RnoINT0157543 @ rn6
Intron Retention
Gene
ENSRNOG00000034089 | Ttc21a
Description
tetratricopeptide repeat domain 21A [Source:RGD Symbol;Acc:1308806]
Coordinates
chr8:128642653-128643240:+
Coord C1 exon
chr8:128642653-128642810
Coord A exon
chr8:128642811-128643024
Coord C2 exon
chr8:128643025-128643240
Length
214 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CTCTGCTCTGCCTCTCCCAGGTC
3' ss Score
10.54
Exon sequences
Seq C1 exon
GAGAGCTGGAGAACGCGCAGAGCACCCTGCAGCGCTGCCTGGAGCTGGACCCCACCTTTGTGGACGCTCACCTCCTCATGTCCCAGATCTACCTGGCCCAGGGCAACTTCGCCATGTGCTCCCACTGTCTAGAGCTGGGTGTCAGCCACAACTTCCAG
Seq A exon
GTGGGAGCTCTCCACACACCATGGCCCACTCTACTCTTGTACCCCTTTCTGGACGGTTGCCTGGGAGGGGAAAGCCACAAAAAGGCAGAAACGTCCCCCAGGCCCTGTGCTAACTCGCAGAAAGGGCTGGCTCACCGGCTCCTCTGGAGAGGTTCCTGAGGCTGCTTTGTGAGCAGCAGATAAGCTAGACCCCACTCTGCTCTGCCTCTCCCAG
Seq C2 exon
GTCCGAGACCACCCCCTCTACCACTTCATCAAAGCCAGGGCCCTCAACAAGACTGGCGACTACGCCGAGGCCATAAAGACCTTAAAAATGATCATAAAGGTGCCCACCTCAAAGGCAGAAGAGGGCAGGAAGTCCCGAGGCCCCTCCGTGCGGCCCAGCGAGCGGGCATCCATCCTGCTGGAGCTAGTAGAGGCCCTCCGACTGAATGGGGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034089:ENSRNOT00000043831:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF128952=Apc3=FE(60.5=100)
A:
NA
C2:
PF128952=Apc3=PD(34.9=41.7)
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:
CTCACCTCCTCATGTCCCAGA
R:
CATTCAGTCGGAGGGCCTCTA
Band lengths:
300-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]