BtaINT0011098 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49682472-49684084:+
Coord C1 exon
chr3:49682472-49682721
Coord A exon
chr3:49682722-49683997
Coord C2 exon
chr3:49683998-49684084
Length
1276 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGG
5' ss Score
3.33
3' ss Seq
TGCCCTTCTCTTGCCTCCAGGTA
3' ss Score
12.66
Exon sequences
Seq C1 exon
GTTTGGAGACGGCTACATTGTCACGATGAAAATCAGGTCCCCAAAGGACGACTTGCTTCCTGACCTGGGTCCGGTGGAGCAGTTCTTCCAGGGCAACTTCCCAGGCAGCGTCCAGAGGGAGCGGCACTATAACATGCTGCAGTTCCAGGTCTCCTCCTCCTCCCTGGCTAGGATCTTCCGGCTGCTCGTCTCCCACAAGGACAGCCTGCTCATCGAGGAGTACTCGGTCACGCAGACCACACTGGACCAG
Seq A exon
GCAAGGCTGGGGGGTGCCCAGCTGGGCAAAGCCTGGGCTGCAGTGCCCAGCTCAGCTGGAATCTACACAAGGGCAAGGGAGGATGTGCCCAGGTACCAAGTCCCTCTGTCCATTAGGGCAAACTTGGAAACTCAGAAATGGTTTTCTAAGAGTATTTCAGTCATCAACAGACTTCACTGACTTTTTTACAGCATTCTTCCTCACAACACTATGATGTTTTTTCTCCTTCCCAGTTTGTGGCGATGGCCCTTTTTTCCTTTCAAATCATCTCTACTGATGCTTAATTTAAATACAATAGAATGCACCTATTTAAAGTGTACAATTCAGTGAGTTTTGATAAATGTATGTGCCATGTGTCAGGTTTTTTTAACATGATCATTTTTTATTGTGGTAAAATATGTATGTAAAATATATGTAATTATCATTTTTAAGTGGCATTACACTTCAGCGGCATTAAGTACATTCATATTGTTGTACAACCATCACCACCATCCATCTCTAGAAATTTTTCATCTTCCCAAACTGAAACTCTGTACTCATCAAGCGGTAACTCCCAAGAACTGCTCCCCTGGCCACTGTTTTACATTCTGTTGACTACTCTACATACCTCGAAGACGTGGAATCACACAGTATTTGTCCTTCTGCGTCTAGCTTATTTCAGTTAACATAATGCCCTCAAGGTAAATCCATGTGGGAGCCTGTGTCAGAATATCCTCCCTTTTTAAGGTTGAATAATATTCAGTTGTATGTATATACCATGTTTTGTTTATCCATTCATCTATATGGATGTTTGTTTCTGGGTTTCATTGGTTTTTATTTGTTCTTTTTAAAATAAATATCCTTAAAGATTACTCAGCATAGCAGTAGAAACAGGCAAGTCTCTGCTTACTCTCTGGCTCCCAGCACCTTCTTGCCAGCATAAATAGATGGAGGCAGAGACAAGAGTTGGTCACACTGCACATTGAATTGAGAATAGAAAACTGGAGCGATCAGCTCCCGTCTTCCTGGTTTTGATTTTTTAGTTATTCCTGTAGAGGTTTAGGAGGCTACCACTAGCTGAGACTCTGCCTCGTTTACCCATAATCCTCTTGTGGGCAAGCCTTTGGCTTAGCTCACAAGTCTAAGAAGAAGCCCTGTGCCCTGGGCAGGACACAGGCTGCTCCAGCAGAGCTGTACATTAACTGTGGGAAACAACAAAGTGAGTGGGTGGGAGGGTAGGTAGAGGGCGCCCTTTTCTGGAACTATCCACCTACTCTTGCCCTTCTCTTGCCTCCAG
Seq C2 exon
GTATTTGTGAACTTTGCTAAACAGCAGAATGAAACTTACGACCTCCCTTTGCACCCTCGAGCTGCAGGAGCCAGCCGACAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010:ENSBTAT00000023982:48
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=0.483
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:
GGAGACGGCTACATTGTCACG
R:
CCTGTCGGCTGGCTCCTG
Band lengths:
328-1604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]