GgaINT0125151 @ galGal3
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
NA
Coordinates
chr17:7380186-7381337:-
Coord C1 exon
chr17:7381171-7381337
Coord A exon
chr17:7380369-7381170
Coord C2 exon
chr17:7380186-7380368
Length
802 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
TTGTATGGGGTTCTTAACAGAAA
3' ss Score
6.93
Exon sequences
Seq C1 exon
GTTCTCCCCCTTCAGATGAGATTCACACCCTGCGTAACCAATTGCTGTTGCTGCACAACCAGTTGCTGTATGAACGCTTCAAAAGACAGCAGCATGCCCTTCGGAACCGGCGGCTCTTGCGGAAAGTGATTAAAGCCACAGCACTGGAGGAACATAATGCTGCCATG
Seq A exon
GTGAGGAGGGATACAAATCTAGCAGTGATCCAAATGCACTAGAGCTAAGAACAAGTGTTAATTGGCTTGGCCAGCAGCTTTCTGTACCACTGAATTAAAGAAGCCTAGTATCTCACCTTACTCAAGTCGGTGTTTGTGGAATGACACATGAATGAATTGCATGTGCTGTGATTATTTCTATTGACTGTAAGTGACTGAATCAGTGGATGACTGCATGCTTAACCTTTGCAAGCAGTTACTTTTGTTAAAGGCTTCACAGTTAGTATAGGGGTTACTTAATGCTCCTCGATTAAAGAGAGGAAAAATAAAAACTGTTGGAAAACTCAGATGTTCTTTGAGTTATTTACTATGATGAAATTCCAAGTTGTAAGCGCATTGAAGAATGTTTAATTCTGTACCTCCATATTGTAGCTACTTCCATTTACAATTTCACTTTTCAATAAATAATTTAAGAGTGAAAAAGAGCTTTCCAAATCAGTTTTGGAAAATGAAGTATAGCTTCCACTCTGAAGTTTAAGTCCCCATCAAAAATGTGATGGGGAGGAACATGCTATTGCTCACTGTGCCTTTGAGTGTGACTTTGAGTTATCATCCAGTTCACTGTAGCACCATTTACTCTCTTTTTAAGTTGAAGAAACCCCACAAAACCGTACATTACACAGAATGTTCTGTGTATGGAAAAGTGTTCAGCCTGCATGCTGTTAATTAATGTTATTGCTTTACTTAGCTAGTGACACTGAATAGATGTTCTAACTAATAAATCAGATGTCTTGTCTAATGCTTTGTATGGGGTTCTTAACAG
Seq C2 exon
AAAGATCAGCTGAAATTACAGGAAAAAGAAATCCAGGCCTTGAAACTGAGTCTGCAGAAAGAACAGGCCAGGTACCACCAGTTTCAGGAGGAGCACGAAGGGATAGTGGCTCAGCTTCACAGCCAGATCAGACAGCTGCAACATGACCGTGAGGAATTCTACAACCAGAGCCAGGAATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF043887=Hamartin=PD(5.3=67.9)
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:
TCCCCCTTCAGATGAGATTCACA
R:
CTGCAATTCCTGGCTCTGGTT
Band lengths:
346-1148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]