DreINT0033537 @ danRer10
Intron Retention
Gene
ENSDARG00000035433 | arpc5lb
Description
actin related protein 2/3 complex, subunit 5-like, b [Source:ZFIN;Acc:ZDB-GENE-060531-161]
Coordinates
chr5:31465039-31465362:-
Coord C1 exon
chr5:31465291-31465362
Coord A exon
chr5:31465216-31465290
Coord C2 exon
chr5:31465039-31465215
Length
75 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CCTGTGTTTTCTTTTCTCAGGAA
3' ss Score
11.15
Exon sequences
Seq C1 exon
GGGGACACAATGTCAGCTCTTCACATTGCTCTTAGGAATCCTCCAATCCACAGCAAGAACCCAGCAATAAAG
Seq A exon
GTAAATTCTCTTCTGCATGCTCGTATTGCACAGCTGATTGATATACAGATTCCCTCCTGTGTTTTCTTTTCTCAG
Seq C2 exon
GAAAGAGCACAGACGGTGGTATTCAGGGTTCTGACGTCTTTTAAGAGCAGCGATATTGAACCTGCTGTTAAATCTCTCGACAAGAACGGCGTTGATCTTCTCATGAAGTACATCTACAAAGGCTTTGAGAGGCCTACAGACAATAGCAGTGCCATATTGTTGCAGTGGCACGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035433:ENSDART00000135855:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.241 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF046999=P16-Arc=FE(12.6=100)
A:
NA
C2:
PF046999=P16-Arc=FE(40.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCCACAGCAAGAACCCAGC
R:
TCTGTAGGCCTCTCAAAGCCT
Band lengths:
168-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]