BtaINT0011232 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62129197-62130117:+
Coord C1 exon
chr19:62129197-62129363
Coord A exon
chr19:62129364-62129983
Coord C2 exon
chr19:62129984-62130117
Length
620 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAC
5' ss Score
5.56
3' ss Seq
TGATCTTACCCGCATGGTAGGGT
3' ss Score
6.05
Exon sequences
Seq C1 exon
ATTACTGCTTTTCGGCATCACCTTTGGCCCTCAGCTTTTGGAGCATCTGTCCTATCGGTTACAGCAAAAAAGCTATTCTTGGGGGTTGTCTCCAAACACGTACTTCCTCTCCCCGGGTCAACCACCTCAAGCCCCACTGACCCGCTTACTGGTCGTCAACAGAACAG
Seq A exon
GTGAACGTGGGGCTGGACGCACCGGCTCAATGTCGATTCGTGTTGAGAGACTCCCCTAGACCATATGAACCACGAGGGGGAAGGAGTTCTGTATGTTTTAGAAAATTGTAGGTGAGGCCAAACAGGAAACGCATCCCAAAGGGAAAAATGCAAGGTAGGGAGTTTGTTTTTAAAAACGTGTTTTGCAAGTTTACTTAGACTCTGAAGCATGCTGCACACAGCAACACAGGAATTTAGGAAAGGGGTTACTGACTGGTTTCTGAGGTCTTCTACAGCATTTTTTAAGTACTACGCAGTTGTGAGCTTTGGAGAAAAAAAATACTTTCCATATTGCTAAGATGGAAGTTTAATATGGTCGAGGATTTGAATGTTAATTTTAAGTAGCAGTTGCACACAAACAGAAATGATAAGTAAACGCTTCAGCTGTAGGTGAAGCAAGTTTGACGTTTCCTTGACGCCAGAATGGATTTTAGTCCCACGGCGCTGGTTCTGCCTTTCTAAGGAAATCCTTAGAGTCCTTATTATGGTATGCTTTGTGTGACATCATTTACTGTTTTAAAAAATATTCTCTTTTGTGTTTTACTTCATTTTTGCTTCTTTTGATCTTACCCGCATGGTAG
Seq C2 exon
GGTCACGCATTGATGACTTCATACATTCACTGAGGCGCCAAAACATCGATTTAGAAGTGGACGCCCTTGGGACAAGAAATGGCCCCAGCGAGCCATCATACAACGGGGCCATCACTGTGACAGGCAACGACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.222
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(11.2=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCTTTTCGGCATCACCTT
R:
GTCGTTGCCTGTCACAGTGAT
Band lengths:
295-915
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development