DreINT0023732 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38672175-38672441:+
Coord C1 exon
chr12:38672175-38672243
Coord A exon
chr12:38672244-38672349
Coord C2 exon
chr12:38672350-38672441
Length
106 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TTTTATGGGTTTTTTCCTAGCCA
3' ss Score
6.03
Exon sequences
Seq C1 exon
GCTACCTTTGTTCAGTCTCCTCATGATGATGATTTTCTTTGGAAGAACCTCTTCATTTCTGTTGTGGCT
Seq A exon
GTAAGTTAAATAGTAATTAGTAATCTTTTTTCTTTTTTTTTTTTCGTCTCAGGTTTAGTGTAATTGTATCTTCCACTATTTGATTTTTTTATGGGTTTTTTCCTAG
Seq C2 exon
CCATACATCCAGTGTATACTTCTGCTCGTCTCACTGAGATGGCTGGAGATCAGATATGGAGGGAAGACCATGAAAAATGACCAGCTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(6.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(3.9=45.2)
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:
GCTACCTTTGTTCAGTCTCCTCA
R:
GCAGAGCTGGTCATTTTTCATGG
Band lengths:
159-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]