BtaINT0011059 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49603986-49605023:+
Coord C1 exon
chr3:49603986-49604191
Coord A exon
chr3:49604192-49604846
Coord C2 exon
chr3:49604847-49605023
Length
655 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TGTCTCTGGTTTCTTCTCAGGTA
3' ss Score
10.85
Exon sequences
Seq C1 exon
TGCTTGATCCTGGATAAGTTTGAAAGCTACGATGATGAATTTCAACTCACTCAGCGAGCCCTGTCCCTGCTGGAGGAAAACAGGTTCTGGGCTGGAGTGGTATTTCCGGACATGCACCCCTGGACCAGTTCCTTACCACCCCATGTGAAGTACAAGATCCGAATGGACATAGATGTGGTGGAGAAAACCAATAAGATCAAAGACAG
Seq A exon
GTGATGTTTCAGGAGATCTCAGAAGGCCCTGGGTATCCCCAGTGATGTATGAGGCAAGGAAAGGGGGCTCCTGTGGGCTCAGGCCACTCATCTCCTCCTGAGACAGAAGGGTCACTTGGAAAGGCACAGGAAAGCACTTTGGTATCAAAGAACTAAGCTAGACAGTTGACCCTGCTAGTTGGTGGGACCAGGCGAATTCAGCTACATGTGTTTACTTCCTCACCTTAGCACTTGTCCTTGGCTGGCCTTCGAGCAATTTGGAGATGAAAATCTCTAGGTATTGGGTTATCTTCACAGAGATCCTGCAAATGAGGTTTCACCAGAGTCACTGGGAAATTACATTTGTTACAGAGTAAGGGATTGAAACTGGGCTCAGCCTATACATCAGTAAAAATTAAGTTAAATCAAAGGAAGTAAGATAATTTGTAAAGCTCAAAGTAGAGTCCTTGAATGAAAGCCATTACAAATCATGCTGAGGTTAATATTCATCACTGAGATTTAAACTTTGACCCAGAAAACAGAATCAGAGAGTGTGGAAAAGTTCAGGAGAGAGTTTCAGGAGAGTGAATGCCAAGTCCCCTCATGCTTATAACGAGTGAGTTGTCCTGTCCATTCCCACCCACATCCCTTGTCCCTGTCTCTGGTTTCTTCTCAG
Seq C2 exon
GTACTGGGATTCTGGCCCCAGAGCTGATCCTGTGGAAGACTTCCGATACATCTGGGGAGGGTTTGCCTATCTGCAGGACATGGTTGAACATGGGATCACGAGGAGTCAGGCCCAGGAGGAGGTTCCGGTTGGAATCTATCTCCAGCAGATGCCTTACCCCTGCTTCGTGGATGACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010:ENSBTAT00000023982:12
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:
PF126982=ABC2_membrane_3=PU(4.9=20.3)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(20.8=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:
TTTCAACTCACTCAGCGAGCC
R:
GTCATCCACGAAGCAGGGGTA
Band lengths:
342-997
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]