HsaINT0076328 @ hg19
Intron Retention
Gene
ENSG00000010818 | HIVEP2
Description
human immunodeficiency virus type I enhancer binding protein 2 [Source:HGNC Symbol;Acc:4921]
Coordinates
chr6:143080909-143082702:-
Coord C1 exon
chr6:143082601-143082702
Coord A exon
chr6:143081805-143082600
Coord C2 exon
chr6:143080909-143081804
Length
796 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TCTTTGTTTAATTGTTTCAGAAA
3' ss Score
8.03
Exon sequences
Seq C1 exon
GAAACCTAACGAAGCATATGAAATCTAAAGCACACATGAAAAAATGCCTGGAATTGGGAGTCTCAATGACATCGGTGGATGATACAGAAACTGAGGAAGCAG
Seq A exon
GTGTGTATGTCATAAATGAGTTGACAGACCTCTTCATTATGCACAGTGGAGCTCTGTGGCTGAGGTAGTAAAATAAGTTTAGATATTTTTAAAAAGTGATCACTTTTCATTTTATTAAATACTAAATATAGAAAATAAAACTGACACATTGAATTGCTTGAAATCTACTGAGAAGAAATGCATTTCAGTTTTGACTCCGAGGGCAAAAAAGGCCTTACTTTGAAAATACTTATATTTAGAGCCTTCTATGAAGGGAATAGAATTGCACTTGCTTTGTGATAGCAAATTAGATTTTATGAGGCTTTTTGGGGAATTTGAAAAGCATTTTAATGTATTATTATTCAAGTTAAGAAGAAACCCAGTAGGAAAACAAATAAACTAGCAAACAAACATCATTAAGGTTGGCCAGACCTCCTGAGTTACATCACTTAGACATACGTTTGTACCTGAGCTTGCAGAGACAGGTTGTTGCCTTTCTTTCTCCTCTAGCATCATAATTAACATTATCCATGCTCATTTGTTGAGGGTTTTCTGTGAGTGGGATGATGTCTGAGATATAAAGTCCTACTATGGAATCTTTCTTGTAAGTTGGGGATGAAAACAAATAGATATACAAGAAGATAGAATGAACGCAGGGTCACACAGGTAAGTGCCTCATTTTATAGGAGTTCTCAGACATAACTATCTGTGGGCACTAGGGATTGGGAAAAGCGTTTAGAAAGAAATGAGGCTTAAATAAGATCCTAACCTTGATATTTGGATCTTGATCTCCATTATCTTTGTTTAATTGTTTCAG
Seq C2 exon
AAAATTTGGAAGATTTGCACAAAGCAGCAGAGAAGCATAGCATGTCCAGCATTTCAACTGATCATCAGTTCTCCGATGCTGAGGAATCAGATGGTGAGGATGGAGATGATAATGATGATGATGATGAAGATGAAGATGACTTTGACGACCAGGGAGATTTAACACCAAAAACAAGATCAAGAAGCACCAGTCCTCAGCCTCCTAGATTCTCCTCCTTGCCTGTGAATGTTGGCGCCGTACCCCACGGGGTTCCTTCAGATAGTTCCCTGGGACATTCTTCGTTGATCAGCTATTTGGTTACTTTGCCAAGTATTCGAGTTACTCAGCTTATGACACCCAGTGATTCATGTGAAGATACCCAGATGACAGAATACCAGAGGCTATTCCAGAGCAAAAGTACGGACTCAGAACCAGACAAAGACAGATTGGACATACCTAGTTGTATGGATGAGGAGTGCATGCTACCTTCAGAGCCAAGCTCCTCTCCCAGGGACTTCTCACCCTCAAGCCACCATTCCTCTCCAGGATATGATTCTTCACCCTGTCGAGATAATTCACCAAAGAGGTATCTGATACCCAAAGGAGATTTATCTCCCAGGAGACATTTATCACCTAGGAGAGATCTGTCACCCATGAGACATCTTTCACCAAGAAAGGAAGCTGCATTGAGAAGAGAGATGTCCCAAAGAGATGTTTCACCAAGAAGGCATTTGTCTCCAAGGAGGCCAGTGTCTCCTGGGAAAGATATCACAGCAAGAAGAGACCTCTCTCCTAGAAGAGAGAGAAGATACATGACCACAATAAGAGCGCCATCTCCCAGAAGGGCTTTATACCATAACCCACCATTGTCCATGGGACAGTATTTGCAAGCAGAGCCAATTGTATTGGGGCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000010818-HIVEP2:NM_006734:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.943
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:
TGCCTGGAATTGGGAGTCTCA
R:
CAACGAAGAATGTCCCAGGGA
Band lengths:
342-1138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)