376 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl650,819,833 - 50,827,010 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660454,125,654 - 4,132,206 (+)NCBIVero_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_female_1.0hetGla2


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1 2 5 2 1 1
Low 9 2 3 2 21 2 2 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000045350   ⟹   ENSSSCP00000035428
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl663,094,648 - 63,101,529 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000047862   ⟹   ENSSSCP00000057601
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl663,094,648 - 63,101,532 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000054133   ⟹   ENSSSCP00000056690
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl663,094,666 - 63,101,532 (+)Ensembl
RefSeq Acc Id: XM_021097344   ⟹   XP_020953003
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1663,094,382 - 63,101,532 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021097345   ⟹   XP_020953004
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1663,094,382 - 63,101,532 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021097346   ⟹   XP_020953005
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1663,094,382 - 63,101,532 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020953003 (Get FASTA)   NCBI Sequence Viewer  
  XP_020953004 (Get FASTA)   NCBI Sequence Viewer  
  XP_020953005 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_020953004   ⟸   XM_021097345
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020953003   ⟸   XM_021097344
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020953005   ⟸   XM_021097346
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSSSCP00000056690   ⟸   ENSSSCT00000054133
RefSeq Acc Id: ENSSSCP00000035428   ⟸   ENSSSCT00000045350
RefSeq Acc Id: ENSSSCP00000057601   ⟸   ENSSSCT00000047862
Protein Domains
B box-type   PHD-type   RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000037920 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070029695 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000035428 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000056690 UniProtKB/TrEMBL
  ENSSSCP00000057601 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00070050850 UniProtKB/TrEMBL
  ENSSSCP00070050853 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000045350 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000047862 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000054133 UniProtKB/TrEMBL
  ENSSSCT00070059690 UniProtKB/TrEMBL
  ENSSSCT00070059693 UniProtKB/TrEMBL
Gene3D-CATH 1.20.920.10 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro Bbox_C UniProtKB/TrEMBL
  Bromodomain UniProtKB/TrEMBL
  Bromodomain-like_sf UniProtKB/TrEMBL
  KAP1 UniProtKB/TrEMBL
  TIF1beta_RING-HC UniProtKB/TrEMBL
  Zinc_finger_PHD-type_CS UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/TrEMBL
  Znf_PHD UniProtKB/TrEMBL
  Znf_PHD-finger UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
NCBI Gene TRIM28 ENTREZGENE
PANTHER PTHR25462:SF274 UniProtKB/TrEMBL
Pfam PHD UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
  zf-RING_5 UniProtKB/TrEMBL
PROSITE ZF_BBOX UniProtKB/TrEMBL
  ZF_PHD_1 UniProtKB/TrEMBL
  ZF_PHD_2 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART BBC UniProtKB/TrEMBL
  BBOX UniProtKB/TrEMBL
  BROMO UniProtKB/TrEMBL
  PHD UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
Superfamily-SCOP SSF57903 UniProtKB/TrEMBL
UniProt A0A286ZVA8_PIG UniProtKB/TrEMBL
  A0A287BJI8_PIG UniProtKB/TrEMBL
  A0A287BNE9_PIG UniProtKB/TrEMBL
  A0A4X1W3I5_PIG UniProtKB/TrEMBL
  A0A4X1WAJ9_PIG UniProtKB/TrEMBL
VGNC ID VGNC:94403 ENTREZGENE