GgaINT1028748 @ galGal4
Intron Retention
Gene
ENSGALG00000004992 | TTC16
Description
tetratricopeptide repeat domain 16 [Source:HGNC Symbol;Acc:HGNC:26536]
Coordinates
chr17:4931018-4931335:-
Coord C1 exon
chr17:4931189-4931335
Coord A exon
chr17:4931119-4931188
Coord C2 exon
chr17:4931018-4931118
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGACTGGCTATCCCTGCAGGGC
3' ss Score
9.41
Exon sequences
Seq C1 exon
GCAGAGCTGTATGAGCAGCGGGCAGAGGCCTTCCTCCAGCTTTGTGACTTCCAGTCGGCCAAACTGAACTTAATGAAGGTGCTTATGTTGGCACCTGCGCGGAAGCAGCACTGCCTGGCTCGTCTGGCTCTTGTCCTTGACCTGCAG
Seq A exon
GTGAGCAACCACTCACTTCTCCCCATCTGCAGCCCTGACTTGTGACCATGCTGACTGGCTATCCCTGCAG
Seq C2 exon
GGCCAGTGTCTGCTGGACCAGGAGCTCTACAGTGAGGCCCTGGAGGCCTTCACACATGCCGCTGAGCTGCAGCCTCACTGCAGGGTGTTCCACCAGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004992:ENSGALT00000007997:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(47.7=63.3),PF134141=TPR_11=PU(15.7=16.3)
A:
NA
C2:
PF134141=TPR_11=PD(41.4=70.6),PF134291=TPR_15=PU(8.3=32.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCTTCCTCCAGCTTTGT
R:
CTCCAGGGCCTCACTGTAGAG
Band lengths:
167-237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]