GgaINT0089881 @ galGal3
Intron Retention
Gene
ENSGALG00000013795 | HIVEP2
Description
NA
Coordinates
chr3:54682802-54684379:+
Coord C1 exon
chr3:54682802-54682903
Coord A exon
chr3:54682904-54683441
Coord C2 exon
chr3:54683442-54684379
Length
538 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ATTTGCTATGTCTGTTTCAGAAA
3' ss Score
10.53
Exon sequences
Seq C1 exon
GAAATCTGACAAAACATATGAAGTCTAAAGCACACATGAAAAAATGCCTGGAGCTTGGAGTATCAATGACATCTGTAGACGATGCTGAAACTGAAGAAGCAG
Seq A exon
GTATGTCAGAATGATTTAATTTAGTTGGAATGGCCTCTGGAGTATGCAAATGACTCACTGCACTTTAGCATAGTGCCTGGCATGGGAAAATGTATTAGGAGTATTTTGGGCATTTTTTAATTAAGAAGCATCTAGCAAACAGGAAGTATAAAAAATGAATCTGATCTGTTTGTCTAAGATATGTTTTTTTATGATACATCAAAAGGAGCTAGAAATAGAAATGTGTCATCTGTCTCATACAAAGTACCAAATATTTTCAATTTAGTTATGAGAGATGGTAACATTCAGTGAAGTTACAAGGTAGGGTAGGGTGAATTTTCTTTGTATACTTTCATTTTCACAGGATTGAATTTGGTTATAGAGTTTTAAGGTTTATATATATGAAAAAATATATTTCGAGACTGTTGAGAATGGCTTTATTTAGCCATCACAGATGAAGATCATCCAGCGATGGCACTAGGTGTTCTGGGTAGGGAGTGAGTGTGACAGAAGAAGTGTGGCATGTGCTTACCATTTTGATTTGCTATGTCTGTTTCAG
Seq C2 exon
AAAACATGGAGGACATGCAGCAGGAGGCAGAGAAGAGTAGCAACCTGGCAGGCCTGTCAGCAGAGCATCAGTTTTCTGATGCAGAGGAGTCAGATGGTGAGGATGGTGATGACAATGATGAAGATGATGAAGATGAGGATGACTTTGATGATACTCAGGGAGACTCAACACCAAAAACCAGATCAAGAAGCACTAGCCCTCAGCCTCCTCAGTTCTCCTCCCTGTCGGTGAACTCAGCTGGGGCATCGCAGGGGGCTTCCCCCGAGGGCTCCCTTTCTGTGGGACACTCCTCCCTCATCAGTTACTTGGTCACTTTACCTAGCATTCAGGTTACTCAGCTTGTAACATCAAGCGACTCCTGTGAAGACTCACAGATGACAGAATATCAGAGGTTTTTCCAGAGTAAGAGCACCGATTCAGAGCCCGACAAAGACAGGTTAGACATACCTAGCTGCATGGATGAGGACTGCGTGCTTTCCTTAGACCCCAATTCGTCTCCAAGGGACCTCTCACCTTCCAGTCAGCAGTCGTCCCCTGGCTATGATTCTTCACCATATAGAGATAACTCACCAAAGAGGTATTTAATGCCAAAAGGAGATTTGTCACCCAGAAGGCATTTGTCACCCCGGAGAGATATTTCACCCATGAGGCACCTTTCTCCACGGAAGGAGGCTGTGCTGAGGAGAGAATTATCACCAAGACGGGACGTTTCACCAAGACGTCACCTATCACCAAGGAGACCAATGTCACCAGGGAAAGATGCGTCTGTTAGAAGAGATTTGTCTCCTAGGCGAGAGAGGAGATACATGGCCTCGGTTAGAGCAACATCTCCCAGGAGGGGCTTATACCATAATCCAGCGTTGTCTATGGGTCAATATTTGCAGTCTGAATCTATTCCAGTGGGGCATTCAGTAAGTATGAAAGAGTATTTATTCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013795:ENSGALT00000022399:5
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=0.895
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTGGAGCTTGGAGTATCA
R:
GAGGAGTGTCCCACAGAAAGG
Band lengths:
350-888
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]