GgaINT0125146 @ galGal4
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
tuberous sclerosis 1 [Source:HGNC Symbol;Acc:HGNC:12362]
Coordinates
chr17:6733287-6733802:-
Coord C1 exon
chr17:6733690-6733802
Coord A exon
chr17:6733360-6733689
Coord C2 exon
chr17:6733287-6733359
Length
330 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAA
5' ss Score
6.82
3' ss Seq
TTGTGTTTCTTTTCTAACAGGAG
3' ss Score
10.45
Exon sequences
Seq C1 exon
CAGTGGGGAAGGGAACACCTTTGGGGACACCAGCCACATCTCCTCCACCCTGCACTTCAGATGACTTTGTGCATGTCTCACTTCCTTCAGCTGCTGCCACACCTCCTAAAAAG
Seq A exon
GTACAATGAAATTCTTCTGCCAGATGAATATGATTTGTCATTGACTGATTATACATGCAGTGACAGTAATTGAGAAAGGAAATCAAAGTAACGGATTTAGTATTGTATTTTATAGCAAAACCCCAATTTCATCTAAGGTTAGAAAACTTTTGCCGTTTCCAATTACACATTTTTGTGTGATCGTTTTACACAGAACTGTTGTGTTGCTTTGCTATTTAAGGTATCTATCTGCAGGAATTTCCTTTCCATGAAACTATCCAAGAGATTTGTTTCCCACAGATATCTGATGCAAGGAATCTGTATGCCTGTTTTGTGTTTCTTTTCTAACAG
Seq C2 exon
GAGGACAAACCAGATTCTGGGAGGCCTTCACTGTACCGACAGCAAAATGTCATAAGCAGCGATAAATCATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.840
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(5.1=100)
A:
NA
C2:
PF043887=Hamartin=FE(3.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGGGGAAGGGAACACC
R:
CCAATGATTTATCGCTGCTTATGACA
Band lengths:
186-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]