MmuINT0101432 @ mm10
Intron Retention
Gene
ENSMUSG00000071646 | Mta2
Description
metastasis-associated gene family, member 2 [Source:MGI Symbol;Acc:MGI:1346340]
Coordinates
chr19:8941875-8943532:+
Coord C1 exon
chr19:8941875-8942382
Coord A exon
chr19:8942383-8943464
Coord C2 exon
chr19:8943465-8943532
Length
1082 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTCTTCCCCACCTCCTACAGATT
3' ss Score
9.48
Exon sequences
Seq C1 exon
GAAAGGAGCCGAGTTCCTTCCGGAAGTGGCCGATCTGCGGGGTCTTGCTCTCCGACCTGAGCCGAGCGCTGGGCCTTGTTCTCCGGATCGGCCGAAGGTGTTCCGGAAGGAGGCGAACCCGGACGCGGGCAGGGCAAACCTTGCCAGCGGTTGGCACCGCACGACGTCTGCTGGGACTCGGTGAGGACGCTAGGAGCTGGAACCTCACTCCGGTCAGGCAGGAATCGAGCTCGTTCCGGAAGAAGCCGAGTAGACCGGAGCTGGCCTCGGTGTCCCGGCGTGAGGCTATAGCAGTGTCGTCGTCGCGCGGGCAGTGATGAGCCGCGGCGGCTGAGCGAGCAGAGGTGCCGGCTGCTCGGGCCCCATCGACACTTCCGCGAAGCGTCAGCCACGCGCTGGGGGCTTCGTCTGGAGCTGAGCTTTGCCCCCGCGAGCCTCCGGGACCTCTTTGTGTGGCCGGAGGCGGCGGCGGGAACGGCCATGGCGGCTAACATGTACCGGGTGGGAG
Seq A exon
GTGAGTACCCTGAGCGGAAGAGGCTGAGGCCGGGATCAGGGAGACTCGGTGTCCGCAGGCGCGGGGGAGCCACATCTGGGGTCGTGTGGGCCGCGGCACCGACCGGAACCGGAATCAAGAGCCATGGTTCCGCGGCGGCGACGCTATCGGGCGCAGAGTCTACCGCAGAGGCTTACCTGCAGCCGTAACGGTGCTCTTGAGACCTGTGACTGGATCGCCGGGCTGGAAGTGGCCTTGGCTTTGGAAGGGGCCCGAGTGACCCACCGTCCGGCCAGCCGCGCTAGGGGCTAGGCGCGCAGGGGTTTTCTTTTCTGTGGCGGCTTGTGCGTTCGCGAAGGTGGGGCCTGAACAGTTTACTCAATTCTCCTATACAAGGATGCAACTTGAGTGCAAAGTTGTATGGACTCCAGGGAAATTCTTGTTCTTGTTTCTTAAGTCTCACTTTTGAGTGAAGATCTGACTTTAGAACTGGGTGTTGCAGGGGTAGGGGGTAAAAACTCATTTCCTTTTTCTTCTTTTTTCCTTGTTTCTTTTTAGACAAGGTTTATTCTCTGTGTAGTCTTGGCTGTCCTGGGACTCATACTGTAGACCAGGCTGTCCTCGAACTCAGAGATCCGCCTGCCTCTGCCTCCTGACTGCTGGAATTAAAGGTGTGTGACACCACTGCCTGGCAAAGTATTTCCATAATATCTCTTTTCCTTCCTTCCTTTTTTTTTTTTTTTTTTTTCTTTTTTTCTCTCTTCTCTTCCCCCACCCCCCATTTCCTTTTTGAGGCAGGTTTCCCCCTTGTTTCTTTTGAGACAAGGTTTCTCTGTGTAACCCTGGCTGTCCTGGAACTTGAGCTGTAGACTTGGCTGGCTTTGAACCAAGAGCCTGCTTTGGTCTCCCAGACTGCTGGGATTAAACGCATATGCCACCACTGTCCAGCTAATGACTAGTACTTATTTTCTTAACTCTCTCCTCTTGCTCATCTCCACTTCATCTCTATCTAGAATTTTGTCTCATTTTGGTCCACACAGAGCGACTTTTTCATCTGGGTGCCCTCTCCTCTGATCCTCTTGTTTCTTCCCCACCTCCTACAG
Seq C2 exon
ATTACGTCTATTTTGAGAACTCCTCCAGCAATCCTTACCTGGTTAGACGGATTGAGGAGCTCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000071646:ENSMUST00000096240:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (disopred):
C1=0.500 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATCGAGCTCGTTCCGGAAG
R:
AGCTCCTCAATCCGTCTAACCA
Band lengths:
348-1430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types