BtaINT0011251 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62108443-62109354:+
Coord C1 exon
chr19:62108443-62108546
Coord A exon
chr19:62108547-62109127
Coord C2 exon
chr19:62109128-62109354
Length
581 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TCACCGATGTCTTTCTTTAGATC
3' ss Score
9.59
Exon sequences
Seq C1 exon
CTCATTGTCAAATAATGGATGAAAGTGTCATTTGTGAAGGTTCTTTGTTCTGGGAGAAAGGCTTTGTAGCTTTTCAAGCTGCTATTAATGCTGCCATCATAGAA
Seq A exon
GTGAGTATTGAGTTCAAAGAAACTAACTGCTTTGAAAATCTGGTTTTCATAGAGGGTGATTGAATCAATCTGTCATTTAATTAATTTAGTCACTTGATATGGAACAACAGGCTGAGTAATTACTCTAACTAAACCTTACGCCGAACGCTGAGGATTAAGAAAGAAGTAGAACGCAGGCACTTTTCTCCAGGGATCTTGGATCATGGGGGAGAGAAATAGGAATAAATAGTTGTAGTGAGAGTCCCAGCTCTGTCATGGAACGGAAGTGATGGCGAGGCAGGCCACAGGCAGAGGATTCTCTGGTGAGAGGTATCAGAGAAGACTTACTAACCAAAGTGACACTTCAGAGGTGACTTCACATGCGTGTAGAATTTTATTCACTGAAGATACTAAGTAAGGATATTCTAAGGAATTGAGACAAAATCTAGTATATTCCAGGATTTACAAGGGGATGAATCATGATGGACATACATATAGAGTAAACGTGGAGTGAATGCACATAACTTCTATAATTGAGACCAAATGCATGAGGCTGTAATTAGCTTAACACTAACACTGTGCTCACCGATGTCTTTCTTTAG
Seq C2 exon
ATCACAACGAATCACTCGGTGATGGAAAACCTGATGTCAGTGACTGGTATAAATATGAAGATACTACCTTTTGTTGCCCAAGCAGGAGTTTTGACTGATTTTTTCGTTTTCTTCTGTGTTATTTCTTTTTCTGCCTTCATATACTACGTATCAGTCAGTGTTGCACAAGAAAGACAGTTCATGAAGCCACTGATGACAATGATGGGACTTCGAGAGTCGGCCTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:5
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=FE(14.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCAAATAATGGATGAAAGTGTCA
R:
CAGAAGGCCGACTCTCGAAGT
Band lengths:
326-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development