DreINT0023736 @ danRer10
Intron Retention
Gene
ENSDARG00000074041 | abca5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:ZFIN;Acc:ZDB-GENE-050517-5]
Coordinates
chr12:38674512-38674901:+
Coord C1 exon
chr12:38674512-38674629
Coord A exon
chr12:38674630-38674809
Coord C2 exon
chr12:38674810-38674901
Length
180 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
CAATTCTGACCCGTTTTCAGGTG
3' ss Score
8.43
Exon sequences
Seq C1 exon
AAACCAGTTGTGGTGGTGAGTAACCTCAGAAAACAGTACAAAGGCAAGAGGGAGGGCTTCTCGCTTAATAAGAAAAGGAAAGTGGCCACAAAGAACATCTCCTTCTGTGTTCGCAAAG
Seq A exon
GTAGAATTTCTTGTTCCTACTTATATGTAATGTGATTTGGGATGCAAACGACCAATAAACGATCATTTAATTATTGCTAATCCTTTAAATCAATATACATTATTAATAGTAAATTGTGCATGGATGTTATCACACCACACGGCAACCTCAAAACATTATGCAATTCTGACCCGTTTTCAG
Seq C2 exon
GTGAGGTTTTAGGTCTGCTGGGTCCAAACGGAGCAGGGAAAAGCACAATCATGCACATGTTGTCTGGAGACACTGAAGCCACCGCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074041:ENSDART00000155563:30
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=0.161
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(6.8=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(20.5=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:
CCAGTTGTGGTGGTGAGTAACC
R:
GTGGCTTCAGTGTCTCCAGAC
Band lengths:
197-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]