BtaINT0011088 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49669083-49669915:+
Coord C1 exon
chr3:49669083-49669206
Coord A exon
chr3:49669207-49669785
Coord C2 exon
chr3:49669786-49669915
Length
579 bp
Sequences
Splice sites
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
3' ss Seq
CTGGTGGTCTGCATCCCCAGGTG
3' ss Score
8.1
Exon sequences
Seq C1 exon
ACGCTGCTCAGGATCAATGCCATGCTGAGGAAGCTGCTCATTATCTTCCCCCACTTCTGCCTGGGCCGGGGTCTCATTGACCTGGCACTGAGCCAGGCAGTGACAGACGTCTATGCCCGGTTTG
Seq A exon
GTGGGTAGCAGTCATGTGGCCCTGGATCCTCCAAGACTGGGAGGGCTCCATTGGGAGTTTCTATGACCAACCTGCAGCCCGGACTGGGGCTGGAGGCACCTGGTTGGTCTGGGATTTTTTCCTGGTACTAGAAGGAATCAGGGTGCTTCTGTGTCCATGGTTGAGGAGCATAGGAGGGATCAGGGACAGTTCCTACTCTGACTTGAGCCAATATGAGACTCGGGTGATGGCTCAGATGGTAAAGAATCCACCTGCATTGCAGGAGACTTGGTTCAATCCCTGAGTTGGGAAGATCCCCTGGAAAAGGTCATGACAACCACTCCAGTATTCTTGCCTGGAGAATCTCCATGGATAGAGGAGCCTGGCGGGCTGCATGCAGTCCATGGGGTCAAAAAGAGTTAGATACAACTGAGAAACTAAACACAACACAGAGACTCGGGTTTGTCACTGACTTAATCCCTCGCATAAGGCGTGGTCTAGCTGAGCCTCGTGTTGTAACTAGGTCTTGGGACGGCTGGGGCAGCGGGACGGCTGGGCAGCAGGACTTACCTGTCATTTTCTGGTGGTCTGCATCCCCAG
Seq C2 exon
GTGAGGAGCACTCTTCAAATCCATTCCAGTGGGACCTGATTGGGAAGAACCTGGCTGCCATGGCAGTAGAAGGTGTGGTGTACTTCCTCTTGACGCTCCTCATCCAATACCAGTTCTTCTTCAGCCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010:ENSBTAT00000023982:39
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=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(12.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.1=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGCTGCTCAGGATCAATGC
R:
CATCGGCTGAAGAAGAACTGGT
Band lengths:
254-833
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]