HsaINT0013799 @ hg19
Intron Retention
Gene
ENSG00000115966 | ATF2
Description
activating transcription factor 2 [Source:HGNC Symbol;Acc:784]
Coordinates
chr2:175979418-175982846:-
Coord C1 exon
chr2:175982718-175982846
Coord A exon
chr2:175979597-175982717
Coord C2 exon
chr2:175979418-175979596
Length
3121 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
TTTATCTCATTGTTAAATAGGAA
3' ss Score
8.45
Exon sequences
Seq C1 exon
ATGCCTCTAGATTTATCCCCTCTTGCAACACCTATCATAAGAAGCAAAATTGAGGAGCCTTCTGTTGTAGAAACAACTCACCAGGATAGTCCTTTACCTCACCCAGAGTCTACTACCAGTGATGAGAAG
Seq A exon
GTTAGAAATTTTTAGAAATACAAAGTAAGGGGGAGGAACAGTACCCAAATAAAGTTTACTATTTAATCTCCATAAAATGTTAATGTATTAAATTCAGTGTCAGCTTGCAATAGTTTTATATGTGAAAGCCTGTCAATACTCAGATATTTCAGGGTAAGAAGACTGCAGCTTTTATTGTACATAGAAAAATTATAGGGGAGAACAGTCATGTTACATAAAACTTATTTTTAAAAGATATATAAATTTATAAATTTAACTTAATTTTTCTGTGTTTTGCTATTTTATATTTAGCTACTTTTATACAGTAACAGCTTAATTAAGAATCTATTCAAAAAATTATTTGAACAGTGGTTTTTTAGACTTTTACAGGATTAAGGGACTAGTTACTCATTCTCAGCAGTGGATCTTTGTTAGCGGCAATTAGGACGATGATGATACTAGCTTGAATACCCAGATAATCTGGGACCACCTGGGCTACAGTTGTGTGTTGAGTAACATTATTATGGGAACTTCTTGATCACTCTTTTGTTCACAAGCACATAGAATAAGCACATATTTATTTGGGAGTACCATGCAGGACACAGCGAAGGGCAATGGGACACATAAAGAGGCAGTGGCAATATTCTTTTTTAGATTGTTATTCTAAAACCATACTTATTAATGGACTTCTGTCATGGCAGAGGAGCTAGAAATAAGGAAATACAGAAAAAATAACTTTTTGGCTAAGAATAAATGCTTTGTTTTCTGTTTTTTTTTCTTCATTTTCTTTTTCTCATTTTAAAAGTACATTCTCATTCTTCTTCTCTAAGAATACAGAAACATGAAAAGAAAACCAAAATCACCTATTAGCACATAATTGAATAAGAATTACTATCTTGAAACATTTTTTTCTAGATATATACATTTATAGGTACAAATACATAAGTGAATAGTTAAATAGAAGGATAGATGGATATAAAGATCCTAGCTTTATTTTATATTGTGCTTTAGACCCTCAGTATTGATGAATATTTTCCCATGTCATTAGAGAGTTCCCCAAATCATACTTTTTAATGATTGTACTTTATTTTATTATATGATATGTATATGTATTATGTTATCCTGTTCTTTTTGGACATAAAGGTTGTTTCCACATTATTACAGTTATTGGAAATGCTTTTTAAATCTCTGATACAAATCTTTTTTCCTAGAGAGCATTTCATTCTTTTCACACTTAACAGTTTTTCATTGTTCGTGGCTGCTTCAGCATCTTTTAGGAGTATTCCTTCTTTCTGCATTCCCCAATCATTAGGCCCTCCTTGAGCAAGGTATACCATATGAAATTGATTTAAAAAAAAAAAAATCTGGACCTCTTCTTCTTTCTTGATTTTCTTCCTAGGTGATCTCATCCAGGCCCATAACTTTAATAAACATCTACATACTGATGACTCCCAAATTTCTATGGGCATAGGTATCTCACCAGATTGCCAGATTTATATCCAACTCCATCTTGACATTACCTTTTCTATGTCTAATAGACATCTTAAACTTAATAGGTCAAAATCAGAGTCCTTGATTCTTCCCCCAGTTTTCCCCATCTCAGTAAATTTTCTCCATCCATTTAGTTGTTCTAGCTGAGAATTTAGGGGTCATCCTTAATTTCTTCTTTCTTTTACACTGAAACTAACAGCATATTTTATCAGACCTGAATCTCATCCTCTATGTCTGTGTTCAGTGACACCACGTAAGCCCAAACCATCATCATCTTTTGTTTGGATTATTAACAGTTACCTTCTAACTTGTCTTCCTGCTTCTACCTCCAATCCATTTTCTGTAAGATGACTTTTAATACATTAAATATGTCACCTGCTTAAAATCTTTCAATGGTCTACCATTGTATTTAAAATAATTCACACTCCTTGGCATAAGCCCTCTTTGATCTGGGCCTGTCTACGCATCTATCCTTACCTCATGCCTCTCTATTGTGTTCATCAAATATTCAAAGCTTTTTCCTACCTCAGGACATGACATATATGGTATTGCTTCCTTCTCCCTACAATGAAATGCTCTCCTCCTCATCCTTTTATCATCAGTTCGAATGCTGTTTTTGCAAAGAAGCTCACCTATTCTTACTATGCTGTCTAAATTAACTGACTCTTCCTTACCTTCAGCTAATCTTTCATCCTTTGTTACATTGCACGTATTATTCTGTAACACTTAACATTTACTACAATCTGAAATTTTCTTACTTGTTTTACTTGTTTATTGTCTCTTCCTTGAGAGCTAGTCCTTGGGAGCATAAGTTCTCAACTTACTGAATAAATGAAGTTACAATACTACTACTTTATCCTTCTTCCTATGTAGCTTAATAAGATTTTGATGATAAGTGGCAGCATACAGGCCAATTCATAAAACACCATAGACCCAATTTTTACACTGACTATTTAAGGAGTTCTGGGTAAAATCTTTTAAAACTTTTTGTTCTATAATTTGTAAAACCAGAGGAAATACCATCTTTAAGGTCTTGGCTGACAAATTCTGTTTTCCTGACTTGAAAGAGTTCACTCCGGTAATTATTTATTTTACATTCAAGATATCAGTATTACGTGGCCTTTTGATATGAAGAAATTATTGATATAGAAGAGGTAGCTAACTGGAATTAACAATTATTTGTATTGCTCTAAAAGTTCTTATTTCTGTTACTTAATTGTATCAGCCATAACACAGTCTCACTGGACCTGTTTCCTCTTCATACAGTATAATGAGGGAGGGGGACTAAACAGTCCCTTCTGGATTTTAAGTTCTGTGATTCTCTGAGAATGGATTATATTTTTATTTTTTATTAAAATTCTCTTGGTATCATAGCCAAGTTGCCCAGTCTAACTTATTTCTGGATTGATAGGAGAACAAGTTGTACTGGAAAAAAAAAAAACGAGTCTTTTTAAAATTAAAATATTAATTGAACATTGCATTTGAATCTTTACAGCTCTTCTAAAATGTTCTTTTAATTAATTTGAGATATTAATTTGCTTTTAGCAGTTATTATTCTGTAGATGCTTTTAGAAGTGTGTTACATTCTGTTCACTAAGGTACATGATTTGTATTTTTAAATGCCACCCTTTTTTATCTCATTGTTAAATAG
Seq C2 exon
GAAGTACCATTGGCACAAACTGCACAGCCCACATCAGCTATTGTTCGTCCAGCATCATTACAGGTTCCCAATGTGCTGCTTACAAGTTCTGACTCAAGTGTAATTATTCAGCAGGCAGTACCTTCACCAACCTCAAGTACTGTAATCACCCAGGCACCATCCTCTAACAGGCCAATTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115966-ATF2:NM_001880:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.749 A=NA C2=0.626
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)