BtaINT0011249 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62150031-62151579:+
Coord C1 exon
chr19:62150031-62150171
Coord A exon
chr19:62150172-62150817
Coord C2 exon
chr19:62150818-62151579
Length
646 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAAT
5' ss Score
2.23
3' ss Seq
CTATCTCTCCTCGCCCCCAGGTT
3' ss Score
11.37
Exon sequences
Seq C1 exon
GTGTATCGGCTCCATCCAGCATCTGAAGAGCAAGTTCGGCAGAGACTACCTGCTGGAGATGAAGCTGAAGAGCCTGGCCCGGCTGGAGGCTCTGCACGCCGAGGTCCTGAGGATCTTCCCCCAGGCTGCTCGGCAAGAGAG
Seq A exon
GTCAATGCGGGCTCATTCTGATTCGTCCTGGTCTTTGTTCTGTTTTTCTGTGATGGCGAGATATAAAAGCTTCATCTTCTCATTCCTTAAAAAAAAAAAAAAAAACTATATGGGAATCATGAGGACTTAAGTGAGTAGTTCAGTTCAGTTCAGTCGCTCAGTCGTGTCCGACTCTTTGCGACCCCATGAATCACAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCTGGAGTTCACTCCGACTCACGTCCATCGAGTCAGTGATGCCATCCAGCCATCTCATCCTCTGTCGTCCCCTTCTCTTCCTGCCCCCAATCCCTCCCAGCATCAGAGTCTTTTCCAATGAGTCAACTCTTGAGACATCCAATTCCAAGGGATAGCACAGGAGGGAAATAAGAGAACCAAGTCCTGGTTTGGAAGCTGATTCTTGTGAGGGAATTAATATTCTTCCTTTTTCTTTTCTTTTAACTTTCAAGGGCCTGTTTATTTATTTTATATATTGGATTGCAGTTGAGTTCACAATGTTGCGGTAGCTCCAGGCGCACAGCCAAGCCCTGGACGAGCCTGCTGCCCCTTCCCAGACATGGCACCCGTTCGCGGCCGTGCCTCCAGGTCCTGAACTCAGCTATCTCTCCTCGCCCCCAG
Seq C2 exon
GTTCGCCTCCCTGGTGGTCTACAAGTTGCCTGTTGAGGATGTACACCCTTTATCACATGCCTTCTTCAGTTTAGAGACAGGTGAGAGTGCCTGCTGCGAGTGAGCCTCTGGAAACCGATCACATTCAAGTCTTGCATAAAACCAGCATAAGAAGTATCAATACATGGGCCTAAAATGTGACATTATACTATATTATATGATAAGGGCTTCCCTTGTGGCTCAGCTGGTAAAGAATTTGCCTGCAATGCGGGAGGCCAGGTTCAATCCCTGGGTCTGGAAGATCCCCTGAAGAAGGGAAAGGCTCCCCACTCCAGTATTCTGGCCTGGAGAATTCCAGGGACTATACAGTCCGTGGGGTCGCAAAGAGTCGGACACGACTGAGCGACTTTCACTTCACATACTATAAGTAAATAGTAAGGTTTTAATCCAGAGGTTCTCAGCCAGTGATGTGGCAACTTCTGGGGATACAGGCAGACCTCGGAGGTATTGTGGGTTGGGTTCCAGACATCACTATATATTGAATGCTGCAATGAAGGAAGTCTCATGAGTGTTTTGGTTTCCCAGGGCATATAAAAGTGATGTTTAGGGGACTTCCCTGGCAGTCTAGTGTTTAAGACCTCACCTTCCAATGCAAGGGGTGCAAGTTCGATCCTTGGTCAGGGAAGCTAAGATCCAGCATGCCTCGAGGCTAAAAAGTCAAAACATAAAACAGAAACAATATTGTAACAAATTCAATAAAGACTTTAAAAATGGTCCACTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GAGGTCCTGAGGATCTTCCCC
R:
TACTGGAGTGGGGAGCCTTTC
Band lengths:
357-1003
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development