HsaINT0161110 @ hg19
Intron Retention
Gene
ENSG00000165209 | STRBP
Description
spermatid perinuclear RNA binding protein [Source:HGNC Symbol;Acc:16462]
Coordinates
chr9:125909134-125910149:-
Coord C1 exon
chr9:125910057-125910149
Coord A exon
chr9:125909334-125910056
Coord C2 exon
chr9:125909134-125909333
Length
723 bp
Sequences
Splice sites
5' ss Seq
AAAGTGTGT
5' ss Score
2.99
3' ss Seq
CATTCCTCTTTCTTTAACAGTTC
3' ss Score
10.54
Exon sequences
Seq C1 exon
GTGCTGGGTCTTCAGCTCTAAAGAGGCCATTTGAAGATGGATTAGGGGATGATAAAGACCCCAACAAGAAGATGAAACGAAACTTAAGGAAAA
Seq A exon
GTGTGTAAAACCTTTATTCTTATAGATGCAAACTAGAGAGGACTTGTAGCTTCAGATAGAAAAATTAAAAGTGAAGGGTTTTTTTTTTTTTTTTTTTTTTGAGATCGGTTCTCATTCTGTCACTGAGACTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAGTCTCCACCTCCTGGGCTCAAGTGATCCTTCAACCTCAGCCTTCTCAAATAGTAGGGATCACAGGTGCGTGCCACCACGCCCTGCTAAGTTTTTGTATTTTTGGTAGAGACAGGATTTTGCCAAGTTGCCCAGGCTAGTCTTGAACTCCTGAGTTCAAGCAATTCACCCCCCTTGGCCTCTCCAAGTGCTGGGATTACAGATATGAGCGACTGTGCCTGGCCAAAAAGTGAAGAATTTGATTGATTTGAATTAGAGTTTTGAGACTAGATCTTAACTGAGCAATTGATAATTGGATAACTTTTTTGTTTCCAAGCTTTTTTGCTTAGGATGCATTTATATTGACAAGCGAAAATTAATGTGTAGTTAAATAATGCATACAATTTTTATAGTGATATTAGCATAATAATTTTAGAATTACTTATGAGGTTAATCTGTGTGTTTTGAAATCCTCATTTAAAAAAATTTTGGTGAATTTACAGTAGTTACTAGGAACCCCAAAAACGCATAAAGCAAAATTACTTTCTAGTTAATTTCTGACCTCATTCCTCTTTCTTTAACAG
Seq C2 exon
TTCTGGATAGTAAAGCAATAGACCTTATGAATGCACTAATGAGGCTAAATCAGATCAGGCCTGGGCTTCAGTATAAGCTCCTATCTCAGTCTGGCCCCGTTCATGCCCCAGTCTTCACAATGTCTGTAGATGTGGATGGCACAACATATGAAGCCTCAGGACCATCCAAGAAAACAGCAAAACTTCACGTAGCGGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165209-STRBP:NM_001171137:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.781 A=NA C2=0.224
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0003520=dsrm=PU(90.5=85.1)
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:
CTGGGTCTTCAGCTCTAAAGAGG
R:
ACCGCTACGTGAAGTTTTGCT
Band lengths:
286-1009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)