BtaINT0011231 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006896 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr19:62104443-62106594:+
Coord C1 exon
chr19:62104443-62104544
Coord A exon
chr19:62104545-62106386
Coord C2 exon
chr19:62106387-62106594
Length
1842 bp
Sequences
Splice sites
5' ss Seq
TCGGTACGG
5' ss Score
8.77
3' ss Seq
TTTCTCCCCCTGCTCTGCAGGAA
3' ss Score
10.57
Exon sequences
Seq C1 exon
GTCAGGATGAGCAAGAGGCACTTCAGCGTGGGCCAGCAAACGAGGGCGCTTCTTGGCAAGAATTTTCTTAAGAAATGGAGGATGAAAAGAGAGACCTTGTCG
Seq A exon
GTACGGTTCAGAGTCTATGTCATCTCATATTTAAAAGAGGACAGAGTACTTTTTTGGGTACAAACACTCTATCTGTTTTCTTTACTCTTTCATAGACATTCTATTTCTAATTAGCAGGCTGGATTTTTTTTTTTCAAATTCGGAGTTTTGCTATTATTTCAAGTGAGATTCCTTTCAAATATGTCATTATGACACATCTTATTGGAAGAATTTTGTTAAGAATTTATACTCAGAAACACCATGAAAAATAAAGTTATGAAAATAAACTCCCATAAAAATAAAGCCTGAATATTTATCCTACTGAGGTACCAATTACATCTGAATTCATTTGAATCTCATAAAGGAATAAGTACAAAAATTCAGCAGGAAAGTGAAAGAAATTTACTTAATCCAGAAAGTAATTAGAACTTAATCCAAAAAGTAATACAAAATTAAAACAAAAAAAATAAAACCTCCAAGAACAAACTGTAGCACTTGCACCATTGTACTATGGACAGAGATGATGTCGATTCGAAAGAAACCATGAGCAGAAAAACAAAGAGGAAAGGAAAATGGCATTTGAACTCTTGCTTATAGTAAGCTTCATAAGGATGATCGCATGCTATTCATGTAGGAACTTTAATAAATTCGGAAAAATCTAATTTAAAGTCACTTGTAAAATACCCATATTTCAAGAGAGGATGTATTAACATTTCACTTTCTGAACATTGCGAGTGCGCACGTGTTCTTCCAACCAATATGCATGGAGTGCGTGAATTTGCAGTGATCAAAGTATTCAAAGATCCCTGTGTGCAGGAAGGATTATGTACGTATAAAAGCTGGAGTCTACGCTATAGAGATGTTTTACGTCTTTTTATCTCTTTTAGTATAAGGATTATATCTGTGAATTTATTTATCTAAACAGATACAGGTGTAAAAACAAACCAACATAAGAGTTAAAGGATGATCATCTGGTGAATAAGATATATACCTTTTTTAAAGGCCATGTGTTAGAATTATGGGCTTCCGTTGTAGCTCATGGAGAACACAAGGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGATGGGGGAGCCTGGTGGGCTGCTGTCTATGGGGTCGCACAGTCGGACAGAACTGAAGCGATTTAGCAGCAGCAGCAGCAGCAGCTCGTAGCTCAGACAGTAAAGAGTCCACTTGCAATGCAGAAGACCTGGATTTGATCCCTATAACTGAACAATAAATTGTGTTCTTATCAGATTTCAAATGCATTTGCAATTCTGGTACATTTCCAATTCCAGAATGCTATCACAATGACAAAGGCTTTTAAAAGTCTTTTCGGGAAGCAGTGTTTTGGAGTACATTTCCAATTCTAGAACACCATCATGATGACAAAGGCTTTTAAAATTCTTTTCATGAAGCAATGTTTTGGAGCTATCTTCTTTTGCATTTGGGCAGCAGAAAATAAATATACCACTTCATTCCTGATTATGGAGGCGGATTGTCTATTTCATTCCAATGAACATTTCTTTATCATTCTCACTCAGGGGTCAACATGACCATTCATGAAGCAATCCAGCCTTTAACACTTGCATTCAAGTAAATAAACTTAAATTATTAGTTATAATTGGAATTGACACTACAACTCTGTCTTGAGGGATGGTGTGCATATTTCAAAATACACAGATTAAAGGACAAAAGAAAGTCGAAACACTTAAACACTTAAAAACTGGAAGAGAGGGAAAAACAATGCCCAAGCAACCCAACAGAATTATGAGTTTTTAACTCGTTTGTCTCTGATCAGGCCGTGGTAGAACAACTGCTGACTTGCTTCCTTTTTCTCCCCCTGCTCTGCAG
Seq C2 exon
GAATGGCTCTTCTCCTGTCTCCTAGTACTGTTTGCTCATCTGTTTTCCTCTAATTTACACCAAGTTAATGACTTCCCTCAACTGCCCGCTGTGAACTTGGGACGGGTAGATAATTTTAATGATTCTGATTACATTATTGCATTTGCTCCTGAATCCAAGACCACCCAGGAGATAATGAACAAGTTGGCTTCTGCCCCTTTCATAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006896:ENSBTAT00000009067:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(1.0=12.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGGATGAGCAAGAGGC
R:
CTTTTATGAAAGGGGCAGAAGCC
Band lengths:
310-2152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development