BtaINT0072267 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001146 | HIVEP2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:HGNC Symbol;Acc:HGNC:4921]
Coordinates
chr9:81245203-81246973:-
Coord C1 exon
chr9:81246872-81246973
Coord A exon
chr9:81246099-81246871
Coord C2 exon
chr9:81245203-81246098
Length
773 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTC
5' ss Score
6.49
3' ss Seq
TCTTTGTTCAATTGCTTCAGAAA
3' ss Score
7.02
Exon sequences
Seq C1 exon
GAAACCTAACGAAGCATATGAAATCTAAAGCACACATGAAGAAATGCCTGGAGTTGGGAGTCTCAATGACATCAGTCGATGACACCGAAACCGAGGAAGCAG
Seq A exon
GTATTCACACTTGAGTTGACTGACCTCTTTACTGTGCATGCTGGAGCTTTGCGGCCAAGGTGGTAAAATAAATATAGGTATTAAAAAAAAAAACTGATCACGTTTCATTTTACTAAATACTAAACAGAGAAGAGAAGTCTGACGCATTGAATTGCTTGAGACTTAATGAAAAGAAATGCATTTCAGTTTTGGCTGAAGAAGTAGAAATGCCTTACTGTGAAAATAATTTTATCATTATTAGAACAGAACCATAAAGGAAATCTAATTGCATTTAAGTTGTAATGGTGATTTAAATCTTATGATGATACTTTTTGGGAAATTTGCAAAGCATTTTAATGTCTTATTTTTTTGATCAAGAGGAAATCTAGTAGAAAAAAAATGTCCACCAATAACCTCAGTAGAAAATCTGGGAATCAGCTGGACTTCCTGACTTGTAGAGACAGGTTCTTGCTTTTCTTTTTCCTCTAATATCATCATTAACAACATTATGTATCTACTTATTGAGGGTTTTCTATGAGTGGTGTGATGCCTGAGCTAAAAGTTCCTACTCTGGAGGCCATATTGTAGGTGGGAATGAAACCAGATAGCTACATAAAAAGATAAGAACCAACCAGTGTCACAGAGGTAAGTGCTCATGTTATAGGAGTTCAGAGATGACCACCTCTAGGGGCTAGAGGATTGAGGAAAGCTTTTGCAAAGAGATGGCATCTGAATGAGCTTCTAACCTTCTTGTTTGAATCTTGATGTTCACTCTCTTTGTTCAATTGCTTCAG
Seq C2 exon
AAACAATGGAAGATTTGCACAAGGCAAGTGAGAAGCACAGCATGTCCAGCATTTCAACTGATCATCAGTTCTCAGATGCTGAAGAATCGGATGGTGAAGATGGAGATGATAATGACGATGACGACGAAGATGATGAAGACTTTGATGACCAAGGAGATTTGACACCAAAAACAAGATCAAGAAGCACCAGTCCCCAGCCTCCTAGATTCTCCTCCTTGCCGGTGAATGTTGGCGCTGTGCCCCACGGGGTTCCTTCCGATAGCTCCCTGGGGCATTCTTCATTGATCAGCTATTTGGTTACGTTGCCAAGTATTCAGGTTACTCAGCTGATGACACCAAGTGACTCATGTGAAGATACTCAGATGACAGAATACCAGAGGTTATTCCAGAGCAAAAGTACAGACTCAGAACCAGACAAAGACAGGTTAGACATCCCCAGTTGTATGGATGAAGACTGCATGCTGTCTTCAGAGCCGGGCTCCTCCCCACGGGACTTCTCACCCTCCAGCCGCCATTCCTCTCCAGGATATGATTCTTCACCCTGTCGAGATAATTCACCAAAGAGGTGTCTGATACCCAAAGGGGATTTGTCACCCAGAAGACATTTGTCACCTAGGAGAGATCTGTCACCCATGCGACATCTTTCACCAAGAAAGGAAGCTGCCTTGAGAAGAGAGATGTCACAGAGAGATGTTTCGCCAAGAAGGCATCTGTCCCCAAGGAGGCCAGTGTCACCTGGGAAAGAAATCATGGCCAGGAGGGACCTCTCTCCCAGGAGAGAGAGAAGATACATGACCACCATAAGAGCACCATCTCCCAGAAGGGCTTTATACCACAACCCACCATTGTCCATGGGGCAGTATTTGCAAGCAGAGCCAATTGTATTGGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001146:ENSBTAT00000001526:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.957
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:
AATGCCTGGAGTTGGGAGTCT
R:
CAATGAAGAATGCCCCAGGGA
Band lengths:
344-1117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]