DreINT0023468 @ danRer10
Intron Retention
Gene
ENSDARG00000074749 | abca12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:ZFIN;Acc:ZDB-GENE-030131-9790]
Coordinates
chr9:40940874-40941914:-
Coord C1 exon
chr9:40941759-40941914
Coord A exon
chr9:40941058-40941758
Coord C2 exon
chr9:40940874-40941057
Length
701 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAT
5' ss Score
7.87
3' ss Seq
TATATTTTTTTTTGTCACAGGAA
3' ss Score
9.28
Exon sequences
Seq C1 exon
GAAAGTATGGCATCGCTGTACCGTGGTATTTCCCAGTAACTAAATCCTTCTGGACGGATATGTTCAGCTGTTGTAGCAAGACACCTAAGAAAATAGGGAGAGGGCTGCTGTTTACCAACATGATGCAGGACCAAAGCAGCATGAACAAGAGCAAAG
Seq A exon
GTACATTCATAACCATTTCCCTGGGAATACTTGATTCTGATGTGTCAATAGAAAGTTTGGAGTGCCAATCTGTATATTTGATTATTGTCTCCCATACCATATTATTTTAATTTCAGTGCTTGTTAAGATGTGTGGAAGACATGATGTATTGTAGATAAATTGCAAACTAAAGTGTATTATAAAGTGATAAAATTAGAGTGCTTATCTGTTATTTTCTGTGCTAATTTACGGGTCAGTGTGTTTTTAAATGAGTAAAATTAGTAAATTCTACATTTCTCAAATTTTATTTTTGATCAATTTATTTTGTCCTTGCTAATTCCTTGTATCCTTGACAGTATTATCTGTGCTGTAACAAAACATGTCAATTATAAGCAAACGTGTAGTTTTCATCCACATATTTTTAAATTTGCCATCTTTCCTGCTCAATTGTAAGTTGCGAATTATGAGTTTGTTTATTTATTAATACTCATGCATTATACTGAGCTCTTCTGCAAATATGACAGGCAGGGGTATTAATGAAATCCAAAAACTAGTACTGAAATGAAATGCATTTAAATTTAAATTAGCAGGTTAAAACAGGCTGATATGATTTCACCAATATTCTTACTTTTGTTTATGGTGACACATACTGTAACCTTAAGTTTCTGTGTGATTTATTATTAACATCTTTTCTTCTGTTTATATATTTTTTTTTGTCACAG
Seq C2 exon
GAAAAGGTAGCTTGGTGGCTAAAGGAGAAGAAGACTTCTCAGGGTTGCCCGTTGGAGTCTCACTGTATGGCCTGACGAAGACCTACGGCAAGAGGAATGCTGTAGACAACCTAAACCTGTCTTTCTATGAGGGACACGTCACCTCTCTGCTGGGTCACAATGGAGCTGGAAAAACCACCACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074749:ENSDART00000138634:10
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=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(18.4=42.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTATGGCATCGCTGTACCG
R:
TTTCCAGCTCCATTGTGACCC
Band lengths:
326-1027
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]