HsaINT0018591 @ hg19
Intron Retention
Gene
ENSG00000137948 | BRDT
Description
bromodomain, testis-specific [Source:HGNC Symbol;Acc:1105]
Coordinates
chr1:92442600-92443853:+
Coord C1 exon
chr1:92442600-92442950
Coord A exon
chr1:92442951-92443724
Coord C2 exon
chr1:92443725-92443853
Length
774 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
GTAGTTTTTCTTTAATTTAGGAG
3' ss Score
6.93
Exon sequences
Seq C1 exon
GTTACAAAAGGTGTGAAGAGGAAAGCAGATACAACAACTCCTGCAACTTCAGCAGTTAAAGCAAGTAGTGAATTTTCTCCAACATTCACAGAAAAATCAGTGGCACTGCCACCTATAAAAGAAAATATGCCAAAGAATGTTTTGCCAGATTCTCAGCAACAATATAATGTTGTGAAGACTGTTAAAGTAACTGAACAATTAAGGCACTGTAGTGAGATTCTTAAAGAAATGCTTGCAAAGAAACATTTTTCATATGCATGGCCCTTTTATAATCCTGTTGACGTTAATGCTTTGGGACTCCATAACTACTATGACGTTGTCAAAAATCCGATGGATCTTGGAACTATTAAG
Seq A exon
GTAAATGTTGCCTTAAAAGGAAGAACTTCTTTTTCTTGATTATAAAAGTAATTCATCATTGCAAAGAAATCTTAAAATCTAGAAAAAGATGAAGGAAATTAAGATCATCCAAGTCACACTATCTGGAGTGAGTCTCTGGAAAATTTTAAAATATATCTTTTTGTTTTCTTCCACTTGAACATGTCCATGGTTCTAGGCCGGGCACAGTGGCTCATGCCTGTAATCTTAGCACTTTGGGAGGCCAAGGCGGGCGGATCACTTGAGGCCAGGAGTTTGAGACCAGCCTGGCCATGGCGAAACTTCGTCTCTACTAAAAAAAAAAAAAAAAAGCTGGGAATGGTGGTGCATGCCTATCGTTCCAGCTACTCCAGAGGCTGAGTCACGAGAATCACTTGAACCTGGGAGGAGGAGAGGTTGCAGTGAGCGGAGATCATCCACTGCACTCCAGGCTGGGTGACAGAGGGAAACTCTGTCTCAAAAAAAAAGATTATATGAAAACACTCTGCTTCTCTGCTTTTGTGATTTTGTTCCAGTTCTCTTTACATGGAATGTCCTCCTTCCTCATCTCTACTTGTCAAAATTCACTGGATTTTTTTTCAAAGTCTAAAAAATATGAAACAAATGTAGCAAAATTTTAACATTTGTCAAATCTGGATGGTGGACAACTGTTTTCTGTATATTTGAATTATTTTGTAATATGAACATTTAATGTACGTGGTCAAATAATTATTGAATTGAACTATTTGTGAATCCTGTAGTTTTTCTTTAATTTAG
Seq C2 exon
GAGAAAATGGATAACCAAGAATATAAGGATGCATACAAATTTGCGGCAGATGTTAGATTAATGTTCATGAATTGCTACAAGTACAATCCTCCAGATCACGAAGTTGTGACAATGGCAAGAATGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137948-BRDT:NM_207189:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.325 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PU(52.8=40.2)
A:
NA
C2:
PF0043920=Bromodomain=PD(44.9=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAACTTCAGCAGTTAAAGCA
R:
TGCCGCAAATTTGTATGCATCC
Band lengths:
358-1132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)