DreINT0023549 @ danRer10
Intron Retention
Gene
ENSDARG00000074635 | abca1a
Description
ATP-binding cassette, sub-family A (ABC1), member 1A [Source:ZFIN;Acc:ZDB-GENE-031006-12]
Coordinates
chr1:51957918-51959496:+
Coord C1 exon
chr1:51957918-51958057
Coord A exon
chr1:51958058-51959379
Coord C2 exon
chr1:51959380-51959496
Length
1322 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
CATATCTCTTTTTTGGTCAGGTC
3' ss Score
7.94
Exon sequences
Seq C1 exon
CGCCGTACTGCAACAACCTGATGAAGGGTCTTGAGTCGAGTCCCATTTCCCGCATGATCTGGAGGGCCCTGAAACCGCTGCTCATGGGAAAGATCTTGTACACACCAGACACTCCGGCCACACAGAGGATCATACATGAG
Seq A exon
GTCAGTTTATCGCTGTTTATAACTGTTATAAACTAGAGCTAAGCAGATTTCTGCCAGTCGAAAAATTTGGAGATATTCATTCATTCATTCATTCATTCATTTTCCTTCGGCTGAGTCCCTTTTTTAAAGCAAGTTTTAACCGATAATTATTCCAGCATGTGTTTTACACAGCAGGTGCCCTTCCAATCACAACCCAGTACTAGGAAACAATTTGGAGGCAGATACTTATTATTATGCATTACTATTATCACTATTATCTATAAATACTGTTATCAGTGTTTTAATATAAAGGTAAAGTTATCAGAACTAGGACTTTTTTCATTTTATATTTTAATTTTATTTTAAAATTTTGTCATTTTGTATATGCTTTTGTCATTTTTACTAGATCAATATTAATCTTTTAAGATTAAAATATATATATATATATATTTTTTACATATTTATATTTAAAGGCATTTTTATTTTTATTTACTTTGCATTTTATCCAAAGCAACTTGCAGTTGGTTTTATTAGGGCTGTCAAGCGATTAATAAAAAAAAATTAGTTTAATCAGTTATTAAATTTGGTTTAGAAATAACCCCATATTCATAGTTATCTTTATACCCAATTCCAAGCAAGTTGTGAAGATCAATCAACAAGATAAAGCATGAAATATGTCCAGATTTAAGAAATTGGTAAAATTGGATCAAGAAATGTAAGTTTAAAAAAAAAAACAGTAAAATAAATAAATTTTTTATGTCTATTTAGATTAAAACATTAAAATTTATAAACCATATAAACAGACAAATTATGTATCCATTTAAAATAAATGTTAATTTAATTTACATAATGTGTGTTTACTCAGTAAATATTGTACATATAAATAAATAAAACATAATAAATGTATATAAAATACAAAACCAACATATTCACCTTTATATGTATGTGCATTTTATATGACATATAAATATTTAGTCTATAATTATCCACTAACATGTTCTCTTGTATGTATATATATATATATATATATATATATATATATATATATATATATATATATATATGAAGAGTTTGGATGCAAAAACCTCTAAATGCCGTTTGATATTTTCTTCTAAAATTAGCATTTTTTATCCGACTCTGGTGTGTAGGATCAGAAATTTAACTTTTGTAGTGATGAAGTTCTTTTCATTGCCTTTAAAGTGAAATACTTGAACATAAACATAGGAGGCTGAGAAAAACACTCATTTTAGGAGAAAATTTCTGACTGCATTTAGAAGTTTTTGCATCTGAATTCTTCATATATATGGAGGACCATCCTAACCGCATATCTCTTTTTTGGTCAG
Seq C2 exon
GTCAATAAGACGTTTCAGGAGCTCGGTGTACTCCGTGACCTCGGCGGCATGTGGGAAGAAATGAGACCCAAAATCTGGAACTTCATGGAGAACAGTGAGGAGATGGACCTCGTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074635:ENSDART00000142465:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
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:
GCCGTACTGCAACAACCTGAT
R:
AGGTCCATCTCCTCACTGTTCT
Band lengths:
249-1571
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]