HsaINT0018578 @ hg19
Intron Retention
Gene
ENSG00000137948 | BRDT
Description
bromodomain, testis-specific [Source:HGNC Symbol;Acc:1105]
Coordinates
chr1:92446446-92446938:+
Coord C1 exon
chr1:92446446-92446735
Coord A exon
chr1:92446736-92446824
Coord C2 exon
chr1:92446825-92446938
Length
89 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
TTCCCTCCTAAATCACACAGCTA
3' ss Score
5.13
Exon sequences
Seq C1 exon
TCAGCCAAAGAAAAGGAAACAACAGTTCATTGGTCTAAAATCTGAAGATGAAGATAATGCTAAACCTATGAACTATGATGAGAAAAGGCAGTTAAGTCTGAATATAAACAAACTCCCTGGAGATAAACTTGGGCGAGTAGTTCACATAATACAATCAAGAGAGCCTTCTCTGAGCAATTCCAATCCTGATGAGATAGAGATAGACTTTGAAACACTGAAAGCATCAACACTAAGAGAATTAGAAAAATATGTTTCGGCATGTCTAAGAAAGAGACCATTAAAACCTCCTG
Seq A exon
GTATGTATTTCTGCATATTAATAGAAATCGGTTTGGTATTTATGTTGGTTTTTGGTTATACTCACTTTCTTCCCTCCTAAATCACACAG
Seq C2 exon
CTAAGAAAATAATGATGTCCAAAGAAGAACTTCACTCACAGAAAAAACAGGAATTGGAAAAGCGGTTACTGGATGTTAATAATCAGTTAAATTCTAGAAAACGTCAAACAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137948-BRDT:NM_207189:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.796 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTTCTCTGAGCAATTCCA
R:
TGTGAGTGAAGTTCTTCTTTGGACA
Band lengths:
169-258
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)