RnoINT0155928 @ rn6
Intron Retention
Gene
ENSRNOG00000008215 | Trim47
Description
tripartite motif-containing 47 [Source:RGD Symbol;Acc:1597317]
Coordinates
chr10:104656372-104656961:-
Coord C1 exon
chr10:104656731-104656961
Coord A exon
chr10:104656571-104656730
Coord C2 exon
chr10:104656372-104656570
Length
160 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGCGCATTTGTCCGGCACAGGAG
3' ss Score
5.61
Exon sequences
Seq C1 exon
AGTGCAGCTGTGGCAGAGCGGGAGAGGGTGAGCCAGATGTTTGCCGAGGCCACAGCCTCCCTACAGAGTTTCCAGACTGAGGTGCTGGGGTTCATCGAGGAGGGGGAGGCCGCCATGTTGGGCCGCTCTCAAGGTGACCTGCGCAGACAAGAGGAACAGCGCAGCCGCCTAAGCCGGGCTCGCCACAACCTCAGTCAGGTTCCAGAGGCGGATTCAGTCAGCTTTCTCCAG
Seq A exon
GTGAGGCCGGCTCAGGAGCCACAGAGGGAATTCAGGGGGAGGGGTGGGGTTGAGAATGATGGCAGACACGATGGGTACCTGGCCTTCCAGGACAGTTGCTACCTTCCCTGGCTGGGAGATGCTGTGGCCAGCAGACTTACTGCGCATTTGTCCGGCACAG
Seq C2 exon
GAGCTCCTGGCACTGCGGCTGGCCCTGGAGGAGGGGTGTGGCCCTGGGCCTGGACCCCCCAGGGAACTCAGCTTCACCAAGTCCTCCCAAGCGGTCCGAGCCGTGAGGGACATCCTTGTCTCAGCCTGTGCCAGCCAGTGGGAGCAGCTGCGGGGGCTGGGCAGTGGTGAGGATGAGCTACAGAAACTTGGCTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008215:ENSRNOT00000010887:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.328
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTCCAGACTGAGGTGCTGG
R:
CTTGGGAGGACTTGGTGAAGC
Band lengths:
255-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]