Supt20hl2 (SUPT20H like 2) - Rat Genome Database

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Gene: Supt20hl2 (SUPT20H like 2) Rattus norvegicus
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Symbol: Supt20hl2
Name: SUPT20H like 2
RGD ID: 1565951
Description: Predicted to enable transcription coregulator activity. Predicted to be part of SAGA complex. Orthologous to human SUPT20HL2 (SUPT20H like 2); INTERACTS WITH benzo[a]pyrene (ortholog); manganese atom (ortholog); manganese(0) (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fam48b1; family with sequence similarity 48, member B1; LOC314107; rCG36303-like; RGD1565951; similar to FAM48A protein; transcription factor SPT20 homolog
RGD Orthologs
Human
Bonobo
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X62,639,354 - 62,647,242 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX62,639,354 - 62,647,242 (-)EnsemblGRCr8
mRatBN7.2X58,645,548 - 58,653,436 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX58,646,432 - 58,649,965 (-)EnsemblmRatBN7.2
Rnor_6.0X63,000,322 - 63,006,722 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X63,592,514 - 63,595,215 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X81,270,442 - 81,274,398 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX59,085,024 - 59,090,017 (-)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
SAGA complex  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Supt20hl2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X62,639,354 - 62,647,242 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX62,639,354 - 62,647,242 (-)EnsemblGRCr8
mRatBN7.2X58,645,548 - 58,653,436 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX58,646,432 - 58,649,965 (-)EnsemblmRatBN7.2
Rnor_6.0X63,000,322 - 63,006,722 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X63,592,514 - 63,595,215 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X81,270,442 - 81,274,398 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX59,085,024 - 59,090,017 (-)NCBICelera
Cytogenetic MapXq22NCBI
SUPT20HL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X24,308,210 - 24,314,069 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX24,308,210 - 24,314,069 (-)Ensemblhg38GRCh38
GRCh37X24,326,327 - 24,332,186 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X24,236,303 - 24,244,963 (-)NCBIBuild 36Build 36hg18NCBI36
CeleraX28,451,951 - 28,454,321 (-)NCBICelera
Cytogenetic MapXp22.11NCBI
HuRefX22,071,131 - 22,073,584 (-)NCBIHuRef
CHM1_1X24,360,036 - 24,362,489 (-)NCBICHM1_1
T2T-CHM13v2.0X23,892,398 - 23,898,256 (-)NCBIT2T-CHM13v2.0
LOC100971827
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X26,105,719 - 26,145,639 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X26,110,147 - 26,149,026 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X16,906,972 - 16,910,378 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SUPT20HL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ROS_Cfam_1.0X19,857,410 - 19,863,169 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
UMICH_Zoey_3.1X19,895,818 - 19,901,586 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X19,928,484 - 19,934,428 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X19,986,259 - 19,992,032 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
LOC100737849
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X25,205,891 - 25,210,491 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X27,457,982 - 27,489,765 (-)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Supt20hl2
47 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:28
Count of miRNA genes:25
Interacting mature miRNAs:27
Transcripts:ENSRNOT00000072905
Prediction methods:Miranda, Pita, 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
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
70221Bp56Blood pressure QTL 564.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X6103585667175160Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X4493088389930883Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
ectoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
renal system
reproductive system
1 1 13 16 14 1 1 4

Sequence


Ensembl Acc Id: ENSRNOT00000072905   ⟹   ENSRNOP00000095826
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX58,647,095 - 58,649,965 (-)Ensembl
Rnor_6.0 EnsemblX63,001,638 - 63,003,347 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000097245   ⟹   ENSRNOP00000089131
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX58,647,203 - 58,649,896 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098184   ⟹   ENSRNOP00000095993
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX62,639,354 - 62,647,242 (-)Ensembl
mRatBN7.2 EnsemblX58,646,432 - 58,649,896 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112456   ⟹   ENSRNOP00000088382
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX58,647,095 - 58,649,896 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117125   ⟹   ENSRNOP00000092954
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX58,647,203 - 58,649,896 (-)Ensembl
RefSeq Acc Id: NM_001408858   ⟹   NP_001395787
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X62,639,354 - 62,647,242 (-)NCBI
mRatBN7.2X58,645,548 - 58,653,436 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001395787 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000095993
  ENSRNOP00000095993.2
Ensembl Acc Id: ENSRNOP00000089131   ⟸   ENSRNOT00000097245
Ensembl Acc Id: ENSRNOP00000095993   ⟸   ENSRNOT00000098184
Ensembl Acc Id: ENSRNOP00000095826   ⟸   ENSRNOT00000072905
Ensembl Acc Id: ENSRNOP00000092954   ⟸   ENSRNOT00000117125
Ensembl Acc Id: ENSRNOP00000088382   ⟸   ENSRNOT00000112456
RefSeq Acc Id: NP_001395787   ⟸   NM_001408858
- UniProtKB: A0A8I6A9J0 (UniProtKB/TrEMBL)

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:1565951 AgrOrtholog
BioCyc Gene G2FUF-2256 BioCyc
Ensembl Genes ENSRNOG00000048066 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000098184 ENTREZGENE
  ENSRNOT00000098184.2 UniProtKB/TrEMBL
InterPro Spt20 UniProtKB/TrEMBL
  Spt20-like_SEP UniProtKB/TrEMBL
NCBI Gene 314107 ENTREZGENE
PANTHER PTHR13526 UniProtKB/TrEMBL
  TRANSCRIPTION FACTOR SPT20 HOMOLOG UniProtKB/TrEMBL
Pfam Spt20 UniProtKB/TrEMBL
PhenoGen Supt20hl2 PhenoGen
RatGTEx ENSRNOG00000048066 RatGTEx
UniProt A0A8I6A9J0 ENTREZGENE
  A0A8I6AQ58_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-12-23 Supt20hl2  SUPT20H like 2  Fam48b1  family with sequence similarity 48, member B1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Fam48b1  family with sequence similarity 48, member B1  LOC100364706  rCG36303-like  Data merged from RGD:2320457 1643240 APPROVED
2010-05-05 LOC100364706  rCG36303-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2009-06-12 Fam48b1  family with sequence similarity 48, member B1  RGD1565951  similar to FAM48A protein   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565951  similar to FAM48A protein   RGD1565951_predicted  similar to FAM48A protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565951_predicted  similar to FAM48A protein (predicted)  LOC314107  similar to FAM48A protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC314107  similar to FAM48A protein      Symbol and Name status set to provisional 70820 PROVISIONAL