BtaINT0015407 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012237 | AEBP1
Description
Bos taurus AE binding protein 1 (AEBP1), mRNA. [Source:RefSeq mRNA;Acc:NM_174839]
Coordinates
chr4:77883990-77884459:-
Coord C1 exon
chr4:77884263-77884459
Coord A exon
chr4:77884170-77884262
Coord C2 exon
chr4:77883990-77884169
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
CTCTTTCCCGGCTTCCCCAGGGC
3' ss Score
9.8
Exon sequences
Seq C1 exon
GGGAGCCTGAGTTCCGCTACACAGCTGGTATCCACGGCAATGAGGTGCTGGGCCGAGAGCTGCTGCTCCTACTCATGCAATACCTGTGCCGCGAATACCGCGATGGGAACCCACGCGTACGCAGCCTGGTGCAGGACACGCGCATCCACCTAGTGCCCTCGCTGAACCCTGACGGCTACGAGGTGGCAGCGCAGATG
Seq A exon
GTGGGTGGAGGGAAGGGGGTCAGGGTGGGGCCTGGTGGGGCAGGGCTGGGAATGGGCTGCTGATGCTGACCCCCTCTTTCCCGGCTTCCCCAG
Seq C2 exon
GGCTCAGAGTTTGGGAACTGGGCACTGGGTTTGTGGACGGAGGAGGGCTTTGACATCTATGAGGACTTCCCGGATCTCAACTCGGTGCTCTGGGGAGCTGAGGAGAGGAAATGGGTCCCCTACCGGGTGCCCAACAATAACCTGCCCATCCCTGAACGCTACCTCTCTCCAGATGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012237:ENSBTAT00000064740:11
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=0.017
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(19.9=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(18.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATACCTGTGCCGCGAATACC
R:
AGATGTCAAAGCCCTCCTCCG
Band lengths:
177-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]