BtaINT0011082 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49655692-49656001:+
Coord C1 exon
chr3:49655692-49655797
Coord A exon
chr3:49655798-49655926
Coord C2 exon
chr3:49655927-49656001
Length
129 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
TGTTTTTTATGGCTTTCTAGGGC
3' ss Score
9.83
Exon sequences
Seq C1 exon
GTATGGAGGAATTTCTGTCGGAGGAAAGCTCCCAGCTCCCCCCTTCACTGGAGAAGCACTTGTTGGATTTTTAAGTGACCTTGGCCAGTTAATGAATGTGAGCGGG
Seq A exon
GTATGTAAACAGACTGGAGATTTGGTGGGACTTTCAACTGGCCACTTATAGAAATGATCATGAGTGCTAAGAAGAGGTGGTGAGGGGGAGTGGGAAAAACCCTCTTGTTTGTTTTTTATGGCTTTCTAG
Seq C2 exon
GGCCCTATGACCAGAGAGGCTGCTAAAGAAATGCCTGCTTTCCTTAAACAACTAGAAACTGAAGACAATATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010:ENSBTAT00000023982:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(7.0=63.9)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(7.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGGAATTTCTGTCGGAGGA
R:
TGTCTTCAGTTTCTAGTTGTTTAAGG
Band lengths:
170-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]