BtaINT0015416 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012237 | AEBP1
Description
Bos taurus AE binding protein 1 (AEBP1), mRNA. [Source:RefSeq mRNA;Acc:NM_174839]
Coordinates
chr4:77885018-77885344:-
Coord C1 exon
chr4:77885200-77885344
Coord A exon
chr4:77885104-77885199
Coord C2 exon
chr4:77885018-77885103
Length
96 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
AGGTCCTGCCTTCTCTGCAGCTG
3' ss Score
8.32
Exon sequences
Seq C1 exon
ACTTTCCACGGGAACGTGGATAAGGACACGCCCGTGCTGAGCGAGCTCCCGGAGCCGGTAGTGGCCCGTTTCATCCGCATCTACCCACTCACCTGGAACGGCAGCCTGTGCATGCGCCTGGAGGTGCTGGGGTGCCCCGTGTCCC
Seq A exon
GTGAGTGCCTGGGGCTGGCAGGGGCACGGACGGGTGGCTGGAGCAACCTGGGGTGGGCTGGCAGGTGGACTGCTCAAGGTCCTGCCTTCTCTGCAG
Seq C2 exon
CTGTCCACAGCTACTACGCGCAGAACGAGGTGGTGACCACCGATGACCTGGACTTCCGGCACCACAACTACAAAGACATGCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012237:ENSBTAT00000064740:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PD(29.5=83.7)
A:
NA
C2:
PF0024619=Peptidase_M14=PU(0.6=6.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGTTTCATCCGCATCTACC
R:
CTGCCGCATGTCTTTGTAGTTG
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]