HsaINT0105842 @ hg19
Intron Retention
Gene
ENSG00000149480 | MTA2
Description
metastasis associated 1 family, member 2 [Source:HGNC Symbol;Acc:7411]
Coordinates
chr11:62368094-62369303:-
Coord C1 exon
chr11:62368895-62369303
Coord A exon
chr11:62368162-62368894
Coord C2 exon
chr11:62368094-62368161
Length
733 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCCCCTCCCTTCCCTTACAGATT
3' ss Score
14.12
Exon sequences
Seq C1 exon
TCCGGAAGGAGGCGAACCCTGAGGCGGGCCCGGCAAGCCTTCCCTGCGGCCGGCAGAGCCCAACGACTAGTGGGACTCCGCGGGGGCGGGGGTAGCTGGAGCCTGGCTCTGGCCTGGCAGGAGCCGAGCTCGTTCCGGAAGAAGCCGAGCGGACGGGGGCCAGCCTCAGCGTCCCGGGAGTGAGGCGATAGCTGCGGCGGCGACAGCGCGGGCCGGGATGAACCGCGACGGCTGAGGCAGCGGAGGTGCCGGCTGCGCGGGCCCCAGTGAGACTCCCTCGAAGCGGCAGCCCACCGTTCGGGGCTTTGCCTCGAGCCGAGCCCTGCCCCCGCGAGCCTCCCGGACCCCTTTGTGCGGCCGGAGGCGGCGGCGGGAACGGCCATGGCGGCCAACATGTACCGGGTGGGAG
Seq A exon
GTGAGTACCGGGCGCAGGGATACGGGGCCCGGGGCGGGAGAGGTTGGGGTAGGGACCTGAGGGGCTCGGCACCGGGTGGCGCGAGGCGCAGCGTATGGGGCAGCGTGGACCGGAGCGCGGACCGGAACCGGAACCGGGAGACGAGGAGAGAGGGTGCGGGGAACCGCGACGCGGCAGGGCTCCGAGACTCCCAGAGAGAAGCTGCGGGCAGCCCCGACGGCACTTTCGGGGCTGCGTCAGGGGCTCCCCGGGGCACGGAGTGGCCTTCGGAACCGGTTCCGAAGGAGCTGACAGGGTAGGGAGGGAACGCGAGGGGCTGGGGCGACGGCTTTGCCACCGCGGGGGAGCCGCCCGGAGGTTTCCTCTTCCCAGGCGTTATTGTGCGCCTCGATTCGAAAAGGTAGGGGCCCTGCGCTAGAGCGGACAATTACTTCGCCGCGACTGGGGTGCAACTCATCGCTGAGTTGTGGGGACTGCAGGGGAACCCCTGCTTCTTGCCTGTTCCTTAAGGCTCTCTTTTGAGTAAAGGATCTAATTTTAGAACTAGGTGCGGTGGGGATGGGGGACATCCTTATTTTCTCTTAGTCTGTCCACTTTCACATCTCAGCGCCCTTTCTACCTGAATCCTTATCTCCTTTTGATCCACTCAGGCCAACTTTCTCTCCTACCCTGGTGCTCTGCGTCTCCCATCTCCTCTGATCTTCGTGGTTCTCCCCCCTCCCTTCCCTTACAG
Seq C2 exon
ATTACGTCTATTTTGAGAACTCTTCCAGCAATCCTTACCTGGTTAGACGGATTGAGGAGCTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000149480-MTA2:NM_004739:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (disopred):
C1=0.300 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0142613=BAH=PU(4.3=60.0)
A:
NA
C2:
PF0142613=BAH=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTCGTTCCGGAAGAAGC
R:
AGCTCCTCAATCCGTCTAACCA
Band lengths:
345-1078
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)