HsaINT0076320 @ hg19
Intron Retention
Gene
ENSG00000095951 | HIVEP1
Description
human immunodeficiency virus type I enhancer binding protein 1 [Source:HGNC Symbol;Acc:4920]
Coordinates
chr6:12161672-12165232:+
Coord C1 exon
chr6:12161672-12162162
Coord A exon
chr6:12162163-12163515
Coord C2 exon
chr6:12163516-12165232
Length
1353 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TGCTCTCTCTTGTCATTTAGAGC
3' ss Score
8.73
Exon sequences
Seq C1 exon
ATGAAAAACAGAGATTCAGTTATGAGCGATCTGGATATGATCTTGAAGAATCTGATGGCCCAGATGAGGATGACAATGAAAATGAAGACGATGATGAGGACAGCCAGGCTGAATCAGTCCTGTCAGCCACACCCTCAGTCACAGCTAGCCCGCAGCACCTTCCATCTAGAAGTAGCCTTCAGGACCCTGTGAGTACTGACGAGGATGTCAGGATCACCGATTGCTTTTCTGGGGTACACACGGACCCAATGGACGTTCTGCCCAGGGCGCTGCTCACCAGAATGACTGTCCTGAGCACAGCACAGTCTGACTACAATAGGAAGACACTCTCTCCGGGGAAGGCCAGGCAGCGTGCTGCGAGAGATGAAAACGACACAATTCCGTCTGTAGACACTTCCAGGTCCCCGTGTCATCAGATGTCTGTGGACTACCCTGAGTCAGAAGAAATTCTGAGAAGTTCTATGGCAGGAAAAGCTGTTGCTATAACACAG
Seq A exon
GTAAATGATTGGCAGTTGTTCTTTTATTTCTTTTTTCGTTTTAACCTATTAAATATGGAGAACTTAATGGCTTAAGAAAATAATGCACTTAAGTGATTTTTTTAGGCCAAATCAGTTTGTATAGCTTTATTTTTTTCTTGTATTTAAGGGTAGAGGGTATTTTTGCCCTTTGGAGTCTTGTTGAGTATCTTAAGCAGTTCAGATATTTTATTGTAAATCTATGAAAGAACCAAATGGTTCTTGAAAAATACACCCATTTATTTTTATTTGCTTTTTGAAAAATTTTTGAAATTAAAAAAAAAAAAAAACGTGACAGTGGCGAACACAAGTCCCGCAACTGATTTATCTGCTGGCCCCTTCTGAGCAGTTTCTCCACTGGTGCTGATGTGATGATGGATTTTCACTGACTTACCCAAACATTTTGCACTTTGCCCCCATTGGCAAGACAGCTACCAGTTTCTATGGCAAAGTTAATGTGACCCGAAAACACATCAAGAAGTTCACTTTGCTTGAATTATCACATTGCTACAGCAGCTTGGGAGAGCTTTCTGCCCAAGAACTATCTCAAGGCAGGCACAGGCCTCTGAAAAGTCACGCTCCATGTGCTGTGAGTGAGTCCCTGCTCTACCTCTGGCTGTTTTGTGACAAATGATTAATTCTGGGAGGAATACATTCTTCCCTCATTGACAGTTCTCTTACCTCTAGTATGTATTGAATATTGCAATAGGATTTATGCCTAATTGTGGCAGATTGTGCTGTAAGCGTCTCTATCCCAAAACCTCTCAGACACTTACCAGTGCCTGGAAATCTGGTTTTCAGTAGACATTTCATAAACTTGCAAGTGATAGACAAACAACCAGAGAACTTTTTCATAGTAACATCTCTTCACAAATAATTCTTTAGTTCATTTTTCCCCATTGAGTTGACATAGCCAACTTGAATCTCAATTTCTCAGTAACTCTTAATCTCTAAAATAAGGTGGAGCTGGTAGTGCCAGAAACAGAAATAATAACAAAAATAGCAGCTTAAGAATATAGCTGTGTCCACTTCTCAGAGTTATTCTCTGTGTACAATATGACAAAATCCAGGAAATTTGCTTCAGACATGCAAAAGACTATACAAGATGTATTGCCATTATTTCTACCAGAAACGAAATTAAAGATGTAATAATTGTTTAATTGGAAGCTTATTTTTAAAAATCGAAAAATAATTTCATTGCAGCAAACATCATTTTTATCAATGCAAATATACTTACTTTTATCTCATTGTGAAGAAATAGATTTAGCACTAGCTTTATATCTCAGTGATTACAAAAGACCTGTCATAAAAGGATTGCTCTCTCTTGTCATTTAG
Seq C2 exon
AGCCCATCATCTGTAAGACTTCCTCCTGCTGCAGCTGAGCACAGCCCCCAGACAGCAGCGGGGATGCCTTCTGTGGCCTCACCACATCCTGACCCTCAAGAACAGAAGCAGCAAATAACTCTACAGCCGACTCCAGGCTTGCCTTCTCCCCACACTCATTTGTTTAGCCACCTTCCTTTGCATTCCCAGCAGCAATCGAGGACACCTTATAATATGGTTCCAGTTGGGGGGATCCATGTGGTACCTGCTGGCCTCACATACTCCACGTTTGTGCCCCTTCAGGCTGGACCAGTGCAGCTCACGATCCCTGCTGTCAGTGTCGTTCACAGAACTTTGGGTACTCATAGGAATACGGTCACAGAAGTGTCTGGCACTACAAACCCTGCTGGAGTGGCTGAATTAAGCAGTGTTGTGCCATGTATTCCTATCGGCCAAATCCGCGTGCCAGGCCTTCAGAACCTAAGTACCCCAGGCTTGCAGTCACTCCCCTCGTTAAGCATGGAAACCGTCAATATTGTAGGCCTAGCCAATACAAATATGGCCCCACAAGTCCATCCACCAGGACTGGCTCTGAATGCTGTCGGACTGCAGGTTCTGACTGCAAACCCTTCATCACAAAGCAGCCCCGCCCCTCAGGCACACATTCCAGGTCTCCAGATCTTGAACATAGCATTGCCCACCTTAATCCCCTCAGTCAGTCAAGTAGCCGTTGATGCACAGGGAGCTCCAGAAATGCCAGCTTCCCAAAGCAAAGCATGCGAGACACAACCCAAGCAGACTTCTGTAGCCAGCGCAAACCAGGTCAGCAGGACCGAGTCTCCTCAGGGGTTACCTACAGTCCAGCGGGAAAATGCAAAAAAAGTTCTGAATCCACCTGCCCCTGCAGGTGACCATGCAAGGCTTGATGGCCTGAGTAAAATGGACACAGAGAAGGCTGCCTCGGCAAATCACGTGAAGCCCAAGCCTGAACTCACTTCCATACAGGGCCAACCAGCGTCCACGTCACAACCTCTGCTGAAGGCACATTCTGAAGTTTTTACAAAGCCCTCAGGCCAGCAGACTCTCTCTCCAGACAGACAGGTTCCCAGGCCCACAGCACTACCGCGGAGGCAGCCCACTGTGCACTTCAGCGACGTGAGCAGCGATGATGACGAGGACAGGCTTGTGATAGCAACCTGATGGATTTTATTTTTTATTTGCTTTTTTTTTATATAACACTTAAAGGTTTCTTTGAAAACCCTCCTTTCCTTAAAGCACATTTTTCTGACATAAACTCATGACTAATCTTTGTGCAATCATGAACTTTTGACCAATAATTGTTGTTTTGTGTCAGCTCCAGCCATTTTTGTACATGTTGTATAGACAATTGTGCCTTTTAGGAGCTTTATGTTTAGAAACTGTACAGATTGTTGAATATCTATATACATAAAAATATATTATATATGTATATGAAAACCAGGTAGTTATTTGTGTTTAGTAAGGAAAACCTGTCAAATAAATCAAATGATTAAATTATATGTTCCACTGTTGAATATAAATTTTATGGCTATGGGGCAGAGTTTCTGTGTATAAATTAGTATGTAAACTCCATATTTATTGTATTCATATTAGTCTTTGAAAATGGGTCTGTCCTCCTTGTGTAAGACAGTAACTTTACACTTCAGACAGATTTTCTGTGTTATGAAATGTTTCAGTAAAATATTGTTTACTGACTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095951-HIVEP1:NM_002114:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.986 A=NA C2=0.707
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTACACACGGACCCAATGGAC
R:
TGAGGGTCAGGATGTGGTGAG
Band lengths:
356-1709
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)