BtaINT0011240 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62140742-62142067:+
Coord C1 exon
chr19:62140742-62140833
Coord A exon
chr19:62140834-62141946
Coord C2 exon
chr19:62141947-62142067
Length
1113 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAG
5' ss Score
3.6
3' ss Seq
TTGCACTGTTTTGCTTTTAGAAT
3' ss Score
9.54
Exon sequences
Seq C1 exon
CCTTACCTTCATTTCTTCATTTTCCTCTTTATCTTACGATGTCTGGAAATGAAATTTAGGAAGAAACCAATGAGAAAGGATCCTGTGTTCAG
Seq A exon
GTTAAGAAAATTCAAATACTATTTCGCGTCTTATTTTAATACTCATTGTTTAAAGACATTTTAATATGTCTAATTAATTGCATAGAAAGTGTTGTGTAGAATTGTTCTAAAGGGACTGTGTAGAGTTGTTGTTCAGCCACTCAGTCGTGTCCGACCTTTGTGACCCCATGGACTGCAGCAGGCCAGGCTTCCCTGTCCATCACCAACGCCTGGGCACATCTATGTAAGCAGTTGGATAAGTCTAGGCATCCAGGAAGGAGGAGTAGCTGAGCGAAAGGATGAAAGTTGGAAAAAACACCTCCTTCTGCAGATTTGAGAAGGCCGCTGGAACGAACTTGGAGGCCTGTATTGCAGGACCGTGAAAAATGGAAGCTCGGTACTGGAGGGTCTTGGGTAGAGAAGCTTAGGGAGGGTTTTGAAAGTTACACGGTGGAAGATGAAGACAGATGTGCTTTGAAAACCTTGCCTTACTCAGAAGAGGAATCAAGCTCAAGTCCAGCTTAAGCGAGCAGAGCAGGAGAGGGGCAGGGAGACAGCTCTGTTTTAGGGCATCGGCTGCCAGTGGAAGTTTGGGAGCAGCCGTAACCAGAGGTGTGGGACGATGGAGGAGCGGATTCGGTTGGTAGCAGTCGGAAAAGGGTAATTCTGACACACATTCCCAAGAAGCGACGGTGCTCAGTTACTGGTGAGTCCGAGTCCTGGGTTCTGAAGGTCATGCCTCCGATGATAAGCATTTTGGTCTGGTGTTACCACAAAGCCTCAGAATTCTGAAGTGTCTGTGCTAAAATTACAGTTCCTAGGTTCCTTTCACGGGCAGCCCTGCCTCCAAATCCTTTTCCAGAGACGTCACGACGGATAAGGAGCGTTATGCTCAGGCAAAAAGCCAGGCTGAATCGAAAGTAGCATCACTGATGGAGCAAGGCTGTTTGAAAGGAGAACAGTGTCGACTGGAAACTGAGAGTCTGCTGTGGATTCTCTACCATCTGAGCCACAAAGGGAGCCCCACAGCTACTCAATCTGTCCAAATAATTGATCGCAGTACATACAAAATTCACCATTTGGGGGCACGTTTCCCGCTGGAAACCTCTTAGATTTGCACTGTTTTGCTTTTAG
Seq C2 exon
AATTTCGCCAAGGAGCAGTGCTGTTTTTGCAAACCCAGAGAAACCCGAAGGGGAGGATGAAGATGTCCAGACGGAAAGAAGGAGAACAGCAGACGCCGTGGCCGCCCCGGACGCGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:28
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=0.610
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(3.8=35.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTACCTTCATTTCTTCATTTTCCT
R:
CGGCGTCTGCTGTTCTCCTT
Band lengths:
190-1303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development