BtaINT0011160 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006921 | ABCA6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:HGNC Symbol;Acc:HGNC:36]
Coordinates
chr19:62084969-62086728:+
Coord C1 exon
chr19:62084969-62085086
Coord A exon
chr19:62085087-62086636
Coord C2 exon
chr19:62086637-62086728
Length
1550 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGG
5' ss Score
3.93
3' ss Seq
GGCGGGTGCCTCTCTTTCAGGAG
3' ss Score
8.12
Exon sequences
Seq C1 exon
AAACCAGTCATAATTGCTAGCTGTCTTCACAAAGAGTATGCAGGCCAGAAGAAACGGTGCTTTTCAAGAAGGAGGAAGAAGACCGCAGTGCGAAATGTCTCCTTCTGTGTTAAAAAAG
Seq A exon
GTCTGGAACAGTCACTGCTTAAATTTGCCATTATTTTTAGAAATACCCACTGAACATCGAGGTTATCAACACCGTTGTACTCGCTGAAGCATTCATTCACTCATTCAACATATGTTTTTTTGAGTGTGCCAGGGGCTGTTTAAGAATCAGGAAATATAATTATGAAACAAATAGACAAATGCATGACCTCATAGCTTTTACATCCCCGGAGGGGTCAGTAAACAGAAATGACTTATCAAGAGAGGTTTCAGATGTCACACTGGCCGGTTCTGTGGGGAACATTCAAATCTGTGAAATGACCTGAGTGACTCGGGGCCACATTCACTTAGGGTTGGAGTCTGAAAGCCTCAGTTGCTCAGTCGTGTCTGACTCTTTGTGACCCCATGGACTGTGGCCCACCAGGCTCCTCTGTCCATGGATTCTCCAGGCAAGAATACTGGAGAGGGTTGCCATTCCCTTCTCCAGGGGATCCTCCCAACACGTGGATTGAACCCAGGTCTCATGCACTGCAGGTGGATTCTTTAGTGGGAAGCTTAGGGTTAGGGAAGACTTTTCTTGAGCAGAGACAGTTAAGCCAAAATCCAGGCGATAGCAGGCTTCAAGTTGGTGTAGTGGTAAAGAACCCACCTGCCAATACAGGAGACATAAGAGACTTGGATTCAGTCCCTGGGTCAGGAAGATTCTCCTGGAGGAGGGCATGGCAACCCACTCCAATATTCTTGCCTGGAAAAACCCATGGACAGAGGAGCCTGGCAGGCTGCAGTCCCTGGGGTCACAGAGAGTCAGACACGACTGAAGCAACTTGGCACAGCTCAGCACTAGGCGATAAGAAGGTACCAGCAATGTTAGCGTGCAGAGATAAGAGCATCCCAGATGGAGGAAACAGCGAGGGTTCAGACCCAGGCATGCCTTTGGAGTGGGTGAGGCGCTCAGAGAGGCCAGCAGATGCTCTGTGAACGGAAGGGATGCTCTCAGAGGCAAGCAGGGCCCACGGGGTCCAGTGTGAACCACAGCAGAGTTTAGATTTCAGGCCAGTTGAGCAGAATGCCTCCAGTGGGTTTTTGTCACCATTTAATTGATACTTTGAAAAATGTTTCACCCTGGCTATTATTTGTCCATGAATTTGGGTAGTGGACAAGTTAAGAGGCTTTCATATCATCGTACCATCTCCGATGAAAGATGATAATGACTCAGGCACAGGTGGTGGAGTTTGCGACGGAGGAAAGGCGCCTGACTCCCGGGTTTAGGAATTGCTTAGGTCCTCAGCAGGCCAGCCGTCTGCCCTATAAAAAATTATGGGCACCTTTTCCCACTGGAAGAGTAATCTGAAAAAAGACCCAAGTATGGACAGCAAGTGTCAGTCTCTAAGCTTTTTTTCCAAAATGTTTTATATAATTATAGGGGCTAAAGCACATGTTTTGGCAACACAAATTACATATATAAATTTCAAAATGGCAATGGAGATGAACATGTATCTCAGAAAGTTGCTGAAGAAGCAGATCTATGTTATTGTTTTACTTCAATACTGATGGCGGGTGCCTCTCTTTCAG
Seq C2 exon
GAGAAATTTTGGGGCTGCTGGGACCTAATGGCGCTGGTAAAAGTTCATCTGTTAGAATGATATCTGGGATGATGACGCCAACAGCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006921:ENSBTAT00000009089:29
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=0.194
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(6.8=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(20.4=100)
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:
ACCAGTCATAATTGCTAGCTGTCT
R:
CTGTTGGCGTCATCATCCCAG
Band lengths:
200-1750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development