HsaINT0014177 @ hg19
Intron Retention
Gene
ENSG00000119787 | ATL2
Description
atlastin GTPase 2 [Source:HGNC Symbol;Acc:24047]
Coordinates
chr2:38545677-38546161:-
Coord C1 exon
chr2:38546027-38546161
Coord A exon
chr2:38545782-38546026
Coord C2 exon
chr2:38545677-38545781
Length
245 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAAA
5' ss Score
1.18
3' ss Seq
TTAAACTCTCAAATTCCTAGGTT
3' ss Score
7.3
Exon sequences
Seq C1 exon
GATTCTCAAAGTTGGATTGGTGGAAACAATGAACCATTGACAGGCTTTACATGGCGAGGTGGCTGTGAAAGAGAAACAACAGGCATACAAGTTTGGAATGAAGTATTTGTGATTGACAGACCTAATGGAACTAAA
Seq A exon
GTAAAATTCTGTTTATACTTTTCTACCCTGTATTCTTTCTTGGGCTATTTTCCAGTATTAAAAATCAAAACAACACAGAACTATTAATGTTTGATAACTTTAACATACGGATTATTATGTCAAATGTATGAGATATAAGTACTTTTCTTGATTTAATTACTGCTTTTCAAATTTATCATTTGATTTTTTTTATAGTCATTTTTGGCAACTGTTTTACTAAATATTTTAAACTCTCAAATTCCTAG
Seq C2 exon
GTTGCTGTGCTGCTTATGGATACCCAGGGTGCCTTTGATAGCCAGTCAACTATCAAAGACTGTGCAACGGTGTTTGCTCTGAGCACTATGACTAGCTCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119787-ATL2:NR_024191:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF0226314=GBP=FE(16.2=100)
A:
NA
C2:
PF0226314=GBP=PU(17.1=96.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCAAAGTTGGATTGGTGGA
R:
TGGACAGAGCTAGTCATAGTGCT
Band lengths:
236-481
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)