HsaINT0076338 @ hg19
Intron Retention
Gene
ENSG00000127124 | HIVEP3
Description
human immunodeficiency virus type I enhancer binding protein 3 [Source:HGNC Symbol;Acc:13561]
Coordinates
chr1:41975684-41979421:-
Coord C1 exon
chr1:41978487-41979421
Coord A exon
chr1:41976938-41978486
Coord C2 exon
chr1:41975684-41976937
Length
1549 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GTCTTGTTTTCTGACCCCAGCAG
3' ss Score
5.62
Exon sequences
Seq C1 exon
GAACCAGTGACGACCTGTTCCAGGACTCGGAAGGACGAGAGGGTTCAGAGGCTGTGGAGGAGCACCAGTTTTCGGACCTGGAGGACTCGGACTCAGACTCAGACCTGGACGAAGACGAGGATGAGGATGAGGAGGAGAGCCAGGATGAGCTGTCCAGACCATCCTCAGAGGCGCCCCCGCCTGGCCCACCACATGCACTGCGGGCAGACTCCTCACCCATCCTGGGCCCTCAGCCCCCAGATGCCCCCGCCTCTGGCACGGAGGCTACACGAGGCAGCTCGGTCTCGGAAGCTGAGCGCCTGACAGCCAGCAGCTGCTCCATGTCCAGCCAGAGCATGCCGGGCCTCCCCTGGCTGGGACCGGCCCCTCTGGGCTCTGTGGAGAAAGACACAGGCTCAGCCTTGAGCTACAAGCCTGTGTCCCCAAGAAGACCGTGGTCCCCAAGCAAAGAAGCAGGCAGCCGTCCACCACTAGCCCGCAAACACTCGCTAACCAAAAACGACTCATCTCCCCAGCGATGCTCCCCGGCCCGAGAACCACAGGCCTCAGCCCCAAGCCCACCTGGCCTGCACGTGGACCCAGGAAGGGGCATGGGCGCTCTCCCTTGTGGGTCTCCAAGACTTCAGCTGTCTCCTCTCACCCTCTGCCCCCTGGGAAGAGAACTGGCCCCTCGAGCACATGTGCTCTCCAAACTCGAGGGTACCACCGACCCAGGCCTCCCCAGATACTCGCCCACCAGGAGATGGTCTCCAGGTCAGGCCGAGTCACCACCACGGTCAGCGCCGCCAGGGAAGTGGGCCTTGGCTGGGCCGGGCAGCCCCTCAGCGGGGGAGCATGGCCCAGGCTTGGGGCTGGACCCACGGGTTCTCTTCCCGCCCGCGCCTCTACCTCACAAGCTCCTCAGCAGAAGCCCAGAGACCTGCGCCTCCCCGTGG
Seq A exon
GTGAGTTCCTGCCCCTGGTGGCTGGGCCGCTTCTCCCCTGTGGGTGCAGGGGTTGCAAGTTCACACCCTCCTGGGTATCACACCTGGAACTAAACAGCTCTGCCAGCTCAGTAGTTATTAATAATTTCGCAAACATTTATTAGGCACCTACTGTGCCATGCACCATGCTGGCTGCCCTAAATCAGCTGGCTTATTAAACTTTATTTTAGCCTCAGAAGCACAGAGCATGGACTCTGGAGTTCATGGGAAATGGGTTCTACCACGTATTAGTCCGTTCTTGTATTGCTATAAACAAATTCCTGAGACTGGGTAATTTATAATGAAAAGAGGTTGAATAGGCTCACAGTTCTTCAGGCTGTACAGGAAGCGTGGTGCCAGCATCTGCTCGGCTTCTGGGGAGGCCTCAAGCAGCTTTTACTCATGGCAGAAGGCAAAGCGGGAACAGGCATCTCACATGGCAGAGTGGAAGCAAGAGAGAGAGTTGGGGGAAAGGTGCCACACGCTCAAAATGCCAGATCTCATGAGAAATCACTATCTGGAGGACAGTATCAGGCCCTGAGGGATCCGTCCCCATGACCCAAACACCTCCCACCAGGCCCACCTCTAACACTGGGGTTTACAATTCAACACGAGATTTGGGCGGGGACAAATATCCAAACGATATCATATCACTTGCAAGGGGTGTGGCCTTGGATGAGGTTGTAAATACTCGTGCAATTCCCCATCCCCCACCCCATCCCCATCTGCCTGTGTTCTTTGAGCAGATGGCACAACTTAACCAAAACCATCACCATCTCCAATATCACTGTCACCAGTGCTCTCAGAGACACCACAACCAATATCATCCTTGTCAACCATCAGCACTATCCCCATGGCCAGCACCACCACTGTCACCATTGCACCAACACACCACTGCTGCCACCCCATGAGCACAGTCACCATCCCTGTCCCCTCAGCTGCCATGACCCCTCCACCGATAGCACCATCATTGTCAGCTGACCCCCTTCCGACACCTTCTCTGTCCCCGTGTTGCCATGACCCAGCCCTGTCACTCCTGGAGGAACACTGATCTAGGAATCTTTCCTTGATTTTTAATTTTGGGTTCACATTCAAATTCCTGGAGGTAGCAGAAGGGCAAAGAGCCTCAGGTGGGAACTCATGTCCAAGAGTGAAGCTGGGTGAAGACCATTTTAGGAACAGGACAGGCAGCAGACCCACATAGAGGCCAGGCTCATGGGTGACAACAGGGCCCCACGTCGCTCAAGTATCCCCTCCTTTGAAGACAGATATGCTGGCTAGAGGCATGGAGACCATGGGGCCTGAGCATACTCATGGTCACTGTCGAGCTGGAGATGGCCCATTCCAGAGATGGCAGCTGGCTCAGCATCTGTGGGCAGGGAGTCAGGAACTTGGTTCTGGGCTCAGCTCAGCCGGGACCCTGGACTCGCTCTGTGATCTTGGGCGAGTCCCCCTCCCACTTCCAGGCCTCGGCTCCCCATGTGCCCAGCATGTAACCTTCACCTTACCTTGTCTTGTTTTCTGACCCCAG
Seq C2 exon
CAGAAGGCCGAGTCCCGAAGTCCCTCCTGCTCACCCGGCCCTGCTCATCCTCTCTCCTCCCGACCCTTCTCCGCCCTCCATGACTTCCACGGCCACATCCTGGCCCGGACAGAGGAGAACATCTTCAGCCACCTGCCTCTGCACTCCCAGCACTTGACCCGTGCCCCATGTCCCTTGATTCCCATCGGTGGGATCCAGATGGTGCAGGCCCGGCCAGGAGCCCACCCCACCCTGCTGCCAGGGCCCACCGCAGCCTGGGTCAGTGGCTTCTCCGGGGGTGGCAGCGACCTGACAGGGGCCCGGGAGGCCCAGGAGCGAGGCCGCTGGAGTCCCACTGAGAGCTCGTCAGCCTCCGTGTCGCCTGTGGCTAAGGTCTCCAAATTCACACTCTCCTCAGAGCTGGAGGGCGGGGACTACCCCAAGGAGAGGGAGAGGACCGGCGGAGGCCCGGGCAGGCCTCCTGACTGGACACCCCATGGGACCGGGGCACCTGCAGAGCCCACACCCACGCACAGCCCCTGCACCCCACCCGACACCTTGCCCCGGCCGCCCCAGGGACGCCGGGCAGCGCAGTCCTGGAGCCCCCGCTTGGAGTCCCCGCGTGCACCGACCAACCCCGAGCCTTCTGCCACCCCGCCGCTGGACCGCAGCAGCTCTGTGGGCTGCCTGGCAGAGGCCTCTGCCCGCTTCCCAGCCCGGACGAGGAACCTCTCCGGGGAACCCAGGACCAGGCAGGACTCCCCCAAGCCCTCAGGAAGTGGGGAGCCCAGGGCACATCCACATCAGCCTGAGGACAGGGTTCCCCCCAACGCTTAGCCTCTCTCCAACTGCTTCAGCATCTGGCTTCCAGTGTCCAGCAACAGACGTTTCCAGCCACTTTCCTCGAATCATCCCACTTCCTCAGCCCCATCTGTCCCTCCGTCCAGGAGCTCTCACGGCCCCATCTGTTGTACCTTCCCATGTATGCAGTTACCTGTGCCTTTTTCTACACCTTTTGTTGCTTAAAAAGAAACAAAACAAATCACATACATACATTTAAAAAAAAAACAACAACCCACGAGGAGTCTGAGGCTGTGAATAGTTTATGGTTTTGGGGAAAGGCTGATGGTGAAGCCTCCTGACCCTCCCCGCTGTGGTTGGCAGCCACCCACCCCAGAGGCTGGCAGAGGGAAAGGGGTACACTGAGGGAGAAAGGAAAAGGAAACTTCAAACAATATAGAATTAAATGTAAAAGGAAGCACTCCTGTGTACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127124-HIVEP3:NM_024503:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.952 A=NA C2=0.897
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATACTCGCCCACCAGGAGAT
R:
GCAGGTGGCTGAAGATGTTCT
Band lengths:
348-1897
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)