BtaINT0011229 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62124853-62126686:+
Coord C1 exon
chr19:62124853-62124972
Coord A exon
chr19:62124973-62126487
Coord C2 exon
chr19:62126488-62126686
Length
1515 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
ACTGGTTTCATCCTTTGTAGGCC
3' ss Score
9.08
Exon sequences
Seq C1 exon
ACCTCTACAGGGATCTTGAAAGCTGTTCCAACCAGGGCATTGAGAATTATGGTGTTTCCATGACAACACTGAATGAAGTGTTCTTGAAATTAGAAGGAAAATCAGCTTTTGATGAATCAG
Seq A exon
GTAATAAATAACTTTTTACCTTGAAATTTCTCATTGTGTGCTACATTTTGTCCTGAAAACACACTTGGAATGACGAAGTTACACGATTTTCGAGGTCGATGATTCGATGTGGTCTTGGAAAAAGTTAGAGCAGATGAGAAGTCTACTTCTTCTTTTCTCCCCTCTTCTCTCAATGCTGGTCTCACCTCTTGAATTCTGTCTTTCGTCCCAGACATTTTACCAAGCCTGTGGAACACAGACCAGGTCTTTATGCAGCTCACATAAATATGCAATATAGTGTTTTTTGAATGTAACTGCTATGGGTAAAAGAAAATTAGAATTGTAAGTTGAAAGTTATTTTCTTGACATATGTGAGGATATTATTTCACTAGTAGGCTTCGCTGGTGGCTCAGTGGTAAAGAATTCACCTGCGGTGCGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCTGTCAGTCTAATTGTTACTCCTTGGAAAGTTCTCTGCCTTTCTTCTCTAGCTGCTCTAAGCTATTTCTTTTGTCTCTGGTTCACCTTCATCCTGCTGTGTTTAGTCTGGCCTATGCTCTTGTCTTCTTTTCTTTTTTGGTTGATCAGGTGGGAAGTCTTTTTTATATACTTGATAACCTTTGTAAGTGGTGTAATTCACTTTCAGGGAGCATACATTCAAAGCATCAATTTCTCTAGGCTTCTCTTCCAAAAGAGGCAACTTTATCTAGTTTTGAGGCTTCCCTTGTGGCTCAGATGGTAAAGAATCCAGCTGCAATGCAGGGGACCCAGGTTTGATCCCTGGGTTGGGAAGATCCACTGGAGAAGGGACTGGCAACCCACTCCAGTATTCCTGCCAGGAGAATACTCCCAGGCTCCCATGTTAAAAATATTGTCTCAACCAATTTCATATCCTTCTGTTCTTCATATTCTTTCATATTCTCCTTGGTCAAAAATACTAAGATAGTTTGTCTCTTGCAATAGATTTTTCCAGGCTAAATATGGATTTCTGATCATTATGTTCTCTAGAATGAATTCAGTCCTTTAAAGCTCTGGATACAGAGCTATTTTTTTTTTCCAGAAAATACGAGATTCCTTTTATTATGTCGTTATTTCTTCTTCCTGTATTGTGTCTTTATATCTTTTTATTTTTTTTGCTGTGTTCCTGTCTCCTTAGCAGTTTCTCTAATGGTGCCCTGAATTAGATTATTTGCATCTTTGCCCAAGACTCTCTCCTCTGACAACAATTGCTGAAAAGATGATCCTAGGAAAATCTAAATAATGCACGTTGACATCACTGACTCAAGGGACGTGAGTTTGAGCAAACTCCGGGGGACAGTGAAGGACAGGGAGCCTGGTGTGCTGCAGCCCATGGGGTCACGGAGAGTCGGACACGACTGAGCGACTGAACCACGGCAAACGGCTCTTTACAAATGACTGGTTTCATCCTTTGTAG
Seq C2 exon
GCCCTGCAGTTTCGGAGCAGTTACAGAGTGGCAGAACCAACGACACAGGCAGCCTTGCTGAGCCGGAACAGGTCGTGTCGTCCTTCAGTGAAGCAAGCAGCACGGTCGGCGGCCTGGCCCTCTGGAGGCAGCAGCTCTGTGCAGTAGCAAAAGTCCGCTTCCTCAAGTTAAAGAGTGAAAAGAGAGCCCTGCTGGCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:18
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=0.299
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCTACAGGGATCTTGAAAGCT
R:
CCAGCAGGGCTCTCTTTTCAC
Band lengths:
315-1830
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development