HsaINT0105826 @ hg19
Intron Retention
Gene
ENSG00000182979 | MTA1
Description
metastasis associated 1 [Source:HGNC Symbol;Acc:7410]
Coordinates
chr14:105930369-105930904:+
Coord C1 exon
chr14:105930369-105930484
Coord A exon
chr14:105930485-105930752
Coord C2 exon
chr14:105930753-105930904
Length
268 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TCCAACTTTGTTGTCCGTAGCCA
3' ss Score
8.64
Exon sequences
Seq C1 exon
TAACAAGCCAAATCCGAACCAAATCAGCGTCAACAACGTCAAGGCCGGTGTGGTGAACGGCACGGGGGCGCCGGGCCAGAGCCCTGGGGCTGGCCGGGCCTGCGAGAGCTGTTACA
Seq A exon
GTAAGTGCCCTGGATGGCCGGGGGCACACCGCACGCCCGCCTGTGGGCCGTGGTGCCTGCGTTGGCCCTGAGGGCTCCAGCATGGCCCAGCCTGCAAGGGGCCCACTGACGATGGGGGCTGCGTCCCAGGGGTGTGGTTGGGAGAGCCTCGGGGAACGTGTGGGGGTGCCTGGCGGGTGGGGGCGGCCGGCGTGGGGGTGGCGGGGAATACTCTGACATCGCTGGTTCTGCTTAAGAATCCGTCTATTTCCAACTTTGTTGTCCGTAG
Seq C2 exon
CCACACAGTCTTACCAGTGGTATTCTTGGGGTCCCCCTAACATGCAGTGTCGTCTCTGCGCATCTTGTTGGACATATTGGAAGAAATATGGTGGCTTGAAAATGCCAACCCGGTTAGATGGAGAGAGGCCAGGACCAAACCGCAGTAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000182979-MTA1:NM_004689:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.995 A=NA C2=0.467
Domain overlap (PFAM):
C1:
PF0032022=GATA=PU(13.2=12.5)
A:
NA
C2:
PF0032022=GATA=PD(84.2=62.7)
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:
TAACAAGCCAAATCCGAACCA
R:
CATGTTACTGCGGTTTGGTCCT
Band lengths:
268-536
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)