GgaINT0089878 @ galGal4
Intron Retention
Gene
ENSGALG00000013795 | HIVEP2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:HGNC Symbol;Acc:HGNC:4921]
Coordinates
chr3:52033738-52037997:+
Coord C1 exon
chr3:52033738-52037095
Coord A exon
chr3:52037096-52037842
Coord C2 exon
chr3:52037843-52037997
Length
747 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TCCTTGCCTTTGTTCTGCAGATG
3' ss Score
10.97
Exon sequences
Seq C1 exon
ACAAATAGCAGGTGACAAAGGACCATCCTCAAAAGAGAAGAAAATGGGAGACAAGACCTTCTATGACTATGATGCCAGTGGAAAGCACTACAGAAAATGGGAAGAATTTGAAGCTCAGAAGCAGAGCTACAGAGACTCTCCCTCCTTAGGTGGAATAAACAAGGGGGGAGAGTACTTCATTGATCCACTTGGACAATCTCAGGCAATGCCATCCATGCTTGGAACTTTTGAAAACAGGAAGCGCAGGAAAGAGGAGAGTGTTGGAGACGAAGAGGACAGTCCCATGCTTTGCAGCAGTACGACTAGCAGCACTGCAGGAATTCAGTCTTTGGACTTTGATCCCAAATCCCAAATTCAGGATGTGCCAAGGAGTGGATTTTCCCTTCAAGGTCTGGACAATTCTGCCCACTGCCATGCAGAACGTTTTGACATGTGTAGGCCTTACTTGCAGTCTGGAAGTCCAGCAGCTTCTCTGGAAGACTCAACCTTAACTGCAGAGCAAGAAAAGACTGCAGAATCATTGACTAGAAAGCCCCCTGGAAATGTCATTTCTGTCATTCAGCACACAAATTCATTGAGCAGGCCGAACTCATTTGAAAGGTCTGAATCTACAGAACATATTGCATGCCAGCAGGATAAGATCTATTCACCATCTGAAATGTGTGAGAATGAGATTTGTGAGTCCCCAATGAGCCCAGACCGAGCTCCACAAACAGAAAATACTGACACCAGTAAGCCATCTCCGTCCCAGCAGCCTCAGTCATATCATATGCAGCCCAGGTTGGTTCGCCAGCACAACATACAGGTACCTGAAATTCGTGTCACAGAGGAGCCAGATAAGCCTGAGAAAGATAAAGAAGTGCAGAACAAAGAGCAGGAGAAACCAACTGAAGAATTTCAGTGGCCTCAGAGAAGTGAAACCCTTTCTCAACTGCCAGCTGAAAAGCTCCCACCCAAAAAGAAGCGTTTACGACTGGCTGACATGGAGCACTCTTCTGGAGATTCCAGTTTTGAGTCCACTGGTACAAGCCTTTCTCGCAGCCCTAGCCAGGAAAGTAATTTGTCCCACAGTTCAAGTTTTTCAATGTCCTTTGAAAGAGAAGAAAATGTGAAGTTCATCACACCTCCCAAACAAGATGAATTTGGAAAACAGTCTGAGTTTTTAACAGTTCCAGCTGGTGCTTACTCGCTTTCCGTCCCTGGGCATCACCATCAGAGGGAAATGAGACGTTGCTCATCTGAGCAGATGCCCTGTCCTCATGCTGCTGAAATCCCTGAAATTCGAAGTAAATCCTTTGACTATGGGAACCTGTCTCATGCCTCTTCGGCTGGGACACCAACTACTGCCCTATCTCCATCACGAGAAAGGAAGAAATGCTTCTTGGTTCGACAGGCTTCTTTTAGTGGTTTCCCAGAGATTTCCCAGACTGATCAGAGCACAGAACAAAGTATAAAGCAGGAGCAGATGGAACACGCACAGGCTGGTCTTCGTTCTTCCCAGCTTGCCTGGCATCACTCACCTTCCTCTGTACTTCAGCCCATTCAGGTAGATGACTCTGGAAAACAGACTGTTGGCTCTTGTGCTCAGCTTGCTAATAGCTCATCCCACCTTGCCCAACAACAGGCTCTTCTTGCAGATAGTCCGGAAATGTTAAGGACTCCTATGATCCAACAAGCACCTTATATTTCTAACAAACATCCATCAGAGCAACAACAGCTATTTGCACATCAGGAAAATGTCCCATTTCCCTCTATTCACAGCACCTTGTTTCAGTTCCCATATCCAACTGTCTGCATGGTTCATTTACCACCATCTCAGCAGCCAGTGTTGTGGCAGTCATGCACAGAACCTCTACACTTCCAGCATCATTTTGTACAACAACTGCAGAAATCTTACGTCAAGCAACCTTTCCAAACAGACATTCCTCCAAGTTATCACCTGGAACACGTTCCAGAGCTTATTGGAAAGAAACCAGCTGATTATATGCATGCTAAAGAGCAAGCATACCAGCATTACTCAGGAACATCTGGGCAGTATTCAAAAATTACTCTTGCTAAGTACCAGTCAGACCATAGCATTAAACCAACAGATACCTCTTCTGAACAGCATCTTCAGACAGATTTTGACTCCCCAGGTGATGGATCTGTACAACCTTTGCCAGGAACAGTTGTTCCTGTCAGGATTCAAACCCATGTGCCGTCTTATGGTAGTGTCATGTACACAAGCATTTCCCAGATCCTTGGACAGAGCAACAGTCCTGCAATTGTAATTTGTAAAGTTGATGAGACCGTTTCTCAAAGAACATTGGTAACTAGTGCTACAATGCATGGAATTGGATTTAACATAGCTCAGATGTTAGGTCAACATGGAGGGCTAGAAAAATATCCTTTGTGGAAAGTGCCACAAACACTATCACTTGGACTGGAGTCCTCAATTCCTCTCTGTTTAACTTCCAGTTCTGACATGGCTTCTACCTTGGGTGGAAGCAAACGAATGCTTTCACCTGCCAGCAGCTTGGAGCTCTTCATGGAGACCAAGCAGCAGAAACGAGTCAAAGAAGAAAAGATGTATGGGCAGATAGTTGAAGAGCTAAGTGCAGTTGAGTTAACTAACTCAGATATAAAGAAAGATTTTCCAAGAATGCAGAAGCCTCAGCTAGTAAGGCAGAGCTGTGCTACTGAGCCAAAAGAAAGTCTGCCATCCGTGTCATCCTCTTCACCACTGTCGTCCTCTTCATCTCAAGATTTCCCACCTGTCAGCGTGCCAACAGCTGATGCTTTCCCACTAAGCAGGGAGAAACTTTCTAGTTTTGATTCCACATCACCAGGACAGAAATCCAGCGGCCCTTCTGAAGGAAGAGAATCTCCAGAAGAACTGGATGTTGATGAAACAGCCTCAGATATGAGCATGAGTCCACAGAGGTCTTCATTGCCACCAGGAGAAATTCAGCCAGAAGACCAACTGAAACATCCAAAATTGCCTCTTGGAATGCTAGTCCAGATGACATCGAGTACCAGTGGGAAAGTCACGGGCTCAACTATTCTCCTGACAGATGTAGCAGATTTTCAGCAGATCCTTCAGTTCCCAAGTCTGCGCACTACTACTACTGTGAGCTGGTGTTTCTTAAACTATACGAAGCCCAATTACATTCAGCAACCAACTCTCAAATCTTCTGTTTATGCTTCATGGTGTATAAGTTCATGTAACCCAAATCCATCTGGGCTAAGTACAAAGACCACATTAGCACTTTTAAGGTCCAAGCAAAAAAACACCACGGAAATCTACACCCTGGCTGCTATGCACAGACCTGGAGCTGGTAAACTGACTTCATCAAGTGCATGGAAGCAACTTGCTCAG
Seq A exon
GTAAATAGGAGGTTTTAATAAAATTAAATTAATATGTCTTTATTTGAGAAAATCCTAGTAAACTATGAAATGTGGTTTAATTACTTAAAAAAAAAAAATCCCATTGGGAAATCAAACTTTGATATCTTCCCATGATGACTTTTGAGCCTCAGTTTACCCCTTTGCAAACTCTGCTACTTCTGCTGCCTCTGTCTCCATTTTGAGAATTAGTAGTGAAAGGTGAGGCTTTCAAACCTGTTCTTCACATGTTTCAGAACCAGAAAAGTTATCTCCTTTTATTTTGGCCTTTTTGCAGTGTCCAGATTCAAACAGGGGATGCAAGCATCCGTGCAGTCCATAAGTAAAGATTAACTTAAAATTAAGCAAGGCTCTTCAGATCATTTTAATGTTTTTTACATACTGATTCTTCCTCATGGACTAAGCATTAGATGACAGTGCCAGGGAAAATTCTGTAATGGCAATAAATTACTTTCTAAGGCTTTTCCATTTCTATTTTCCATGATTTTTTTTTCCTCCTGAGGAAAGATATGGTGCTGTATTTTCTTTCCAGACTCACATAAAAATGTATCCAGGTTACCCCCCCCCCCTCTTATTCTCCATCAAATTGAATGGGGCAAACTAATTTGTTGTCTAGAGTTGCACCAATGAAAGTTTGTCTTTGACCTGGAATGTTAAAAGTACTTGAAATAAAGTGTGCATTTATTGTGTGTTCCAGCAGTAACACCATTCCTTGCCTTTGTTCTGCAG
Seq C2 exon
ATGAAACATGAGCCATTCTTCTTGTTTGGCAGCAAGCTTGAAAAGAAAGTAGTGGGGAATATTATAAAAGAAAGAGTAAAAGGAGACATTCATGGAGATAAAGACATTACATCCAAACAAACCGAGCCGATACGAATTAAAATCTTTGAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013795:ENSGALT00000022399:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.588 A=NA C2=0.096
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCCAATTACATTCAGCAACCA
R:
ATCGGCTCGGTTTGTTTGGAT
Band lengths:
352-1099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]