RnoINT0094956 @ rn6
Intron Retention
Gene
ENSRNOG00000004711 | Mta1
Description
metastasis associated 1 [Source:RGD Symbol;Acc:621018]
Coordinates
chr6:137943197-137943762:+
Coord C1 exon
chr6:137943197-137943312
Coord A exon
chr6:137943313-137943610
Coord C2 exon
chr6:137943611-137943762
Length
298 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TCCAACTTTGTTGTCCGTAGCCA
3' ss Score
8.64
Exon sequences
Seq C1 exon
TAACAAGCCAAACCCAAACCAGATCAGCGTCAACAGTGTCAAGGCCAGTGTAGTGAATGGCACAGGGACACCAGGCCAGAGCCCCGGGGCCGGTCGGGCCTGCGAGAGCTGTTACA
Seq A exon
GTAAGTGCTGTACCTGGCTGGCCCCCATCCTGGGCAGCAGGGCCACGGGAATGCTACTGCGTGGCTGTGGCGCTCAAGGGGCCCCTGAAGCCCCCGTGCCCAAACCCGGAATGACTCACCGTAATGGGGCTGCAGTGGTGGTGGGGTAGTTTGGAAGAGTTCCTCAGGAGTATAAGGTGGACCTACTATGGTCCTGAGCCAGGGGTGGGATGGCTGTGGTGGCGGTGGGGACACTGGGATGCTCTGCACCGTTGGTTCTGCTTAAGAATCCGTCTATTTCCAACTTTGTTGTCCGTAG
Seq C2 exon
CCACACAGTCTTACCAGTGGTATTCTTGGGGTCCCCCTAACATGCAGTGTCGCCTCTGCGCATCTTGTTGGACATATTGGAAGAAATATGGTGGCTTGAAAATGCCAACCCGGTTAGATGGAGAGAGGCCGGGACCAAACCGCAATAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004711:ENSRNOT00000006521:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0032022=GATA=PU(13.2=12.5)
A:
NA
C2:
PF0032022=GATA=PD(84.2=62.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAACAAGCCAAACCCAAACCAGA
R:
CATGTTATTGCGGTTTGGTCCC
Band lengths:
268-566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]