DreINT0023704 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15620799-15621123:+
Coord C1 exon
chr2:15620799-15620933
Coord A exon
chr2:15620934-15621019
Coord C2 exon
chr2:15621020-15621123
Length
86 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
AACCCTGTTCATATTTGCAGGAT
3' ss Score
8.63
Exon sequences
Seq C1 exon
GTGGCAGAGTGGGGCATTCAGAAGCTGGGTCTTTCTGAATATGCAGGAAACTGTGCTGGTACCTACAGCGGGGGCAACAAAAGGAAGCTGTCTACTGCTATAGCGATGATTGGATGTCCTCCTCTGGTGCTCCTG
Seq A exon
GTATGTTTTTTTTTTCCCTAAACATTCCCGTGGTCATGGCGCTAAACAAAATCACTGCTGTAATTGAACCCTGTTCATATTTGCAG
Seq C2 exon
GATGAGCCCACAACAGGAATGGACCCTCATTCCCGTCGCTTCCTGTGGACTGCCATTCTGAGCATCATCCGGGATGGGAGGGCGGTCGTTTTGACCTCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:47
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:
PF0000522=ABC_tran=FE(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCATTCAGAAGCTGGGTCTT
R:
GAATGGCAGTCCACAGGAAGC
Band lengths:
181-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]