GgaINT0125139 @ galGal3
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
NA
Coordinates
chr17:7391059-7392647:-
Coord C1 exon
chr17:7392495-7392647
Coord A exon
chr17:7391204-7392494
Coord C2 exon
chr17:7391059-7391203
Length
1291 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
AGTTTTTTCCCTTCTTGCAGACT
3' ss Score
10.24
Exon sequences
Seq C1 exon
CACCTTCTGGACAAAATTAATGAATATATGGGCAAAGCTGCTACTCGTTTACCCACTCTCTCGCTGCTGGGACATGTGATAAGGCGACAACCATCGTGGAAACATAAGCTTTCTCAAGCACCTCTCCTACTTTCATTACTTAAATGTCTCAAG
Seq A exon
GTAAGAACTGTCACTCTTGTCCACTGAAACACTTGCACACCTCAGGTAAACGTGCATACTTGCAATGCAAGGTATTTTTCTGCTTTGATATCATTTAGTTAAGCTGTGAGAAGAGATGCTAATTAAAATATAGAGTTTAAAAATTTCAACTGAATACTTCTCCTTAAAGAAAGCACTGCAGAACTTTGTGTTAGAAAAGTTCACCAAAACTCTTTTTTTTTTGGTGTTTTTTTTTTCCCTGTGTCAGAGATTGAGAGCTATTGGCAAAGCTGATGGATACCTTGAATGTGAACTTAATAAGAAGTAAAATAACTTTTCACTAGTGCATTCTGAAATGTATACCACTCTCCAATGTATTCCACTTTCCACAGCATAAGTGAGCCAAACAGTAGCAGACGAACTGCTAAGGAAAACATGCGTTGAATTGGGGGAGCAAGTAGGTACTGCACAGGGAAAGAGTCTGAATGTGTCCTGGTCGTGCTTTAAAATGTGGTTCTTTATTGTATCTAGTTAAAGATTTTTACTCCCACAGCCCTTTTTCTCAGTATAAGCCATAGAGTTCTGATAATTGAGTTACTGCTTTTTGGAATATTTAGCAACTGGAGTCATCAACCAGGCATTGTTTATGCTTGCATGCCATACAGCAATGCCACCCTCAAGTCTCAGTGTTTCAACTGTACTGGTTTTTTTGTTGAACATTGGAAGACTCTGAAAGTGTGAGAAGCTAGCTTTTGATTTAGTGAAGATTTAAAAGACGCAACTTATATAATTTATCATGCAAATGGTTTATCCTGCAAACTTACTGGGCACTGTCACAGGTAACTTGTTTGCAGGAATTCAGATCTAGTAGAAAATCTTCTGACCTTTGTGTTGGTAGTTGGCCAACATCCCTGAATACTCTGGTCAGGTTTACCATTTTTTAGATGCTGAGTGCAGTGTGCTTGGCTCTGGGGAAAAAAGGCAGTACATAAGATGCTTCACATACCAGTGACTTTTTTTTCCCCTACTTAATTGATGGAATTGTGGTGATGCTCCATTCTTAAGTGAAGGTGTTTTCAACAGAAAAGCAGCAGGCAAGTGACAGGTTAAGAACAAGAATTTAAAATATTTCTTAAATGTATTATGGATGAAAGAGACAATAACCTTTGTCCATAACCTTAAGTTATGGAATGTTTTGAAGAGATTGTTTCAATCTAGAGGACCTTTTTCATGATGATGATTCCAGCATTCACTTCATCCTTGGAAAAAACTACCTCTAGTCAACTAATGCAAGTTTTTTCCCTTCTTGCAG
Seq C2 exon
ACTGACACAGATGTAGTAGTACTCACCACAGGTGTCCTAGTGCTAATAACCATGTTGCCAATGATTCCTCAGTCTGGCAAACAGTACCTCCATGATTTCTTTGGTATCTTTGGGCGTCTCTCAGCCTGGTGCTTGCAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:3
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(10.9=100)
A:
NA
C2:
PF043887=Hamartin=FE(10.5=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:
GCTGCTACTCGTTTACCCACT
R:
CTGGATTCTGCAAGCACCAGG
Band lengths:
262-1553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]