DreINT0023695 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15614733-15615082:+
Coord C1 exon
chr2:15614733-15614848
Coord A exon
chr2:15614849-15614934
Coord C2 exon
chr2:15614935-15615082
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAAT
5' ss Score
4.69
3' ss Seq
CTTCAATGTTGTCTGTGCAGGTG
3' ss Score
9.24
Exon sequences
Seq C1 exon
TTGAACTACTCGGTCAGCACAGCAATGGTTGTGGCCATTTTTGTGGGATTTGATAAGAAGTGCTATACATCACCCACCAATCTACCAGCGCTGATCGCTCTGCTTTGTCTCTATGG
Seq A exon
GTAAATCAGCAGATTATGTACTATAGATTGATTTAAAGAAACTTTGTTAAGCACAACAGTGATATCCTTCAATGTTGTCTGTGCAG
Seq C2 exon
GTGGTCAGTGACACCCATGATGTACCCGCTATCCTACATGTTCAATGTCCCCAGTACGGCATACGTGTCCCTCTCATGCATCAACCTATTCATCGGTATCAACAGTAGCGCCATCACCTTCATCTTAGAGCTATTTGAGAACAACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:39
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(9.9=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.8=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:
GAACTACTCGGTCAGCACAGC
R:
GCCGTACTGGGGACATTGAAC
Band lengths:
174-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]