DreINT0023723 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38665393-38667480:+
Coord C1 exon
chr12:38665393-38665594
Coord A exon
chr12:38665595-38667313
Coord C2 exon
chr12:38667314-38667480
Length
1719 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGC
5' ss Score
6.39
3' ss Seq
TGTCTTTTTTTTCCACCCAGTTT
3' ss Score
8.36
Exon sequences
Seq C1 exon
ACTACAGTGTCTTTAACCAGGAAAAAGTGGAAGAAGAGGGAGATGCGTCCTCTATGGATGACACAGACCAGAGGCTGCTGACGTTTTCAGACAGCAGACAGGACACAGTAACTGGTCATGCCCTCTGGAGGCAGCAGTTTAGCACAGTGGCCTGGCTGCACATGCTCAACCTCCAGAGAGAGAGAAAACCTATTATATACAA
Seq A exon
GTGAGCAAAGTACTAGCTGTTTTTGAAATGGCTCAGGTACATTCTATGTACTAGTGTGATTGTAGTTAGTATAATTGAAATCCAGACAAACTTCATTTGTCCTGTGGCCAAATGAAATGTTAAAGTTTATATGGTATACATGCATTAGAATATTGATTATTTTGGCACTTCTCACTCAATATTTTATGAATACTTTAAATTTTGAGGTAGTACTTTTTTAGCCTTGCATCTAAGAGCAAAAGTTTTGATTTCATAGTACATGTGTGTTCACGGCACACTGTTTTATTAAAGCATGCAATACATGTTGTGTTAAAGTTTTAAATTGACAGGGGTAGTTTAAATGCACCATTCTTTTATTCATTTTCTTTCCAATTTAGTGCCTTTATTAATAAGGGGTCACTACAGCAGAATAAGCCACCAACCTATCACAGGGGATGCCCTTTCAGCTGCAAGGACTGTGTATTAATCATAACAAAAATAAAGATAATGCTATTAAACACCTCTGTTTAAAACATTTAACTGAATTTGTAATGAAGCGGGGTAATTCTGATTGTGGTTATTTCTTTATGGCTAAGAAACATTTAACTAATAAATTTTTTTTTAAATATAATGCAATAGTATTATTACTGTTTCATGAAATATCTGTTTTTGTTGTGTAGTCTTGGGGAGCATTTTAATTTAGTTTTACACGTCGCTGACATTTTTTATTTTATAACCCAGGCTGCTCTCAAAGCCATACAACTGCACAGAATCAGATGAAAAGGGTCTTAAGCCTCCTTTCCACTGCACACGACAAACGACAAGCGACAGACCGGAAGTCATTCGTTTCCAATAGAGAGTAGTACGGGGCCTGCTTGGAGTCCCGATCATCTCTGTATGGGGAATTGGAGTCAAATTGAGCTGTGGATCCGTTAAAATATTTTGAAATATAACTCCTGCGACCGGCCAACCGGATGTGATGTATTCCATCACATACATTCCATGTGATGTATTCCAGTGATGTATTCCATTAAAAAAAAAAACATTTCTATCCATAAACGTAAGTAAAAAAAGTAATTAAAATATATATTTTTATGTTGTCTCCACATTCCCTCCAATATTTTTAGCGGTCTATTAGTTTCTAGTATATATTCATTCATTCATTCAACCATGGTGAACGCACAGAGAATAATTGCTCTTGTAATGGTACTCTTTTATTTCGGACACTGCGCGAAAAGCTTCACTCCCATATTGCATGTCAGAACTGAAAATTCTGTGCAACTGCCACAAGGGGGCGTATTCCGACAGTCGTGTCCAAATGTCGTGTGCAGTGGAAAAGTGGCTTTACTATATGTAAGACTCATGTTGTGCAGTTAATGGCAACATTATTAGCCCTCTCGTCAAATATTTATTCGCTTTAAAATATTTCTCAAGTGATATTTAAGAGCAAGAAATTTTTCCCAGTATTTCTGATAATATTCTTTCTTCTTTAGAAAGTCGTATTTGTTTTATTTTGGCTAGACTAAAACAAGTTTTATTTGTCAATATTATTGGCCTCCTTAAGCAATCAATTGGCTACAAACCAAAGATAAAATAAATCAGCTATTAGACATGAGTTATTATGTTTAGAAATGTTGACAAAATCTCTCTGTTAAACAGAACTATAAAAACAATGAATATAAAATTAAACTTCACATAGCTGCTCTGTAAGTCACACTTCTGTCTTTTTTTTCCACCCAG
Seq C2 exon
TTTGACGCTGTTCGTAGTTTTTTTGTCTGCGATGCTGATTCTCTCCGTGGCCACAGGAAACATTCAGATCCATTCTCCTGAAAGACTGTTTTCACCAATATACCTGCTGCGCCGCAATGAGGCTCCTCACAAATACACCACCAGCCTGCTCGTGCAAAACTCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(0.1=0.0)
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(15.2=96.5)
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:
TGGAAGAAGAGGGAGATGCGT
R:
CGGTGGAGTTTTGCACGAGC
Band lengths:
342-2061
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]