RnoINT0094972 @ rn6
Intron Retention
Gene
ENSRNOG00000019913 | Mta2
Description
metastasis associated 1 family, member 2 [Source:RGD Symbol;Acc:1306743]
Coordinates
chr1:225140863-225142435:+
Coord C1 exon
chr1:225140863-225141273
Coord A exon
chr1:225141274-225142367
Coord C2 exon
chr1:225142368-225142435
Length
1094 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTCCCCACCCCCTTCTACAGATT
3' ss Score
8.86
Exon sequences
Seq C1 exon
GTGTTCCGGAAGGAGGCGAACCCGGACGCGGGCAGGGCAAACCTTCCCAGCGGTTGGCACCACACGACGTCTGCTGGGACTCGGTGAGGACGCTAGGAGCCGGAACCTGACTCCGGTCAGGCAGGAACCGAGCTCGTTCCGGAAGAAGGCGAGCAGACCGGAGCCGGCCTCGGTATCCCGGCGTGAGGCTATAGCAGCGTTGTCGTCGCGCGGGCAGTGATGAACCGCGACGGCTGAGTGAGCAGAGGTGCCGGCTGCTCGGGCCCCATCGACACTTCCGCGAAGCGTCAGCCCCGCGCTGGGGGCTTCGTCTGGAGCTGAGCTTTGCCCCCGCGAGCCTCCCGGACCTCTTTGTGTGGCCGGAGGCGGCGGCGGGAACGGCCATGGCGGCTAACATGTACCGGGTAGGAG
Seq A exon
GTGAGTACCCTGGGCGGAAAAGGCTGAGGCCGGGACCAGGGAGACTCGGTGTCCGTAAGCGCGGGGGAGCCACATCTGGGGTTGTACGGGCCGCGGCACCGACCGGAACCGGAACCGAGCTGTGGTTCCGCGGCGGCGACGCTGTCGGGCTCAGAGTCTACCGCAGAGACATACCTGCAGCCGTAACGGTGCTCTGAGATCCGCGACTTGATCGCTGGGCTGGAAGTGGCCTTGGAAGGCGCCGGAGTGACCACCGGGCCAGCCGTTGGAGAGGCAGGCGCGCAGGGTTTTTCTTTTCTGTGGCGTCTTGTGTGTTCACCAAGGTGGGGCCTGAACAGTTTACTCAATTCTCCGATACAGGGGTTCAACTTCAGTGCAAAGTTCTTTGGACTCCAGGGAAGCCCCTGTTCTTATCTCTTAAGTCCCACTTTTGAGTGAAGATCTGACTTTAGAATTGGTTGTTGCAGGTGTAGGGGGTAAAAACTCATTTCCTCCTCTTTTCCTTGTTCTTTCTAGACAAGGTTTCTTCTCTGGGTAGCCTTGGCTGTCCTGGAACTTATACTGTAGACCAGGCTGGCCTCGAACTCAGAGATCCGCTTGCCTCTGCCTTCTGACTGCTGGAACTAAAGGTGTGTGGCACCACCGCCTGGCAAAGTATTTCCATAATCTCTTTTTCTTCCTTTCTTCCTTTCATCCTCCCTTCCTTCCTTCCCCCTCCCCCACCCCCTTTTTTTCTCTCTCTTTCCTTTTTGAGGCAGATTTCTTTTTTCCTTGTTTCTTTCTAGACAAGGTTTCTCTGTGTAGCCCGGTCTGTCCCAGAACTGTGAGTTGTAGAACTGACTGGTTATGAAGCAAGAGATCCTCCTGCCTCGGCCTCCCAGAGTGTTGGGATTAAACGCGTATGCCACTGCTGTCCAGCTAATGGCGAATACTTATTTTCTTAAATGTCTTCTCGCACATCTCCACTTCATCTCCACTTCATCTCCACTTCATCGCTACCTAGAATTTTGTCTCTTTTTGGTGCACACAGACCGACTTTCTCTTCTGGGTACTCTCCTCTGATCATCTTGTTTCTTCCCCACCCCCTTCTACAG
Seq C2 exon
ATTATGTCTATTTTGAGAACTCCTCCAGCAATCCTTACCTGGTTAGACGGATTGAGGAGCTCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019913:ENSRNOT00000027141:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
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
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAGGAGCCGGAACCTGACTC
R:
AGGATTGCTGGAGGAGTTCTCA
Band lengths:
354-1448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]