DreINT0023697 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15614935-15615367:+
Coord C1 exon
chr2:15614935-15615082
Coord A exon
chr2:15615083-15615243
Coord C2 exon
chr2:15615244-15615367
Length
161 bp
Sequences
Splice sites
5' ss Seq
AGGGTAACA
5' ss Score
4.9
3' ss Seq
TACCTTCACAAACCCTTCAGTCT
3' ss Score
3.78
Exon sequences
Seq C1 exon
GTGGTCAGTGACACCCATGATGTACCCGCTATCCTACATGTTCAATGTCCCCAGTACGGCATACGTGTCCCTCTCATGCATCAACCTATTCATCGGTATCAACAGTAGCGCCATCACCTTCATCTTAGAGCTATTTGAGAACAACAGG
Seq A exon
GTAACATTTACATTTGGTTTTCATATCAAATTATACTTTAGTCTAAATGATGCTTTACAAAAAAAAAATAAAAGTTTGCATTAAAAATACATGTTTACACATGATCCTTATTTAAAGTAATTGCTTTTGTATTTTTTTTATTACCTTCACAAACCCTTCAG
Seq C2 exon
TCTCTGCTGATGTTTAATGAGGTGTTGAAGAAGGTGTTACTGGTGTTTCCTCACTTCTGTCTTGGCCGAGGTCTCATTGATATGGCCATGAACCAGGCTGTGACTGACGTTTATGCTCGATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:40
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(12.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(10.7=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:
ACACCCATGATGTACCCGCTA
R:
CAGTCACAGCCTGGTTCATGG
Band lengths:
244-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]