DreINT0023708 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15625174-15626117:+
Coord C1 exon
chr2:15625174-15625423
Coord A exon
chr2:15625424-15625643
Coord C2 exon
chr2:15625644-15626117
Length
220 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TGTGTTTCAATGTCTTACAGGTG
3' ss Score
11.45
Exon sequences
Seq C1 exon
GTTTGGAGGAGGCTATGTAGTGACAATGAAGATCAAAGCCGCAAAACCAGGCCTTTCTCCAGACCTGGTCCCGGCAGAGTCCTTCATGGACAGCAGTTTCCCAGGATGCATCCAGCGAGAGAAACACTACAACACGTTACAGTATGAAATCGCAGCTGCCTCGCTAGCACGGGTCTTCCAGCTAGTGTTGACCAACAAAGAAAGACTGAACATAGAGGATTACTCTGTGTCGCAGACTACATTAGACCAG
Seq A exon
GTAACCTCACCAGCATGAGCAAACTTAAAGTTTTTTAGCATTTTCATTTCACTGCATACAAGAAGAATCGCTTGGTGATGTAAAATTGACATGCCCTGCTTAAGGGACCTTCCATTTGAAATGAGTTATTGGTTGAAATTCCAGTGCTGAGATTGGATTCGATTTGCTCAGGAGATGTTGCTGACAGGCCTAACAGCTCATGTGTTTCAATGTCTTACAG
Seq C2 exon
GTGTTTGTGAATTTTGCCAAGCAGCAGTCAGGAGAAGACGACACCGCCCCATCACATCTCAGACAGTCAGGGCCCAAACGAGAAAAAAAGGTCTCGCCGCTACAAAGAGTCGCAACAAAAAACAGATGAAATGACCTTCATAAGGACTATGATACAATCACTCATGGCTGAGCGTACATTACATCATGTTATGAAGTTTTCTAAAGCCTTTTTGTATGTGTATTTCAACACAAAACTAACTGCATCTATTTGAAGCTTTTTTTATTATACATTGTTACATTTTTGAACATCTGCCATCAGTTTATAGCACTGAGCCAAAGGTCAGTCTCCACCCACTTTAGCACTGATGAATTGACAAATTGAAATCGAAATAGATGTACAGAAATCTAGGATTTCTTTTTTTTTTTGCACGCAACACTAGCTTTTTAGGCTTCCTTACAATTCAATAAAAACATATCTTTATACAATTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:50
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.762
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCAAAGCCGCAAAACCAGG
R:
TTTTCTCGTTTGGGCCCTGAC
Band lengths:
306-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]