BtaINT0011069 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49635960-49636717:+
Coord C1 exon
chr3:49635960-49636099
Coord A exon
chr3:49636100-49636579
Coord C2 exon
chr3:49636580-49636717
Length
480 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTT
5' ss Score
4.83
3' ss Seq
CTGCCGCCTTGTCCCTCTAGGTG
3' ss Score
13.38
Exon sequences
Seq C1 exon
CCTCACCGTGGCTGAACACATCCTGTTCTACGCGCAGCTGAAAGGGAGGTCCTGGGACAAGGCCCAGCTGGAGATGGAAGCAATGCTGGAGGACACAGGCCTCCACCACAAGAGGAACGAAGAGGCTCAGGATCTGTCAG
Seq A exon
GTGCTTGGTATTGGAAAATGGGCTTCGGATGGCCAATCCACGGTTTCCCAGTGCACAGGGCCTTGTATATATACATGTGTGCTTGTGTGTGTGTGTGTGTTCTTAAACTTGTAACAGGAGAGCTCCTAAGGGTTGGAATAATCTATAAAGTTATTCTGAGCATCTAAGAGAAACCCAACTCTGGATTATTTTCTACATAGAACACTATCCTGCAGCAGCCTGGGCTCTAATGTGCTCTGAGGTTTATGTGTTTGAACTAAAAATGTGAGAACAATCTTCACATGGTCTGATCCTGGGAGGCAGGGAGTTTCTGTTGTGTATTATAAGGCCTGAACCACTAGGGTTCTGAACACTGTGGACATCTAAGGAGGCAGCTTGAAGCTGCTGCTGGATCTAAGGTACCTTCCTTACGTCGTCAGCCCTGGGCCGTTCCTTCACATGGTTCACAGCTCCCGTGACCCTGCCGCCTTGTCCCTCTAG
Seq C2 exon
GTGGCGTGCAGAGGAAGCTGTCTGTGGCCATTGCCTTCGTGGGAGATGCCAAGGTGGTGGTTCTGGATGAGCCCACCTCTGGGGTGGACCCCTACTCACGTCGCTCAATCTGGGACCTGCTCCTGAAGTATCGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010:ENSBTAT00000023982:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(17.9=55.3)
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:
CCTCACCGTGGCTGAACACAT
R:
CTGAGCGATACTTCAGGAGCA
Band lengths:
278-758
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]