GgaINT0007645 @ galGal3
Intron Retention
Gene
ENSGALG00000023683 | TCTN2
Description
NA
Coordinates
chr15:4978541-4979087:-
Coord C1 exon
chr15:4978987-4979087
Coord A exon
chr15:4978738-4978986
Coord C2 exon
chr15:4978541-4978737
Length
249 bp
Sequences
Splice sites
5' ss Seq
CCGGTATTT
5' ss Score
4.59
3' ss Seq
GATGTTGTTTTCCCTTCCAGGAG
3' ss Score
11.57
Exon sequences
Seq C1 exon
AAGACATGTCTGTCATCCCTAACCAGGTGTTTCAGCCCTTGGGCTCATGTCCTTGTGACTTGACTGATGGAGCTTGTGATGTTCGTTGTTGCTGTGATCCG
Seq A exon
GTATTTATTTCATATTAAACTTCGATGAAACATTTTCAAAATTTCTACTCTCCTTCTATTGTCTGGAGAGAGAGAGAGAGAGAGAATTATTGAGTATTTCAAACTAGCAGGAGGGTTTGCCTGGGTTTTCTGGTATTTCTAATAGTAAATATGACATCTGTCTACAGAGCTATCATGGTTACCTGCAAATATAGCAGTAGTGGCTGTGGTAGTGCAATTACTGCACTAAGATGTTGTTTTCCCTTCCAG
Seq C2 exon
GAGTGTACACCAGACTTGAAGCAGTTATTCGATGGATTGTGTTTCAGTGGAGTGTTTGGTGGGGATGTAAACCCACCTTTTGATCAGCTGTGCTCTACACAGACAACAGAATATACTCCCGATTGGTTTCCCCTCCTTTGTGTACAGTCTTCTCTTAACAATACACCATTTCTTGGCTATTTTTATGATGGCTCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023683:ENSGALT00000005096:4
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:
PF077736=DUF1619=PU(6.3=50.0)
A:
NA
C2:
PF077736=DUF1619=FE(24.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTCTGTCATCCCTAACCAGG
R:
AGAGCCATCATAAAAATAGCCAAGA
Band lengths:
292-541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]