BtaINT0072276 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020745 | HIVEP3
Description
human immunodeficiency virus type I enhancer binding protein 3 [Source:HGNC Symbol;Acc:HGNC:13561]
Coordinates
chr3:105216951-105219071:+
Coord C1 exon
chr3:105216951-105218530
Coord A exon
chr3:105218531-105219056
Coord C2 exon
chr3:105219057-105219071
Length
526 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CAAATAGACCTTAACTGTAGTAT
3' ss Score
0.19
Exon sequences
Seq C1 exon
AGTTCTTCCCCACCCAGGCCATGTCCAGCCTGCTCTCCACACCTTACTCCATGCCGCCCCTTCCTCCCTCCTTATTTCAAGCTCCCCCACTTCCTCTCCAACCTACTGTTCTACACCCGGGCCAACTCCACCTCCCCCAGCTCATGCCTCACCCAGCCAACATCCCATTCCGACAACCCCCTTCATTTCTCCCCATGCCTTACCCTGCCTCCTCAGCACTTTCTTCTGGGTTTTTCCTGCCTCTGCAATCGCAGTTCACCCTTCAGCTCCCCAGTGAAGTGGAAAGCCACGTGCCCCAGATCAAAACTAGCCTGGCCACACTGGCAACAGGAACCCCTGGCCTCTCCCCCAGCACAGAGTACAGCAGTGACATCCAGCTGCCCACTGTGGCTCCCCCATCCAGCTGCTCAGCACCCACATCAGCCCCTCCACTGGCCCTGCCTGCCTGTCCAGACACCATGGTGTCTCTAGTTGTGCCCGTCCGCATCCAGACCAACATGCCATCCTATGGGAGTGCCATGTACACCACTCTCTCCCAGATCTTGGTTACCCAATCCCAAGGCAGCTCAGCAACTGTGGCTCTTCCCAAGTTCGAAGAGCCCTCATGCAAAGGGACGTCTGTGTGTGGGACAGATGCGTATGAGGTCGGGCCCAGACTGGCTGGAGTAAGTGAAGAACAGAGCAGAGGTTTCCCGACTCCATTCTTGAGAGTGCCTGTGACATTACCTGAAAGAAAAGGCACTTCCCTGGCATCAGAAAGTGTCTTGAGCCTGGAGGGGAGTTCATCAACAGTGGGAGGAAGCAAACGTGTCCTTTCACCAGCTGGCAGCCTTGAACTTACCATGGAAACCCAGCAGCAAAAAAGGGTGAAGGAAGAGGAGGCATCTAAGGTGGATGAAAAATTTGAACTTGTAAAACCATGTAGCGTGGTGCTTAGCAGCACCGAGGATAGCAAGAGATCGGAGAAGTCCTACTTGGGCAGTCAGGGCCAGGGCAGGAGGGAACTAGAAACACTCTCCAGCCTGTCCTCAGATCCATCTGACCCAAAGGAAATTCCTCCCCTTCCTCAGCCCTCATTGCCCCATGTGACAACCTCAGGATCAGAGGCTTTGAAGGAATATGCCCAACCATCTGGTAAACCTCACCGAAGAGGATTACTCCCATCAAGTGTGAAGAAAGAAGATTCCAAGGAACAAGCTGACCTCCCTCCACTGGCACCTCCCAGCTCACAATCTCTGTCAGAAACATCCCCCAGACCAGCCAAGTTGCAAGAAGGTACGGACTCAAAGAAGGTACTGCAGTTCCCCAGCCTCCACACAACCACTAATGTCAGTTGGTGCTATTTAAACTACATTAAGCCAAATCACATCCAGCATGCAGATAGGAGGTCCTCTGTTTACGCTGGTTGGTGCATAAGTTTGTACAACCCCAACCTTCCAGGGGTTTCCACTAAAGCTGCTTTGTCCCTCCTGAGGTCTAAGCAGAAGGTGAGCAAAGAGACATACACCATGGCCACAGCTCCACATCCTGAGACAGGAAGGCTTGTGCCATCCAGCTCCCGCAAGCCCCGCATGACAGAG
Seq A exon
GTGAGTTCAGTCTTGTTTTTCTTCTACTCCCTGATTGTAAAAGCCTTTGCTGAGCTTTTAAAGCCACATTCTCCTCAAGGTCCATTTGCAAAACGAGAGCCAACTGAGTGGACAGATTTCCTCTCTATCAGCTGTGACTGGCCACCTTATTTATTGGATTTCTTTGTCAGTGTCCCTCAAATCATTGGACTAGATGCATTTCAATAAAGTGAACTTTAAAGTGACCCACTTTCCCATTAGCTTCTATTGAAATATCAAAGAAACAATCTTATCCAAAAGACTGAGTTCGTAAACCTTGCTGATGGGAATGCCTGCAACAGTTTGAGAATTTTATGCCACTCCAACATATATTTCTTCCTTACAGTGTTAGTCTTTTCCTGCTTTTCGTATTCTCTGCATCTACTATTTCTGTTCTCTGGTGCCACTTGAGATTTTCTCAGAGAGTCTAGAGTTTGACAAAAAAGACTCCTGAAATATTCCTTTTTTCTTTTATGTGAGTAGAAGAGCAAATAGACCTTAACTGTAG
Seq C2 exon
TATCCCTCTTTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020745:ENSBTAT00000027644:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.543 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]