RnoINT0157500 @ rn6
Intron Retention
Gene
ENSRNOG00000050650 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:RGD Symbol;Acc:2318922]
Coordinates
chr3:11808449-11810095:-
Coord C1 exon
chr3:11809952-11810095
Coord A exon
chr3:11808550-11809951
Coord C2 exon
chr3:11808449-11808549
Length
1402 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCT
5' ss Score
5.4
3' ss Seq
TGATGGTGGTGTCTCCTCAGGGC
3' ss Score
8.19
Exon sequences
Seq C1 exon
ATAGACTTCTACGTATATCGTGCTGAGGCCTTCATCCAGCTCTGCGACTTCTCCTCTGCCCTCCAGAACCTCCGCAGGGCCTACTTCTATGAGCCAGAAAATGACAAATACGTGGATCGGCTGGCCTTCGTGCTCTACCTACAG
Seq A exon
GTGCCTAGGCTGCCCCACACACAGAGGAATTCTCACCTTATCCCCAGCCACTGGCTTGCCCTCTGCCTACAGGGATCCTTCCTGGGATAGGATCTGAGTTCTTGGGGACTCCTGGTCTGTGTGTCTGTCCACACCTGCTGCCCTCATCACTGATTTATTAATTTAGCCTGGGGTGTCCAAATAGAACTTCTGCAGCAAGGTTCTGATCTACTCCACACTGTCCAATAGGGTCAACGCTGACCACGTGGAAATGCCGAGACCTTAGAGTATGACTGAACTAAGTTTTAAATTTGATTTGGCTGGGTCAGTAGGGGTGTGGCCCGGTGGTGGGATGCCTGCCTGACACCCAGAGGGCTCTGAGTACTATCCCTAGTACTAAGTGAAATTTTAATTGTTAACATTTGTTTTTACATTTACTTGTGCATGTGTGCATGTGTGTTCGTGTGCATCTGTGTGCAAAGGGAGGTCAGAGGACAACTCGTAGAAGTCAGATGTCTCCTTGTACCACGTGGGTGGGCCCTGGGCGTCAGCAGGCCAGGTGACGAAGTGCCTGTACCCACTGAGTCATCTCACTACCATCGATGTCTTTTGAAGGTCAAATATGGGATAGAGGCTGAGTTGGGTGAACATAGACCTGGTATGGCAGGGGTCTGAGTCGAAGCACCAATGCCACAAAACACCAGATCACTCAGTTCTTACAAAGAAACGTTGGTAGCCCAGTGACGTGGCTGAGCAGGTAAGAGCCTCTTAAGCCTGACTACCCAAGTGTGATAGCTGAGTCACACGGTGGAAAGAGAGCAGACTGCCAGTTTTCTATGACTTTCGAGAATGTGCTGTGGCATGTGCCTGCCCCCGCCCATACACAGAATAAGTACATGTAACAAAAAAGAAAACATTGGGCCAGACATGGTGGCACAGGCTTGCATACTCAGTACTCCAGAAATTGAGGCAGGAAGATTATCATGAGTTCAAGGCTTGCCCGGGTTGCACTGTTCCTGGCTGGTATGAGTTACATTGTGAAACATTAATAAGACAAACATACCAGACAAGGCAGGAGAGCCCTCGAGGCATTCAAATAACCCATGGAACTGTTGAAGTCCCATGTCCTGCTAGCTCTCTTCCCCTGTGATCTTCAGGAAGTCACTTCACCTCCCTGAGCCTTAGTGCCTTCCTCTGAAATGGGGAAGGCTTTCGGGTTCTAGGCCAGAGCCTTGCTGTTTTCACCTGCTGCCTCATTCTGTCTGGAGACTCTGTGCTGCTGTATTTCTCCATGTTTCTTGGTGTTTCTGCTTAGTTCTGCATCTCTTTCCATCTCTGTCCAAGTCTCTCTCCCTGACCTCTGCCAATGTGGAGCTCAGTAGAGCTGGAGTTCTGAGCAGAGCTGATGGTGGTGTCTCCTCAG
Seq C2 exon
GGCCAGTGCCTCTATGAGCTGTGTGACTACCAGGAAGCCCTCTATGTCTTCCTGCAAGCCTCCGACCTCCAGCCCCAAAACCCTTCCTTCAGTTACCGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050650:ENSRNOT00000071233:3
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=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(45.6=64.6),PF134141=TPR_11=PU(12.5=16.7)
A:
NA
C2:
PF134141=TPR_11=FE(51.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTATATCGTGCTGAGGCCTT
R:
CATCGGTAACTGAAGGAAGGGT
Band lengths:
234-1636
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]