GgaINT0125150 @ galGal3
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
NA
Coordinates
chr17:7381171-7381498:-
Coord C1 exon
chr17:7381455-7381498
Coord A exon
chr17:7381338-7381454
Coord C2 exon
chr17:7381171-7381337
Length
117 bp
Sequences
Splice sites
5' ss Seq
GAGGTGACG
5' ss Score
5.93
3' ss Seq
GTCTTGTAACTCCAACCCAGGTT
3' ss Score
3.97
Exon sequences
Seq C1 exon
ATTGTCTCTGCCAAGCAAATCTGCTGACTGGACTCACTTTGGAG
Seq A exon
GTGACGATGTTTCTTATGTTTTGGCAATCTGTTCCTCTATTATTAGACTTGTTTAAACAATGACCTGCTACTGACTTGGGTGTGTGTGTTCATCTCTGTCTTGTAACTCCAACCCAG
Seq C2 exon
GTTCTCCCCCTTCAGATGAGATTCACACCCTGCGTAACCAATTGCTGTTGCTGCACAACCAGTTGCTGTATGAACGCTTCAAAAGACAGCAGCATGCCCTTCGGAACCGGCGGCTCTTGCGGAAAGTGATTAAAGCCACAGCACTGGAGGAACATAATGCTGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.562 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(2.1=100)
A:
NA
C2:
PF043887=Hamartin=PD(5.3=67.9)
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:
TTGTCTCTGCCAAGCAAATCTG
R:
CATGGCAGCATTATGTTCCTCCA
Band lengths:
210-327
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]