DreINT0023714 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38654054-38655624:+
Coord C1 exon
chr12:38654054-38654231
Coord A exon
chr12:38654232-38655565
Coord C2 exon
chr12:38655566-38655624
Length
1334 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TATATTTTTATTCCTGTTAGGAT
3' ss Score
7.58
Exon sequences
Seq C1 exon
GCGAGTTTGGCACAAAACGCTCAGTGTTGTATTTTCTAAAACCATCCTATTGGTCCAAGCGGAGGAAGCGATATGTCGAGGTGAGCTCTGTGTATGAGGGCGAAGTAAACGGGACGCCTGCAATCGACGAATCGGTGGAGGCTGTTTCTCCTGAGTTCAGAGGCAAAGAGGTTATCAG
Seq A exon
GTACAGACTCCATTCTCAAACTGACCAGTGGCCACGAAATAATGTTTTTTAGCCATTTTCTATCATTTTAAATGAATTTTTTGAGGTTCAAAAAAGTAAAAAAAAATTTTTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATATTTATTTATTTATTTATTTATTTTTTTGACAATTCATAACCCTGACACTTTCTTTAGTTATGTTTATTTGTATTTTGTTTATTATTATTATTATTTTTATTTATTACGATTCATTTAGCTGTGGCCACCACAGATGAAAATTGAATGAATTATTATTTTATATTATTATTTTTGTTAGTTTTGATTTCTCTTTGTAATCAAAGCATCTTTATCGTTATCTAACTACAGTGGCCACTAAGTACCACTAAGTTCAATCCTATTCAAATGATGTTTTATATTTGTTCTAGGTTTTTGCTTTATTATTAAATGGCTCAATGGTGAGATTTCTAATTTTTACAAAGGTAATTTCATGTTGATAGAAGGCAATTTGCTTTCAGTTTATATGCTTACACTGATGTTTCAAAAAACTTCAGTGAAAATGAAACAGTAAAATATGGGGTAAATAATAATGTTCCCTCATCATTCTTTCAGTGTAACGCATTTATGTGATGTAAATGTCAATGTTATGTATGTAAAAATCACTGTTAGACTCTTTGGAAAACCATAAAGTCTTATTTCATTGTTATTTATTTATGCCACCAATTTGCTTGATTCACTCCTCTACAAGATTATTACAATCACTTTGGAATCACTCAATTCCAAATAGAGCTAATAAAGTCATCTGCTGAAATCGTATCCAATATCACAATATAAATCGGAGAAAAATGAAATGTCGTTTTTGAAATTTCCAAATGTGTGCAGGCTTAGTTAAGATATTTCTTTTTTCAGTATATGAAGTATATGTAAACTCAATGGCGTTTTAGTTGGTGTCTTCTTTTAAATCACTGTTCACATTTGACCAAATGTATTTTGTATATTTGATGTTGTGCAGTGATTTAGGGAGCAGTTTGGGAAAGGGACCAGTGTTTTTTTAGATTTGATGTGTTAAAATCCTTCAAAGCCCTGGGTAGATTTGGGCTTCGAAGAGAGCTGGCATGCAGCCAGAATGACCATTTAATATCCATCACAAGCTTTCTGTGTTTATATTTTTATTCCTGTTAG
Seq C2 exon
GATTTGCAATATCCGAAAAATTTATCGGGAGAAGGATACCAAAGTGGAGGCTTTAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:10
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(1.4=9.5)
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:
TGGCACAAAACGCTCAGTGTT
R:
CTCTTAAAGCCTCCACTTTGGT
Band lengths:
230-1564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]