GgaINT0125152 @ galGal3
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
NA
Coordinates
chr17:7379701-7380368:-
Coord C1 exon
chr17:7380186-7380368
Coord A exon
chr17:7379815-7380185
Coord C2 exon
chr17:7379701-7379814
Length
371 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
GCGAGTTCTTTTTGTTTGAGCAG
3' ss Score
-1.1
Exon sequences
Seq C1 exon
AAAGATCAGCTGAAATTACAGGAAAAAGAAATCCAGGCCTTGAAACTGAGTCTGCAGAAAGAACAGGCCAGGTACCACCAGTTTCAGGAGGAGCACGAAGGGATAGTGGCTCAGCTTCACAGCCAGATCAGACAGCTGCAACATGACCGTGAGGAATTCTACAACCAGAGCCAGGAATTGCAG
Seq A exon
GTATGAAGCAGAACACTGAACAATATTGTGTTATCTCCTTACTGTGGCTTTAAAAATAACCTTCCCAATGACATGGCATGAAATACCTAAGAGAAATTTATTATCTTTTTTGGATATATTGTCCTAATTTGGAATAAGACAAAGCTTAGTTGGAAATGCCTGGCTAAACAGTCATTGTCCATTTGCAGTCCTGTTTTATTCTGTCTTGTATTTGGAAATAGGAAGATGCAGTTTCTTAGCTGGTGCTGAGACTTTCGCAAGTGCTCTACATAACTTGACTTACAGCCCTGGTGGTTCTGGCCTTTCAGCCATATAGCACTGCTGGTCCTTGCTGAAGTTTCAGAACCCTGAGCGAGTTCTTTTTGTTTGAG
Seq C2 exon
CAGACCAAGCTGGAAGACTGCAGGAACATGATTGCAGATCTGAGGTTAGAATTGAAAAAGGCTAACAACAAAGTCTGTCACACAGAACTGCTTCTTAGCCAAGTTTCTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
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:
AAGATCAGCTGAAATTACAGGAAAA
R:
AAGAAGCAGTTCTGTGTGACAG
Band lengths:
278-649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]