GgaINT0125145 @ galGal3
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
NA
Coordinates
chr17:7386420-7387040:-
Coord C1 exon
chr17:7386917-7387040
Coord A exon
chr17:7386533-7386916
Coord C2 exon
chr17:7386420-7386532
Length
384 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGT
5' ss Score
9.57
3' ss Seq
GTTTTGCTCCCACTTTTCAGCAG
3' ss Score
7.08
Exon sequences
Seq C1 exon
GTTACCATCTGGAGTCCTTCTGCAGTTTGTGGTATGACCACTCCACCAACCTCCCCTGGAATTGTCCCATCAGAGTCATCCCAGTCAACATCACAACCTTACAGCAAAGCTTTTGGCACATCTG
Seq A exon
GTACGTTCTGTGTTTTTGAATTAGGCCCTGAGGATTTATTAAAATAGAAACTCTGACTATAAATTTTGCTGTCAGCTTCATAAATTGGAACTGCAGCACTTTGCTATTTGATAGGCTTGAGCCATTAATTCTGTGAACAGATACCAGGTCATCCAGAGTAGTACTAGTGCAAATACTGAGAGAGGAAATAAATTCCAGTGAATTGAGTGCCCGAGTCTGAAATAGGTCCATTGGAAACTCTGCACTCTTATCTTGGTAAACAGTTGAGGGAGATCTAAGAAGTGGTTGAGATACTGTTTAAACACACAATTCTTCACATACAATATTCAGCTGAAATGAGGAAATGGGAACCTTACTGAGAAAAGTTTTGCTCCCACTTTTCAG
Seq C2 exon
CAGTGGGGAAGGGAACACCTTTGGGGACACCAGCCACATCTCCTCCACCCTGCACTTCAGATGACTTTGTGCATGTCTCACTTCCTTCAGCTGCTGCCACACCTCCTAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.845 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(5.7=100)
A:
NA
C2:
PF043887=Hamartin=FE(5.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATCTGGAGTCCTTCTGCA
R:
TTTTAGGAGGTGTGGCAGCAG
Band lengths:
232-616
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]