RnoINT0157495 @ rn6
Intron Retention
Gene
ENSRNOG00000050650 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:RGD Symbol;Acc:2318922]
Coordinates
chr3:11810263-11810901:-
Coord C1 exon
chr3:11810648-11810901
Coord A exon
chr3:11810354-11810647
Coord C2 exon
chr3:11810263-11810353
Length
294 bp
Sequences
Splice sites
5' ss Seq
GTAGTGAGT
5' ss Score
5.8
3' ss Seq
CCTGTCTTGTGTCCTCACAGCTA
3' ss Score
10.93
Exon sequences
Seq C1 exon
GTGACAAAGACTCTCATCTCCTTGACCACCTGATGCCAGGTCATCTCTGAGGCCTTCTGAACTTGTTTGCCCCTGGTTTGGTCCCAGGAGCTTGGCGATGCCTGTTCCCAGAAAGCTCCAAAACTCAAGGTTCCTAAGAGTCCAGAGAAGATCCTGCGACGCATCTTTGGGACCAGCCATGTGTTCTATGTTATGACAGAAACGACAAAACGAAGGATGATGGGTTCGACGGTGCCTGCCAAAGTCAGAGAGTA
Seq A exon
GTGAGTTACTTCTTCGCCCCCAGCCCCAGGTTCCTACTCCACACAATCATTAATGCTGGGTTCAGCTGCAAGCCGGCTGCTAGCCCTCTCTGGGCCTCAGTGAACAGCAACGGGTAAAGGGATAAGAGGCTGATGGCCTGAGAGAGCTCCAGGAAGGTCAGCCTGGAGCTCTGATTACTTCTCTAGCCTCTTTACCTCAGCCCTCCCTCCTACACACCCCACTGTAGCCCTGAAAAGGTCCTGGGCTGGTCCCAGACCAATGCCAGCTCCACTACCTGTCTTGTGTCCTCACAG
Seq C2 exon
CTATAACCAAGGCCATCAGTGCCTATTACAAGAGGACTGGGAGATGGCTGTGCTGTTCTTCTCCCGTGCCCTCCACCTGGACCCCAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050650:ENSRNOT00000071233:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PU(7.4=23.8)
A:
NA
C2:
PF134141=TPR_11=FE(44.1=100)
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:
TCTCCTTGACCACCTGATGCC
R:
CACGGGAGAAGAACAGCACAG
Band lengths:
306-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]