DreINT0023469 @ danRer10
Intron Retention
Gene
ENSDARG00000074749 | abca12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:ZFIN;Acc:ZDB-GENE-030131-9790]
Coordinates
chr9:40938771-40941057:-
Coord C1 exon
chr9:40940874-40941057
Coord A exon
chr9:40938990-40940873
Coord C2 exon
chr9:40938771-40938989
Length
1884 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGA
5' ss Score
3.54
3' ss Seq
ATTTATTTCTTTAATTTCAGGTC
3' ss Score
10.02
Exon sequences
Seq C1 exon
GAAAAGGTAGCTTGGTGGCTAAAGGAGAAGAAGACTTCTCAGGGTTGCCCGTTGGAGTCTCACTGTATGGCCTGACGAAGACCTACGGCAAGAGGAATGCTGTAGACAACCTAAACCTGTCTTTCTATGAGGGACACGTCACCTCTCTGCTGGGTCACAATGGAGCTGGAAAAACCACCACTAT
Seq A exon
GTAAGAGCATAACAGCATAATAAATCTTTTAAAGGGGTCATGACATTTCAAAACAAAGTTGCCTTCATCTGCTGACATATAAGAGGTGTTAGTTTCATAAAAAAATCCTGTAAGTTTCAATGCTTAAATGTCATTCTTTTCATAATGTTTTTATTTATTCAAGCTCTTTACTAATGAAGTGCCATGTGATGTCATGTTTATATGGATAATGCTGTCAAAACACACAGCAATACAACACAGTACGACAGTTTGAGGATGTTGATACTCTTTTCTTTGTCAGACAATCGAAACATTGCCCAATTACTGCCAAGCTTTAAAGGACCCGCCCCTTCAAATCAGGTCTTTTCATCAGGAGGGTTGGAAATTATAGATTTTTCTGTGCATTATTTTTGTTTTTTAGTGTAAAAATCTTTATTAACATTTTAAGTGGACCTTAAGGCACACATACTGAATTAAACAACATAGTGTATTAAAATAATGTTATGACCCCTTTAAATGCTTCTAATATACTGTTAGTGGTGTAACAGATCACAAATCTCATGGTTCGGATCACATAGTGTTTTTATAGTCACGGATCAGACCATTTTTCGGATCATTTGCTTTCCATTTATTACAAAAACAGTACTGCAAGGCACTTTTGGTTTTAACGAACAAATTTAGAAAAAATAACTTTTTAATTAAAAATAAAAGGAAGAAATATAAATTGTCAAATATTCAGTGCTGTGAAAAATTCACTGTTACTGTTGCTGATAACGTTAAATGTAAAAATCTAACATTAAAATTATACAACCCATATTTATTTTTAGTCTCTTTTTTTAATAAATTATTCAGTTATTCACTCATAAAACTTTGTTTCATTGCTAGATCTATCATATTAGAAGAATTATTCAGTGGCAAATTTTTGATGGCTGGTTCTCGCCACCTATTGGGTAAATAATGTAATTGCTGCCTTCAACTTTCATTTTTGAGCGTTGTTAAATGCATATGATAGTGATTTTAATCTTTACCATGAAATCAGTGGTTATATCTAAACTATAAACTGTTATCCCAGTACTTCTGTGTTATGTAATTGTTTGTAACTTCCTAACTAACTCAAAAGACTAAAGATTAAGTCTCTTTCTTGATTTTTGGGTTTTCAGATTTGAATGCAGTAATAAGAAGGATTAATAAACATATGCAAATCACCATCATTCATAATTTAAGTTGCGTGGTTGTTGAGATGCAGCTTATACTGAATGTATTATTGCAGGCTTAACAAGTAGTGACAGAAAACACCTTTAATGAGACCCACCACATCCCGAATAACCTACCACAACTTCTTTCGTCATCATTATATTTTCATACATGTGGTTTAAATGACATGAGAGAAGATCTCTCTGTGATCGTTACAAATGTAGGATTAATCTACGAGTGAAAAAGGTATTGATCCGCAGGTCACGCGTGTTCCCGTGGGTTGTGATTCTAACGAGACATGGATCAACCGTGATCCGTTGCACCCCTACTAACAATGAGCAGCTTTATTTTCATTTACTAATGTAATGTAAATGTATCGTACAATGATTGTTTATGTCAGTAAATATATTAACTAGCATAAACAGAAACTGACTATAAAGTGTTAACAAATAATACAAGAAATGATGAGCTATTTTAAATTCTTCTATTACAGATTAAAATATGTAGCCAACACAAACTATTACACTTTTTATGGCATAATCAATTATTCATTCATTCATTGATTTTCTTTCGCCTTAGTACCTTATTTATCAGGGGTTGCACCGCGGAATGAATCGCCAACTATTCCGGCATATGTTTTACGCAGCCCTCCAGCTGCAACTCTGTCCCAGTACTGGGAAAATATTTCCATATTTATTTCTTTAATTTCAG
Seq C2 exon
GTCACTTTTGACTGGATTGTTTGCACCCACTGTCGGCACCATTGAGGTCTACGGGATGGATATGCAGATGTTCATAGATGATGTGCGCAAGGAGATGGGCGTCTGTATGCAGTATGACGTCCTGTTCGACCATCTGACCACTAAAGAGCATCTGTTACTGTACGCTCAGATCAAAGCTCCTCATTGGACCAAGCAAGAAGTGAAGGAACAAGTGCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074749:ENSDART00000138634:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.4=42.2)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.7=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:
GCCCGTTGGAGTCTCACTGTA
R:
CCTTCACTTCTTGCTTGGTCCA
Band lengths:
344-2228
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]