DreINT0134411 @ danRer10
Intron Retention
Gene
ENSDARG00000045294 | sh3glb1a
Description
SH3-domain GRB2-like endophilin B1a [Source:ZFIN;Acc:ZDB-GENE-050417-89]
Coordinates
chr24:28313185-28313455:+
Coord C1 exon
chr24:28313185-28313274
Coord A exon
chr24:28313275-28313354
Coord C2 exon
chr24:28313355-28313455
Length
80 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
GATCTCTCTTTCTGTCCCAGGCA
3' ss Score
9.75
Exon sequences
Seq C1 exon
GCCGAGCAGGATCTGAAGATGACACAGAGTGAGTTCGACAGACAGGCGGAAATCACCAGGCTTCTTCTGGAAGGAATTAGCAGTACACAT
Seq A exon
GTGAGTGCCTGCCAGTCCAGATTTACTACACAATCCCAGTGTCTGACCTACAACAAGGCTGATCTCTCTTTCTGTCCCAG
Seq C2 exon
GCACATCATCTCCGATGTCTTAATGACTTTGTGGAGGCTCAGATGACATATTACGCCCAGTGTTACCAGTACATGGTCGACCTCCAAAAGCAGTTGGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045294:ENSDART00000018095:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(11.9=100)
A:
NA
C2:
PF0311413=BAR=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGAGCAGGATCTGAAGATG
R:
GCTTTTGGAGGTCGACCATGT
Band lengths:
181-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]