GgaINT0125138 @ galGal4
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
tuberous sclerosis 1 [Source:HGNC Symbol;Acc:HGNC:12362]
Coordinates
chr17:6739753-6740658:-
Coord C1 exon
chr17:6740555-6740658
Coord A exon
chr17:6739906-6740554
Coord C2 exon
chr17:6739753-6739905
Length
649 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CTCTGCAAATCTTCCACCAGCAC
3' ss Score
5.77
Exon sequences
Seq C1 exon
ACCGTGGACCTATGCTTGTGAACAGCCTGGTAGACTATTACTTGGAAACCAATTCTCAGCAGGCACTGCATATACTGTCCACGTTGCAGGAGCCTCATGACAAG
Seq A exon
GTAAAAATAAAAGTAAAAAAATTGCTATTATGACAAATGTGAGCTTCATAATAAAAGAAACCTTGAAGTAACATCTGCTAGAATTCAGCTTTTAACTTATGATATATAATTACCTTGTAGAGATCCAGTATCTCTGTACTAAGAGCACTGTAGTGTTTTTTGTGGCTATTTTTCAGTCTTCTAGAGACTCCATTTTAAGGGTTGTTTAAACTGGCCAAGTTACTGGAATTTAAAACCTTGAGGAGTAATGTTGTCTCTTGGAAGTGCTACTGCAGCTTGTTCAGTGCTAGATTCCTTAGCCTGAAAAAAAATTGGGTATTTTGAGAGCAAGTAAACGTTCTTAAATAGTTTGAGTGGAGTGGAGGGCACTAGAAATGTTTATTATGGCTGACCAAATTATATCATATCATTGCCTCTATGTATATACATACATATATAAAAAATTATATCATATATATATATAATTTATATCATTTTAATGCTTGGATCTGTTGTTAGATCATGTGCATGCGTAAAGTGGCCTTAGTTTACATAACTGACAATAACAAACTGCTGAGTATGGGTTGGTGGAAAAGAACATATATGAGTTAAGCATTTAAGAAAAAAACAAAACTTCCATTTTTCTGCCACTCTGCAAATCTTCCACCAG
Seq C2 exon
CACCTTCTGGACAAAATTAATGAATATATGGGCAAAGCTGCTACTCGTTTACCCACTCTCTCGCTGCTGGGACATGTGATAAGGCGACAACCATCGTGGAAACATAAGCTTTCTCAAGCACCTCTCCTACTTTCATTACTTAAATGTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:2
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:
PF043887=Hamartin=FE(13.8=100)
A:
NA
C2:
PF043887=Hamartin=FE(10.9=100)
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:
ACCGTGGACCTATGCTTGTGA
R:
TAAGTAATGAAAGTAGGAGAGGTGCT
Band lengths:
246-895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]