BtaINT0011147 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006921 | ABCA6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:HGNC Symbol;Acc:HGNC:36]
Coordinates
chr19:62064762-62066542:+
Coord C1 exon
chr19:62064762-62064878
Coord A exon
chr19:62064879-62066358
Coord C2 exon
chr19:62066359-62066542
Length
1480 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
GTGTGTGCGCGTGTGTGTAGATT
3' ss Score
7.18
Exon sequences
Seq C1 exon
ACCTCTTCAGTGACCTCGATGAGGATTGCAGCCTGGGTGTGCTGAGTTATGAGGTTTCCACATCAACTCTGAATGAAGTCTTTACGAAACTGGAGGGAAACTCAATGGCTGAGCAAG
Seq A exon
GTACGTCCATTCGTATGCGTCATGGGAGACCAATTTCCAAATGGTCGTGTGTCAGCTTAGTGTCTAGAGTATCTTGTGTGTGGCTCTCACCAAGAACGAGACACATTCCGGATCTGACTGTGCTGTTTGGGAAGGGCTGTCAGCCTTTTCCTCACGTCGTCACCAGGACTAAACACAGGCCCTCCTTGGCGCATCCCAGACTTCCCTTCAGAAACGATTTGCTTCCTCTTTTAGCTTCTGTCTCCTCTCCCAGAAATCCCTGCTTCTTGGATTCTCTGAGGATGTCAGAGGCTCTCCATCAGGGTCATGAAGTCTGAGCAGATGTTTCTTGTCAAGATTGCCCTTACCTTGTGCGTGTGCAGAATTTCACTGAGCCTTAATGGGGAAAAGGATTCAGTAATCTCCTAAGGTGTGTTTTGGTGGTGGTGACGGTTTATTCGCCAAGTCATGTCTGACCCTTTGCGACCCCATGGGCTTTATGTAACCCGCCAGGCTCCTCTGTCCATGGGATTTCCCAGGCAAGAATACTGGAATGGGTTGTCATTTCCTTCTCCAAGGGGTCTTCCCAACCCAGGGATTGAACCCTGGGTTCAATCAATGGGTCTCTCACATTGACAGGCAGATTCCTTATCACTGAGCCACCAGCGAAGCCCAACATGTATTTTAATGGACGATGATAAAAAGAGCTGTCATTCTGCAGCCTTTATGGCAGACACTTTGATGGACGTGTGGCTATATTGCAGTTACCTTCCTATAAGAACCTTTATGGGCTTTTCAGATGGTTCAGGGGTAAAGAATCCTCCTGCAGTGCAGGATGTGTGGGTTCAGTCCTGGTCGGGGAGATCCCTGGGAAAAGGAAATGGCAACCCACACTGGTATTCTTGCCCAGGAAATCCCATGGACTGAGGCGCCTGACGGGCTACAGTCCTTGGGGTTGCAAAGAGTCGGACACGACTGAGCGACTAACAACAAAATAACCTTTGTGACAAATGCCATGGGCACACTTTTACACGTGAGAAAATCAGGCCGAACAGCAGTTAAATGGTTTGTCCCAAATCATGCTGCTTGTACAGCATGTATTTGGGAATCAGGTACCAATCTGGTGGTTTCAGATCTGACAATTTTTCCGCATAAAATTTTAAGTAGATATTTAGGCATCCATGATTGGGTGTTCCTGTGGAAGAGATTTCTTGAAATCCCTCAGAATATTGTCACATATGGGACCTTCTCTGTCTTTTCAAAGACTGGGCATAATGTGATCATCTTTCCTGAGTTCCACGTTTTGTATGAATTCACCGTATTTTCCCCACTGAGTTTATTGAATGTGGGCATCACGCACCTGATTTGCTTCCAACCTTCTTTGCTTTGTAACCACGAACATTCTAAAACCACGTTTAATATTGTTACAAAGAGAAAGCTGTGGTGCCCAAGATGCCATTAGTAATGCGCGTGTATTCTGTGTGTGTGCGCGTGTGTGTAG
Seq C2 exon
ATTTTGAACAAGTGGAAATGAGCAGGGACACGGGACGGCTGCATGAGATGGATCCACCTTGCCCTCCTGCCCCTGAGACGCAGAAGGCCATGAGCATCGCCGGCCTCTGGAGGCTGCAGTTCTGGGCGATGGCACGGCTCCGTTTCTTACAGTTAAGACGAGGAAAGAAAGGGCTTCTGATCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006921:ENSBTAT00000009089:17
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=0.290
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(1.4=8.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCTTCAGTGACCTCGATGA
R:
CAGAAGCCCTTTCTTTCCTCGT
Band lengths:
296-1776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development