HsaINT0105856 @ hg19
Intron Retention
Gene
ENSG00000149480 | MTA2
Description
metastasis associated 1 family, member 2 [Source:HGNC Symbol;Acc:7411]
Coordinates
chr11:62364788-62365184:-
Coord C1 exon
chr11:62365082-62365184
Coord A exon
chr11:62364888-62365081
Coord C2 exon
chr11:62364788-62364887
Length
194 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CTTCTCAATTTCTCCCTTAGAGC
3' ss Score
9.61
Exon sequences
Seq C1 exon
GAGAATCTGATAATCGGAACCAGCAGAAGATGGAGATGAAGGTCTGGGACCCAGACAACCCTCTCACAGACCGGCAGATCGACCAGTTTCTTGTGGTGGCCCG
Seq A exon
GTGAGGGGTGGGTGGATAGGGAAGATGGGCTGGGGGAGGTGTGGACATTGTTCTGAGTCCCATGGTTCTTAGAGATGGACTTTATTTCTTTCATTGCCATGGATGTTTTCCTTCTTTCTCCTTTGGCTTAATTTCCCAGCCCACTTGGGCTTTTGACTTTTCTTTCGCTTTTGACTTCTCAATTTCTCCCTTAG
Seq C2 exon
AGCTGTGGGAACCTTTGCAAGAGCCCTAGATTGTAGCAGCTCCATTCGGCAGCCAAGCTTGCACATGAGTGCAGCTGCTGCCTCCCGAGATATCACTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000149480-MTA2:NM_004739:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.094 A=NA C2=0.539
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(85.7=96.0)
A:
NA
C2:
PF0144819=ELM2=PD(10.7=8.8)
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:
AGAATCTGATAATCGGAACCAGCA
R:
CAGAGTGATATCTCGGGAGGCA
Band lengths:
202-396
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)