GgaINT0007642 @ galGal3
Intron Retention
Gene
ENSGALG00000023683 | TCTN2
Description
NA
Coordinates
chr15:4979826-4980394:-
Coord C1 exon
chr15:4980278-4980394
Coord A exon
chr15:4979900-4980277
Coord C2 exon
chr15:4979826-4979899
Length
378 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ACATTTTTATTTTGATACAGGAA
3' ss Score
8.86
Exon sequences
Seq C1 exon
CAGTTTTTCAGCCTTCCTTTATCCACATGTCTGGGCTAAGAGTTAATTCGTTTTTTCTTGGAGATTCTTCAGGAGTTAATTTTTACATTGTTGTAGGTGCTATAGATAAAGACACAG
Seq A exon
GTAAGAACACTTTATTTACATGCTATTTTGAAAAAAAAAATATTTGAATTCTCAGCTTTTTTTTTTCCTGCTGCTAAAATTACCCAAGTAACCGCAGTGCAGTTTGTAGAATCATCACAGGACCGTTTGAGTTGAGAGGGTCCCTCTGATGTCCCCATTCCCACCACCTGCAGCACACAGGGCCAGCAGCTCCGCCAGCCTCAGAGCCCGTCCTGCCCTGCCCTGCCCGTGTGTTCCATGCTTCAATAGTCACTGAGATCCGAACTCCGAAGGACTCTGTGCTCAGGCTGTGCCTCTGTGCTGACTCCGTGTTGTCTGGACTGAGGGATGTGCCTGCTTGAAGCCGTGTGAGACAGATACATTTTTATTTTGATACAG
Seq C2 exon
GAAATGTGCGAGTTCCAATCTGCAGTGGAAGTGAAAGAGTTGGTGATTGGGATTTGAGTGTAACACCTGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023683:ENSGALT00000005096:1
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:
NO
A:
NA
C2:
NO
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:
AGTTTTTCAGCCTTCCTTTATCCACA
R:
CGCATCAGGTGTTACACTCAA
Band lengths:
190-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]