GgaINT0123991 @ galGal3
Intron Retention
Gene
ENSGALG00000004992 | TTC16
Description
NA
Coordinates
chr17:5558005-5558878:-
Coord C1 exon
chr17:5558713-5558878
Coord A exon
chr17:5558147-5558712
Coord C2 exon
chr17:5558005-5558146
Length
566 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
TTGCCTTATTGCCACTGCAGATC
3' ss Score
7.78
Exon sequences
Seq C1 exon
GCGGTTCCTGGAGGCAGAAGCTTGTTTTTCTATGGCCATTGAGCATGACCCCCGAGGAGCGCTGTACTACCTGTGTCGTGCCATGGCCAAGCGGTGCCTAGGGAAGGTGGAGAGCTCGAGGGAGGATGTCGCACTCGGTCTGCGGCTCAGCCCCACAGATAGCAAG
Seq A exon
GTACAGCCCTGCTGCTGCTGCTCTGTGCCCTCCTCAGGCAATGGGCAGCATTCCTGGCTCACTGGCTCAGCTGCAGGCTCTGTGCCTGATGGTTAGGTGGTTTCTGTTCTGCATCAGGGCCACCTGCAGGGATCAAGAAGCATGAGCTGGGGGACCTGCTTGGCTACAGGCCCAAGCCAAGTAGCGATGGTTATATGCTGGCTTTTACAACAGTTTGGTGTTAGAGTCAGTGGGCAGATCATCTTTTCCTGCTTATTCTCACTTTCCTGTTTCTTTAAATCTAATCCAGAGCAGAAGCCCTTCTGCAGCTGACTGCGGTAAGGGGAGAGTATCCCTACACTGCTGTCCCCAAGCATTGCACTGTTGTAGAAGCATGGTTCAGTAGAGCTGGGATTTCTTTACAAAATCAAAACTAAGCAGGCTCCCTATCAGAGCAGGTCCTGGTGAGGCTGGCGGTGTTTGGCTGCAGCAGGGGAAACCTGTGGTACAGAGGTCATCGCAGGGAAGTTTTTCTGTGAGTACTGACGTGTCGAGGATGTTCAGGTCTTGCCTTATTGCCACTGCAG
Seq C2 exon
ATCCTTTCCCTTGCACACCTCCTCTTTCCAAGAAAGACTGTCCAGGCTATCCTGAGGAGCTTTGCCCGACAAACCTTGGATGAAACACTTCAGAGTCCTCCAAGACTTCCATATGATGATGCCTGATGGACAGAAGCAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004992:ENSGALT00000007997:3
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=0.147
Domain overlap (PFAM):
C1:
PF134141=TPR_11=PD(75.0=91.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCCTGGAGGCAGAAGCTTG
R:
CTGCTTCTGTCCATCAGGCAT
Band lengths:
302-868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]