DreINT0023720 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38660155-38662314:+
Coord C1 exon
chr12:38660155-38660245
Coord A exon
chr12:38660246-38662174
Coord C2 exon
chr12:38662175-38662314
Length
1929 bp
Sequences
Splice sites
5' ss Seq
TAGGTTAGT
5' ss Score
5.5
3' ss Seq
TCTTTCTTTACCTCTTCCAGAAT
3' ss Score
9.59
Exon sequences
Seq C1 exon
ATCGTAAAGCTGTCATCTCGCAAGGACAGCTCAAGTGTGTTGGCTCTTCTTTGTACCTGAAGACCAAGTGTGGAGTTGGGTATCATCTTAG
Seq A exon
GTTAGTTTGGTATTTGTTCTAATGTAAAATACTATTGTGTTGTATTATAAAGTCATGGTTTGGCATGTGTTTAGGGCAGCAGGCTGGAAAAACTCTTATGTCCTAAAGGGATAGTTCACCCAATATTGAAACTCAAGTGGCTCCAAACATTATTTCTTACTTCTGTTGAACACATAAGAAGATATTTTGAAGAAAGTTGAAAACCGGTAACCATTGACTTCTATAGTAGAAACAATACTATGGAAGTCAATGGTTACAGGCTTCCAACATCTTTCGAAGTATCTTTTTTGTGTTTAAAAGAAGAAAGAAAATTAAAAATGTTTGTATGAAGTGTGAGTAATTGATGACAATTAAAATTTTTGGATGAACCATTCCTTTATTTTTATTAAATAGGGGGTTATCTAAACAAATTATGGCTCTGTCTTTTAAATTCATTATCTTTATTTAATTGTATTATATTACAGTTTTCTTGATGATGAAATATGTTACACATATGCTTATTCATTGTGCCGGCTGTGACCATGGTACTGCAGCACAGTTCCTAGATTATTATGCCAAATGAGACTGTAGTTCCTAGCCATATCAACCTAGAACATAACTTTTACTTTTGTGTCGTTCTACATACCTATAACTACACTGAAACCATATGATTCAAAGATTAATCCTTGGTACTGCAACAAAGTTCCTTGATTATTACAACAGAATAAAAGTATAGTTCCTAGCCTTATTAACCTAGAATATACCTTTTTATTTTTGTTGGTCTTAGTATATGATCTAACTACAGAACAGTCAAGCATTTAAAGATGTTTTTGTGTGTGTTTTGAGTGAGATGCTAATGGTCTAACCCAATTAAATGGTCTATGCTAAGCTAAGCTAAAAGTGCGCCTACCAGATTCTGGACCGTGGCTCTGTTTTTAATTATAATTAGTCAATTATAGTTACAGTTTTCTTGATTATTAAAGCTGTTTATTTACAGTTCCTTGATTATTACACCAGAATTAGAGTGTAGCTCTTAGCCATATCAACCTAGATTATAACTTAATTTTTTGTCCGTCTTAATATGTGATCTAATCCGATTCAATGATCTATGCTATGCTAAGCTAAAAGTGCTCCTACCAGACTCTGGACTGTGGTTATGTCTTTAATTAAAATTAGTCAATTATAATTACAGATTTCTTGATGATTAAAACTGTTCAAATGTATGTTTATTCATTGTACCTGCTGCAGCCATGGTACTGCTGCAAAGTTTCTTGATTATTACACTAGAATTAGAGTGTAGCTCCTAGTCATATCCAACTAGAATCTAACTTTTCATTTTCTGTCCATCTTAATACATGATCTAACTACAGAAAAGTCAAGCTTTTTAAACTGTTTTTTATTTTCCCCAAGCAAAATGCTAATGGTCTAATCTGATTCAATGATCTATGCTAAGCTAAGCTAAAAGTGCTCTCACCAGACCCTGGACTGTGGTTCTATTTTTAATTGTAATTAGTCAATTATACTTACAATTTTCTTGATGATTAAAACTTTACATTTATGTTTATTCATTGAGCCTGCTGCATCCATGGTACTAGATCAAAGTTCCTTGATTATTACACCAGGATGAGAGTGTAGTTCCTTGCCAAATAAGCCTAGAAAATACCTTTTCATTTTTTGTTGGTCTTAAAACATAATGTAACTACAGAATAGTCAGACTTTATATAGGAAAATTATTAAAATATTTATTTATTTATTTTATTTGAGCAAGATGCTCAATATTAAATACAGATTATTATTATTTTTTTATTAACATATAATAGTCACTGATTAAAACAACACTGGGCTTGTTTGATATTTAAACATATGTATTATCATTATTTATTGTTTGTTTTAATTTAAATACTGCATGTGTGCAAACACTAAGCAGCGTTCTTTCTTTACCTCTTCCAG
Seq C2 exon
AATGTCAGTGACTGAAGGCTGTGAGGTGGAGGGCATCACGTCGCTGGTCAAGCAGCATGTTCCCAAAGCTCAGTTGTCAAGGCAGCAAGAGGCTGAGCTTACATTCACTCTGCCTTTCGAGAGCATGGACACCTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:16
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:
NO
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:
TCGTAAAGCTGTCATCTCGCA
R:
CTGGAAAGGTGTCCATGCTCT
Band lengths:
230-2159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]