DreINT0098351 @ danRer10
Intron Retention
Gene
ENSDARG00000007198 | mta1
Description
metastasis associated 1 [Source:ZFIN;Acc:ZDB-GENE-131121-353]
Coordinates
chr17:37642345-37642762:+
Coord C1 exon
chr17:37642345-37642447
Coord A exon
chr17:37642448-37642662
Coord C2 exon
chr17:37642663-37642762
Length
215 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAA
5' ss Score
5.48
3' ss Seq
TGTTTCAAATCTTTCTGCAGGTC
3' ss Score
10.66
Exon sequences
Seq C1 exon
GAGAGGAGGATGATCGGGAGCTGGAGAAACTGGAGGAGAAGGTGTGGGATCCCAGCAACCCCCTCACCGAGAAACAGATCGACCAGTTCCTCGTCGTGGCTCG
Seq A exon
GTAAAACTCTGCAGCAATGAAACAAATTTGCTCTATTTCTCTCTCTCTATACCAGTCTGTTGTGAATAGAACATTTGCGTTGAAAAGATCTAACTCTCAAATTCTGAAATAAATATATATATTATTGTTTTGTTCCCACTCCATGCTCTGTTATTTCAAACTGCATTTTTCTTGCTCTGTTTCACTCACTCATTCTGTTTCAAATCTTTCTGCAG
Seq C2 exon
GTCTGTGGGCACGTTTGCGCGGGCTCTAGACTGCAGCAGTTCAGTTCGGCAGCCCAGTCTGCACATGAGCGCTGCAGCAGCCTCCAGAGATATCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007198:ENSDART00000045583:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.382
Domain overlap (PFAM):
C1:
PF0144819=ELM2=FE(61.8=100)
A:
NA
C2:
PF0144819=ELM2=PD(5.5=8.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGGAGGATGATCGGGAGC
R:
ATATCTCTGGAGGCTGCTGCA
Band lengths:
196-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]