DreINT0098339 @ danRer10
Intron Retention
Gene
ENSDARG00000007198 | mta1
Description
metastasis associated 1 [Source:ZFIN;Acc:ZDB-GENE-131121-353]
Coordinates
chr17:37649537-37649842:+
Coord C1 exon
chr17:37649537-37649595
Coord A exon
chr17:37649596-37649714
Coord C2 exon
chr17:37649715-37649842
Length
119 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
GTGGCTTTTTTTTTCTGCAGCAA
3' ss Score
8.73
Exon sequences
Seq C1 exon
AAACGATTAAAAGCAGCTGAAGCGGAGAGCAAGTTAAAGCAGGTTTACATCCCAAATTA
Seq A exon
GTAAGTACTTGAGTGAGTCGTGCTTGAACTCTTGAGTTTTGCATTTCACCATACGCTTCAAATGACTGCACTTTGACCAGAGGAAATCCAGTAACGCTTGTGGCTTTTTTTTTCTGCAG
Seq C2 exon
CAACAAGCCCAATCCTAACCAGCTGAGTGTGAACAGTGTTAAGCCTGGGCTGGTGAATGGAGCGGGGGCTCTTCCGGGAGCTCCAGGACAGCCGGTCGGATTGGGGCGAGCTTGCGAGAGCTGCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007198:ENSDART00000045583:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=NA C2=0.841
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0032022=GATA=PU(13.2=11.4)
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:
AACGATTAAAAGCAGCTGAAGC
R:
TGTAGCAGCTCTCGCAAGC
Band lengths:
186-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]