HsaINT0014176 @ hg19
Intron Retention
Gene
ENSG00000119787 | ATL2
Description
atlastin GTPase 2 [Source:HGNC Symbol;Acc:24047]
Coordinates
chr2:38525286-38526469:-
Coord C1 exon
chr2:38526398-38526469
Coord A exon
chr2:38525718-38526397
Coord C2 exon
chr2:38525286-38525717
Length
680 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTGTAATTCTGTCTGTCCAGGTA
3' ss Score
7.84
Exon sequences
Seq C1 exon
GCAACAGCTGAAGCTAATAATCTTGCTGCAGTAGCAGGAGCAAGAGATACCTATTGTAAAAGTATGGAACAG
Seq A exon
GTTTGTACCTAAAATTTAAATTTGATGCTGGAGTGAGAAGATTTTTAAATTAAAAAAAAAAAAATTAAAAAAATTTTTTAAATAATTGAGCGAATTTGTGCAGCTTATGGTACATTATTCCCTAATTCCCCTTTATGGTCTTTGCTGGAAATAAACTATAAGAAAATAATTCACATTATTTGAGAGCAGAATTTGAGTTAGTAAATTATTATATAAACTCTACTGAAATATCTTCTGACAAATGTGTGATTCAGAGTGCTGTTATTGGTGACTTCTGATGTTGGTAGCATTAGTTTAAGGCCAGTAGCAGTTTCTGTACTTGCTTGCTCAAACATTAAAATATCTTTTTGGGGCATTATCATCTTTTACCCGTTCTCTTGCCAGCAATTTTGTGTGCTATTATGGTATATGATGGTCAAGTGAAGGCAGATACAGAGCACAGTGTAAAATTTTTTTGTCTTCAGTTTCCGTTAGTCATATTTGGAAAATGATTTTGCTTGAGTAGGTTCAACATATAAACAATAACTAGATTATGATAACCTGTGAGGTATTGTAAGTGAGTTTAAAACTGACTCAATCATGTAAGTGGTTTGACTTTCTGAGACTAAAAACTATGAACAGGAACTTCTTTCAAGTGTTAATTATTTCTAGCATGTAATACTGTAATTCTGTCTGTCCAG
Seq C2 exon
GTATGTGGAGGGGACAAGCCTTACATTGCACCTTCAGATCTGGAGCGAAAACACTTGGATCTCAAGGAAGTGGCGATAAAACAATTTCGTTCAGTAAAAAAGATGGGTGGAGATGAGTTCTGCCGTCGTTATCAGGACCAGCTTGAAGCTGAAATTGAAGAAACCTATGCAAATTTTATAAAGCACAATGATGGCAAAAATATCTTCTATGCTGCTCGTACCCCAGCCACACTGTTTGCGGTCATGTTTGCTATGTATATAATCTCAGGACTGACTGGCTTCATTGGCCTAAACTCTATAGCTGTCTTGTGTAACCTTGTCATGGGGTTAGCACTGATATTTCTTTGTACTTGGGCATATGTTAAATACTCTGGGGAGTTCAGAGAAATTGGAACAGTGATTGATCAGATTGCTGAAACACTATGGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119787-ATL2:NR_024191:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF028419=GBP_C=FE(17.6=100)
A:
NA
C2:
PF028419=GBP_C=PD(55.0=50.0)
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:
GCTGAAGCTAATAATCTTGCTGCA
R:
TGAAGCCAGTCAGTCCTGAGA
Band lengths:
349-1029
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)