DreINT0098343 @ danRer10
Intron Retention
Gene
ENSDARG00000007198 | mta1
Description
metastasis associated 1 [Source:ZFIN;Acc:ZDB-GENE-131121-353]
Coordinates
chr17:37658237-37658562:+
Coord C1 exon
chr17:37658237-37658326
Coord A exon
chr17:37658327-37658409
Coord C2 exon
chr17:37658410-37658562
Length
83 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGC
5' ss Score
9.86
3' ss Seq
CTTCTCAAAACCTTTTCCAGAGG
3' ss Score
5.64
Exon sequences
Seq C1 exon
GTGCTGTGCGGTTGCCAGATATGTCCAAAAAACCTGCATCTCTAAAGCAGACAGTAAGGAAGCCTTTAGAGTCTGTGGTTAGATATCTCG
Seq A exon
GTAAGCGAAGCTCTCTTTAAACACTCAATTAGATCTTCATCAACGATCCCTTTTTAATAATATCTTCTCAAAACCTTTTCCAG
Seq C2 exon
AGGCGCACCCTCTCCCGCCCAAAGCAGACCCTCCACGAGGAGTCACCATTTCCACAGGCAGCCTGACGCCCATTAAATCCACACCCATCCTCAACAACGGCTCGCCGACCATCCTGGGCAAGCGCAACTACGAGCAGCACAACGGCTTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007198:ENSDART00000045583:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.484 A=NA C2=0.808
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGTGCGGTTGCCAGATATGTC
R:
TGGATTTAATGGGCGTCAGGC
Band lengths:
167-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]