GgaINT1028746 @ galGal4
Intron Retention
Gene
ENSGALG00000004992 | TTC16
Description
tetratricopeptide repeat domain 16 [Source:HGNC Symbol;Acc:HGNC:26536]
Coordinates
chr17:4931509-4931968:-
Coord C1 exon
chr17:4931799-4931968
Coord A exon
chr17:4931600-4931798
Coord C2 exon
chr17:4931509-4931599
Length
199 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
GGCTCTGTTCTTCTCTGCAGCTG
3' ss Score
10.83
Exon sequences
Seq C1 exon
ATGGAGGCCCCGGAGCTGTTTGCCACAGCCGTGCCCGAGGAGCAGCTGGAGGGCGGCTGGGACAGGGCCCTGCAGGGGGTGTTCGGGCCCAGACAGTGCCTGCGCTGCGTGGAGAGCCCCAGGGGTGTGGGATCCCTTCTCACCATTGTGCAGGGCAGGATGCAGGAGCA
Seq A exon
GTAAGTGCCTGGGGGCTGCTCTGTGTTCATACTGCTGCGTTCCCCGCTCAGACCATCCTTTGTGGTCTTTGGGGCAATCCTCATATCCACCACCTTTCCCTGCTGCCCTCCAGCCACGTGTGTGTCCCGGCTCTGTGACGATCTCCCTGTTGGGCGGTGTGAGGCTGGGACCAGCTCACGGCTCTGTTCTTCTCTGCAG
Seq C2 exon
CTGGCAGAAAGGACAGGACTTCTCCTCTTGTGGCCAGTGGGAGGAAGCCGTCATCTGCTACACAAAAGCCATCAGCCTGGATCCACAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004992:ENSGALT00000007997:1
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(3.4=50.0)
A:
NA
C2:
PF134141=TPR_11=FE(51.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGGAGCTGTTTGCCAC
R:
GCTGTGGATCCAGGCTGATG
Band lengths:
251-450
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]