GgaINT0125153 @ galGal4
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
tuberous sclerosis 1 [Source:HGNC Symbol;Acc:HGNC:12362]
Coordinates
chr17:6727545-6728294:-
Coord C1 exon
chr17:6728181-6728294
Coord A exon
chr17:6727668-6728180
Coord C2 exon
chr17:6727545-6727667
Length
513 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTAATTTCTCTTTTAAAAAGCTT
3' ss Score
5.93
Exon sequences
Seq C1 exon
CAGACCAAGCTGGAAGACTGCAGGAACATGATTGCAGATCTGAGGTTAGAATTGAAAAAGGCTAACAACAAAGTCTGTCACACAGAACTGCTTCTTAGCCAAGTTTCTCAAAAG
Seq A exon
GTAAGAGAAGTCACAGATTCCAGGGTCCCTTTGTCTTTTTTTTTTTAAACTTTTGATTATTTCAATTGAGAGCTTTTTCTTTCTTGTTCTGAAATCCTAGATTCATAGAATGTGATATTCATTGCGCAAAAAAACAACACAAGTATATTGTGGTGATGAAATTCTAAACAGTTAAAGACTGTTGAAACTTCTCATTTTGGCTGCTTTTCACGCAGTAGGAATTCACAGACTGAGCAACATAAACTTAAAGTTCTGCTAAATCTGGGCATTAGAGGGATCTTGTTGAAGTTAAGTGGGCTTTTCATCCAAATGGAAACATGGTTAAAGAAAACAATGCCAGTGTGGTGGAAGCCTGTATGATTTGTCACTAACTTTATGAAAAGTCATTTCTTTAGCACCTATGACCTTTGTCTTTTTTAATAAAAACACCCTGTGAGCAGTGCTGGCCAACTGTGACTCTTGCTGAAATGTTACATGCAGTGTTTAATTCTGTTTAATTTCTCTTTTAAAAAG
Seq C2 exon
CTTTCCAACAGTGAATCAGTGCAACAGCAGATGGAGTTCTTGAACAGACAACTTCTGGTTCTTGGAGAGGTCAATGAGTTGTACCTGGAGCAGCTGCAGCACAAGCACACAGACACTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:17
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=0.049
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGACCAAGCTGGAAGACTGC
R:
AGTGTCTGTGTGCTTGTGCTG
Band lengths:
231-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]