GgaINT0123990 @ galGal3
Intron Retention
Gene
ENSGALG00000004992 | TTC16
Description
NA
Coordinates
chr17:5558713-5559092:-
Coord C1 exon
chr17:5558951-5559092
Coord A exon
chr17:5558879-5558950
Coord C2 exon
chr17:5558713-5558878
Length
72 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACACTGCTGTCCCCTCGCAGGCG
3' ss Score
10.93
Exon sequences
Seq C1 exon
ACTGCTTCTTTTGCCTGGGGGAGCTGACCTATGCGCTGGCGGATTACCAGCAGGCGCTGGAGCTGAGTCCAGGGAACCGCGCTGTGCAGGAACGTGTTGCAGCTGTGTTGCATGAGAAGGGCTGTCAGGACTTGGCAGCCAG
Seq A exon
GTGAGGAGCAGGGCGGTGTAGGCTGCCTGAGGGCCTGTGGTGAGCCAGGCACACACTGCTGTCCCCTCGCAG
Seq C2 exon
GCGGTTCCTGGAGGCAGAAGCTTGTTTTTCTATGGCCATTGAGCATGACCCCCGAGGAGCGCTGTACTACCTGTGTCGTGCCATGGCCAAGCGGTGCCTAGGGAAGGTGGAGAGCTCGAGGGAGGATGTCGCACTCGGTCTGCGGCTCAGCCCCACAGATAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004992:ENSGALT00000007997:2
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(33.8=47.9),PF134141=TPR_11=PU(23.5=33.3)
A:
NA
C2:
PF134141=TPR_11=PD(75.0=91.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACGTGTTGCAGCTGTGTTG
R:
CGAGCTCTCCACCTTCCCTAG
Band lengths:
171-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]