RnoINT0157505 @ rn6
Intron Retention
Gene
ENSRNOG00000050650 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:RGD Symbol;Acc:2318922]
Coordinates
chr3:11804467-11805468:-
Coord C1 exon
chr3:11805327-11805468
Coord A exon
chr3:11804633-11805326
Coord C2 exon
chr3:11804467-11804632
Length
694 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGC
5' ss Score
9.1
3' ss Seq
GCCTCGGGCATGTCCCTCAGGCA
3' ss Score
6.11
Exon sequences
Seq C1 exon
ATTGCTTCTACCAGCTGGGCAACCTGGCCTTCGCGGAGGCTGACTACAAGCAAGCACTGGCTCTGAGCCCACTGGATGAAGGAGCGAACTTGCGCATGGGGGTGCTGCAGGAGAAGATGGGCTTCTGCCAGCAGAAGCACAG
Seq A exon
GTGCGCCACGGGCAAGCGGGAGGGGGCGTGGCTGAGGAGGGCGTGGCTTGAGGCAGTGCTGGACCGGAAAGGGCTCACCTTTACACACATTTTCACCACAGAAATAAATTTAGTTATTTTAGTAAATTAAGCCTTCTAACGAAAAGAATGAAATATTCAACCATGTATGATTCAGAATGTTATTTTCAAGGCCTACCTGCCCTCCCAAAAAGCCTCCCTCTAGAGCTTCCTCTAGGACTTAGGTTGGTTTTCAGCACCCACAGGGCAACTCACAGCCATCTGCTATCCCAACGCCAAGTGATTAGGCATGAGAATGGTGCACGAACATACACACAGGCAAAACAGTCACGCACATTTTTTAAAATGTTAGGGCCAGGTGTAGTGGCCCATGCTACTTGGAAGGCAGAAGCAGGTGGATCTTTAAGAGTTCAAGGCCAGCCTGGTCTACAGATTGAGTTCCATTAAAGTCAAGGCTATAAGGAGATGCTGTCTCAAAAAATTTAAATAAAACAAAAAAAATTAGGGTACACCAAAGTTATAGTACTCCAGTGTCAGGTCCATCGAGGTATGGCTGACAGAAGTGGGTGAGAAGAGCAGGCCAGGAGCAGAGGCCCTAGTTTCCCTTCAACTCCTGGGTGCCTAGTAGCTGCCAGCTTTCCTGGCAGTACACGGCAGCCTCGGGCATGTCCCTCAG
Seq C2 exon
GCAGTTCCAGACAGCAGAGGAGCACTTCTCGGAGGCTATAAGGCACAACCCACAGAAGCCCCAGTACTACCTGCACCGGGCCAAGTGCCGACAGTTCCTGCAGAACATACTGGGGGCCCGCCAGGATGTTGCTACTGTGCTGCTCCTGAACCCCAACTATCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050650:ENSRNOT00000071233:8
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=0.107
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(33.8=47.9),PF134141=TPR_11=PU(20.0=27.1)
A:
NA
C2:
PF134141=TPR_11=PD(78.5=91.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGCTTCTACCAGCTGGGCA
R:
GGATAGTTGGGGTTCAGGAGC
Band lengths:
304-998
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]