DreINT0023749 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38651336-38653077:+
Coord C1 exon
chr12:38651336-38651524
Coord A exon
chr12:38651525-38652929
Coord C2 exon
chr12:38652930-38653077
Length
1405 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TTTTGTGTTTGTATGTGTAGGTA
3' ss Score
8.79
Exon sequences
Seq C1 exon
ATTTTCTTCTCCTTCATGTTGACCCCGTTGTTTAAGAAGCCCAAGTTTGCCAGTACGGTGGGCTCGATGCTGACGGTGGTGTTTGGCTGTCTGTCGCTCTTTACTGTGTTGATGAGAGATTTCCCTCAGTCTGCTGTGTGGCTCCTCTGCCTTCTGTCCCCCAGCGCTTTTTCTATCGGCATCGCCCAG
Seq A exon
GTAACACACAAACACACTCACACACTCTATGCTTTAATTGCAGTTTCCTAGGTTATTTAACTGCCTGCCAAGAAGCGCAGTTTTATTCAAATTTGAATAACAAATCTGTTGTACTTCCCTTAGCAATTTTGCCATGGATATACATATGCATTCAAACTATTTTATTGCGCTTCTGTTAATTTTTAAAATGTCTCAAAATAAATGAGTACACACCATTTTGAAAATTACGATTTTTTTTTTTATCCATTTCTTACTGATTATAGATCATATATTTTGGTGCATTTGAACAAAACAATTTATTGAATGAATATATTCATAAAAAATATTTTAGTCACCGAACATCTTTAGAAATGAAAAGATAATACATTTAAATTCATGTGAAATATTGGGGAAAAATACCAACTACAAAATTTCATTAAGTATTTTTTTTTATTTTTTTATTTCTTGTTTAACATTTTTTTCTTAACTGTATAAATTTGGGTGTACTCATTTTGGACCATTATCAAAAGTTATTTTGCTAGATTAGCTGCAGTACTGCTCAGTACTGACTAATCGAATATGTATGCAGAAATATAATATTGTAAAGCTTCCTATAGAAAATATTAATTTAAATGATGTCATTTATGTTGAGCACTGTATATAAGAATGGAGTACTTTAATTCAACAACTATGCCTTAAAAAGAAAGTTCACCCTGTGAACTGTTTCTACCAAAATTCTAAGCAGATCGAAGGATTCAGGGATTAGTAATTAGTAATGTAAAAAATAAAGACAGATTTGTGTCATAATTTAATTTACTGGTAAAAAAAATAGTTAAAAATATGATTAGTTAAATAAAAAAATAATTTTGGGAAAAATATGTTAAGTTAATTTAGGAAGATAATAAAAAATTTTATTGGGCACTAAATAATCAGAAATGTTTCCTCAGCAGTAATGACCGTGGAATTATAAATGATATTTTTTATTTAAAGCTATAATTTTTAATTAAAACATTATTTTTTAAATTTATTCCTAAGTGAATAAAAACAAGAAATATTACTTTTGGGGATAAAAAAATGTCTAAATTAAATTTGCGGTAAAAGTAAAAGATTTAATTGGGTACTAAATAATCAGAAATGATTCCTCTGCACCAAATCAAGTGGAAACTGAAGCCTGGTCTAATGGCTGTTGAAGTAAATTAGAAATAAATTATCTTTTGTAAATAGAATATATAATTTTTTAATGATAATCATTATTATTTGTCCCTTAATTATTCCTACCTAATTAAGTAAAAATTAGACTAAATTCAAAAATATTTTTAACAATCAACTTGTGGAATAATTGGTAGTCTAAGTAATTAATTTTACTAAACAATAAAAACACAAAGTTCCCTTAAATAAGTTGCTGTTTTTGTGTTTGTATGTGTAG
Seq C2 exon
GTAGTGTATCTGGAAGCTCAAGGGGATGGCGCAGTGTTCTCATCTCTGGGCAATGGTCCTCACGCTCTCTATGTTCCACTGGTCATGCTGTTTTTGGACTGCATCCTCTACCTGCTTTTAGCCATTTACCTGGACCAAGTGCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:8
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(16.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.9=84.0)
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:
TTCTTCTCCTTCATGTTGACCCC
R:
CTGGTAGCACTTGGTCCAGGT
Band lengths:
334-1739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]