RnoINT0155929 @ rn6
Intron Retention
Gene
ENSRNOG00000008215 | Trim47
Description
tripartite motif-containing 47 [Source:RGD Symbol;Acc:1597317]
Coordinates
chr10:104655878-104656570:-
Coord C1 exon
chr10:104656372-104656570
Coord A exon
chr10:104655953-104656371
Coord C2 exon
chr10:104655878-104655952
Length
419 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CACCACCTCCTCTTCTGCAGCTG
3' ss Score
8.47
Exon sequences
Seq C1 exon
GAGCTCCTGGCACTGCGGCTGGCCCTGGAGGAGGGGTGTGGCCCTGGGCCTGGACCCCCCAGGGAACTCAGCTTCACCAAGTCCTCCCAAGCGGTCCGAGCCGTGAGGGACATCCTTGTCTCAGCCTGTGCCAGCCAGTGGGAGCAGCTGCGGGGGCTGGGCAGTGGTGAGGATGAGCTACAGAAACTTGGCTCAGAAG
Seq A exon
GTGGGTGCCCCTCCACGATGACTCACTTCCCCCAGATAGGCCATATGGGCCCCCAGATCTGGTGTCCACCCAGGCATGAAGGAGGGAAAGTGTCTGGTACTAGGGGAAGGGCGGTAATCTTGCCAGGAACTGAAGCTGTGCCTCCAGGGGGCAGAGGGAATTCTTCTAGCTTATCCATGGACTTGGTAGAGATCAAGGCTCTGCCTGCAAGGAGGTTGGGGTGCGGGGGACACTCAAAACTCCACACACACATGAGAACATGGTCCCATAACGGTGTTTGTCACCAAGTGGCTGGGGTCTTTGGGAGGAGGGAAGGAGAGGAGGGAATTACATCCACAGGTGGGGCGGGGCACTGCCACGGGGTAGCCCTGCAGCCAGCCACAGGTATTCAGGCTTCCCCACCACCTCCTCTTCTGCAG
Seq C2 exon
CTGATGTGGAGTCCCAGGACCCTGACAGCACCAACCTGCTGGAGAGCGAGGCTCCCAGGGATTATTTCCTCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008215:ENSRNOT00000010887:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.538
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:
CCTGGAGGAGGGGTGTGG
R:
AATAATCCCTGGGAGCCTCGC
Band lengths:
242-661
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]