RnoINT0153604 @ rn6
Intron Retention
Gene
ENSRNOG00000058645 | Tnc
Description
tenascin C [Source:RGD Symbol;Acc:621057]
Coordinates
chr5:79837995-79838548:-
Coord C1 exon
chr5:79838363-79838548
Coord A exon
chr5:79838085-79838362
Coord C2 exon
chr5:79837995-79838084
Length
278 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACCTGCACATTCTCTTTCAGGTC
3' ss Score
12.1
Exon sequences
Seq C1 exon
GCCTGGATGCTCCCAGGAATCTCCGTCGCGTCTCACAGACAGACAACAGCATCACCTTGGAGTGGAGGAATGTCAAGGCAGACATTGATAGTTATAGAATTAAGTATGCACCTATCTCTGGAGGTGACCATGCTGAGATAGATGTTCCAAAGAGCCAGCAAGCCACAACCAAAACCACACTCACAG
Seq A exon
GTGAGCCCTGACCCAGCGGTGCTGTGCCACAGGGGCCCTCTAAAGGACAGGAGCCTGCTGCCACATATTCCTACTTTGCAACCCTGCAGAGAGAATGAAATAAGCCCAGCTTCCTCCTATCTACCCCTCTCACTGTAACTGCATCAAGTTAGTAACAAGTAATGGGCACACAAAAATCAAAAATCACATTAGCTAGGGACCAGTCTGGGATCACCTTTAAACTCTTCTGAGAGCCCACCTTCTGCTAGGCAGATCTCAACCTGCACATTCTCTTTCAG
Seq C2 exon
GTCTAAGGCCAGGAACTGAATATGGAGTGGGCGTCTCTGCTGTTAAGGGAGACAAGGAGGGCGATCCAGCAACCATCAATGCAGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058645:ENSRNOT00000084563:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.508 A=NA C2=0.839
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(71.4=95.2)
A:
NA
C2:
PF0004116=fn3=PD(27.4=74.2)
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:
TGGATGCTCCCAGGAATCTCC
R:
CTGTGGCTGCATTGATGGTTG
Band lengths:
273-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]