DreINT0023735 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38645158-38647174:+
Coord C1 exon
chr12:38645158-38645347
Coord A exon
chr12:38645348-38647006
Coord C2 exon
chr12:38647007-38647174
Length
1659 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
TTATGTGTGTTGTTCCTCAGCTA
3' ss Score
8.21
Exon sequences
Seq C1 exon
GAGCTGATCTTGCCTTTGCTCCTCCTGGGTCTCCTCATCCTCATCAGCACCCTCAACCCTCATGTCTCCTACGGCAGCATCAGCACCAAGGAACTGGAGTTTGAGCGGGAACTGCCAGTCAAAGGTCTGGGTTACACCCCCATCACCAATTTCACCAATCACATCATGGAAGAGGTGGCACGCGAACTGT
Seq A exon
GTAAGTCACATCTGTTGCTTGTCTGTGTTCAAGTATCATTTTCTATTATTAAATGTGTTGCCAATTTAGGCAGCATTTACTCAAGTTTATTTTAATTAATTAATTTATTTTACCTTAATTTTGTTTGTGACTGCTGTTGTTTGTAGATTTTAGTTTTTGTGAAGCACATTGGTCAACTTGACTTGTTTTTAATTATGATATATATATGATATATATGAAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAAACTGCCATTGTCATGTTCCTTTCCTATTAGCTTGAACTGGCTTTTAGTTCGGAGCTAGTGCTATTGCCTATTCAAAGATGATTTGATTCGGCTAGAGAGCCTTCTAAGAACAGGTTTGCTTTTCCATGAACCAGAGAAACACCACAGAACAAAGTCACTCATCTTCCCTAGCAACAGTGCGGAAGCCATGAATGCACAGCAAATAAACTATTTGTGCCACAAAGTCGTATGTTGCATGGGTATATTTTTAGCCAGAATGATATTGTCAAAATAAAATATATATATATTTTATATCTCATTCATTCATTAATTTTCCTTCTGCTTAGTCTCTTTATTTATCAGAGGTCGCCACAGCAGAATGAACCGCCAACTCATCCAGCATATGTTTTACACAGCAAATGCCCTTCCAGCTGCAACACAGTACTGGGAAACGCCTATATACACTCGTTCACACTCATACACTATGGCCAATTTAGTTTATTCAATTAACCCGTAGAGCATATCTTTCGACTGTGGGAAACCACACGGACATGGGCAGAACATGCAAACTCCACACAGAAATGCCAACTGGCCCAGCTGGGACTCGAATCAGCAACTTTCTTGCTTTGAGGCAACAGTACTAACCACATCATGGCGCCCCTATATTTTACATCTAAATATAAATAGGCATTTTCTCAAATATATGCATGCATGCGTGTATTTAAATACACATCCATCTATTCGTTATAGGTCATAGCAACTTTTTAGTCAGGGCATTTGGCCTAGGAACCATTATTTGCAGATCACTTTTCCCAGTGCAGAGTGTGTCTAAAATCAAAGAAAAGCTTTGAAACCATGCTCTGGTCACTCAAACTAATAATTACTATTTAAAATAGATCCATTGTGTGTGTATTTGTTTATGTCATAAGTAGGCCCATACGGAATCTGCGCGCGCAGAATTCCGCAGATTTTTCGCAGATTTTCCGCAAAATTCCGCAGATTTCTGCAGATTGTTAGCTTAAAATTAATTTTGTTTATTTACTTGAGTAAGTGTGTATATCTGAATTTATTCAGTTTTTATTCAGTAATTTATTACTTTTTATTTAATGTATTAAGGTCTAAGTTATGATACTCCGCTGGATACTCCCAAAATAATTCCACAGAAATCCGCAGAGTTTTACCAAAATTCTCTGCAGAAATAGCAAAAAACATCCGCAGATTCCGTCTGGCCCTAGTCATAGGGAAGGGCATTCGTTGCGTAAAACATATGCTGGATTCCACTGTGGCGACCCTATATTTAATAAAGGGACTAAGCCGAAAAAGAAAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATTATGTGTGTTGTTCCTCAG
Seq C2 exon
CTATGAATGAGCATTTAGACATGTTCTCCACCGAGGCTGATTTGGAGAATGCCAGCCTCTATGAACCTGAGGGCTACGTTGGAGTGGTCTTTTTGGATTCGATGTCATATCGTCTGCGATTCCCGTACAGCCAGCTTCCTCTACCTAGTGACTTCACCGAGTCCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:3
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(16.4=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(14.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATCTTGCCTTTGCTCCT
R:
TGGACTCGGTGAAGTCACTAGG
Band lengths:
353-2012
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]