RnoINT0157503 @ rn6
Intron Retention
Gene
ENSRNOG00000050650 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:RGD Symbol;Acc:2318922]
Coordinates
chr3:11805579-11806691:-
Coord C1 exon
chr3:11806477-11806691
Coord A exon
chr3:11805824-11806476
Coord C2 exon
chr3:11805579-11805823
Length
653 bp
Sequences
Splice sites
5' ss Seq
CCGGTATGG
5' ss Score
8.44
3' ss Seq
TGCCCTGTCCACCACAATAGAGG
3' ss Score
4.75
Exon sequences
Seq C1 exon
GCCAACCTCTGCTATCAGGACCTCCGAAGCGCCTTGCTCCTAGATCCCAAGCACACACAGGCCAAAGGGCTGCTCCAGAAGATGGTGGACCAGGCCAATCAGTCCCTCCAAGATGCCAGCATCCTGGCCGTGCAAGGCAAGCTGCACCGCGCACTAAAGTGCGTCAGCTGTGCCATTGAGAACAATCCCTTGGACCCCAACTTCTTCCTCTTCCG
Seq A exon
GTATGGGTACCAGGGTGCAGAGGGGCTGGGCCTCCTGCAGACCTGCTTCGTGGTCTCGGGAGAGTCTCTGACCCCTCCCAGGTTTCAGTTCCTCTCTCTAGCCCCCAGTAACCTTTCCCTGCTTCTGACTGGGGTTGTGGCACCATAGAGGTGGTCTCCATGGTGACCTGGGACTCCAGCCAGGCCAGCTGAGTAGTTGTTGGGAGGACAGTAGACTAGGGTTTGTATCTGGTCCCCCAAGGATTTGGTGCCATTCACTCTCCCTAATCCTGGATGTTCTTATCTAGATAGTTGGCTAAATAATCTGTACACAAAGGCCTGAACAGGGGCCTGTCATGGCTCAGCGGGTAAAGTCGCTTGCTGAACAAACCTGTCGACTGGAGTTCAATTCCCAGAAACCACATAAAATACATGACTTCCAAACTGGAAAACTACCCTTGAGAAAGAACAAATCCAGATGACTAATAGGTTATCCAAGCAGCAATCTCGGGCCAGCCCCAGAAGACAGACAGACCTAGGGCTTGAGGCAGAATGTATGAATACAGTCAATGGCCATAGGTCAGAAGGTCCAGGGCAGGCAACAGCCTTCTAGCCAAATGGGATACTTCAGCCCTTGTGTCCCTTCCTGCTACCTGCCCTGTCCACCACAATAG
Seq C2 exon
AGGCACCCTGCGCAGACGGCTCCAGCAGTATGACCCAGCTGTGGAAGACTTCCTGAAGGCCCTGGATATGATGACTGAAAGCCAGGACAACCTAGTGAAGCAGGCGCAGCGCCAGCTGCTGCTGACTTACAACGACTTTGCTGTGCACTGCTACCTCCATGGTGCCTATCAGGAGAGTGTGCTGCTGCTAAACAAGGCTATCAGAGACGAGCAGAACGAGAAGGGCCTGTACATCAACCGTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050650:ENSRNOT00000071233:6
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=PU(62.7=58.3)
A:
NA
C2:
PF134141=TPR_11=PD(35.8=28.9),PF134141=TPR_11=PU(64.7=53.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAGTCCCTCCAAGATGCCA
R:
CGGTTGATGTACAGGCCCTTC
Band lengths:
358-1011
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]