DreINT0023640 @ danRer10
Intron Retention
Gene
ENSDARG00000100524 | abca3b
Description
ATP-binding cassette, sub-family A (ABC1), member 3b [Source:ZFIN;Acc:ZDB-GENE-050517-2]
Coordinates
chr3:12526847-12527440:+
Coord C1 exon
chr3:12526847-12527051
Coord A exon
chr3:12527052-12527220
Coord C2 exon
chr3:12527221-12527440
Length
169 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGT
5' ss Score
6.6
3' ss Seq
GCCTGACATGTTCTCCTCAGGTG
3' ss Score
8.45
Exon sequences
Seq C1 exon
GAGTCAGACAGGCTTTGCCATCGCCATAAACCTGATGTACGGCATGGCTTCATTAGCCAGCACCTTTGCCCTGCTCCTCGTGTCCGAGCGCTCGGTCAAGTCCAAGCACGTGCAGCAGGTCAGCGGGGTTTACCTCACCAACTTCTGGTTCTCTGCCCTGCTGTGGGACCTCATCAACTTCCTGTTACCCTGCTTGCTCATGCTG
Seq A exon
GTCAGTATAAGTTTCTATCTATGACAAAACTACAGTATCATTAGGCTAGTTTAATACAGATGGCTTTTTCCAGTGCCTTGGACAGATGATTTGCATAATCAAACTTTTAGTAGTTCCCTCAATAAGTTCATTGTTTGAATTACATCCATGCCTGACATGTTCTCCTCAG
Seq C2 exon
GTGGTCTTCAGAGTGTTCTCAGTGAAGGCGTTTGTAGCCCAAAACCACCTGGTGGATGTTCTGTTCTTGCTGCTTCTGTACGGCTGGGCGGTGATTCCTCTCATGTACTTGATGAGTTTCCTGTTTTCCACGGCCGCCACAGCCTACACGCGCCTCACCATCTTCAACATCATCAGCGGCACCGCCACCTTCCTCGCCGTCACCATCATGACCATACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100524:ENSDART00000165980:10
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(17.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.3=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:
GCTTTGCCATCGCCATAAACC
R:
CCAGGTGGTTTTGGGCTACAA
Band lengths:
246-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]