GgaINT0125148 @ galGal3
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
NA
Coordinates
chr17:7383379-7384733:-
Coord C1 exon
chr17:7384635-7384733
Coord A exon
chr17:7383950-7384634
Coord C2 exon
chr17:7383379-7383949
Length
685 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
CCTCTTCCAATCCTTTTCAGATG
3' ss Score
10.91
Exon sequences
Seq C1 exon
ACACATCTGGTAGTAAAAGTTCAGTAACCTTAAGTGATCTTCCGGAGTTTTTAGGCGGTTTGTCTTTTGAAGATAGTGCTGAAAAGGACAGAGAAGAAG
Seq A exon
GTAACTTCTGTCATCCTTACATACATCTTAGCCAAAGAAGTATTTTTAATAGAAATATAAGATTCATGGCTTGTTCTGAGGCATCTTGCCCTGTATCAGGGTTGTTCTCCATGTTCTCTACAGTAGTTTTCATGTGGTTCAATCACTTCAAATACAACTGTTGTATATAAATAGTGAAAACAGTAAAATTTGCAAAGTTACTCTTCAGAAGGTTACTGAAGTGAGTATGATTTTGATGTAAAAAGCAAACTAGAAGATGTTTTAGCTGCTGTAATTCTGTGTTATCTTCAAAGCAAGTTGTTGGGGTTTTTTGTTTAAGGCATGTTTTTGTATTGCCCATTTTAATTCTGGGGTTTAAGTTTTTGAGGAAAAGTTGACCAATTTAAGAACTAGAGCTACTTAAAACAGAAGCAAATCATTCTTCTGCCTCAAAACCATGAGTTAGCTTGCACTTTTCAGTTCTGAAGCATGGTCTGGTTCTAATTTTACATTAGGACACCTTGCAGGATTTTTTCCCTGGTTATATTGAGAAGTCCAAGCATGGGTGAGGTAAATGGATGCCTAAGGGTGCTTTGAGAACTGGTTAGGATACAGCACAGGAACAGGAAAAAGTACACTGTTCAGAAACAAAGTATACTAAGCTGAGCTGGCAAGTAACTATGCTCCCTCTTCCAATCCTTTTCAG
Seq C2 exon
ATGCAATATCTAAAGAGATCTCTGAGATCACGACTGATGCTGAACACATGGTGCCTAGAGGAGGATTTGACTCTCCATTTTATCACACAAATGAAAATCTGTCAGGTTCTCAGAAGAAGACCCAGTCAGTAGTCTCTAGTGTGCAGGGACACAGTCTGACCTCTGAGCCTTTAACGTCTTCTCTGGACAAGCCTGGGCCTGAGAGTGCACTGGAGACACCCAAACAAACATTTACTCCCATAGACAAGCCCTGCGGAGGCTCTGGTGAAAGCCCTGCTGGTAACAGGGAAGGAACCTCTGGGGAGACAAGTATTCTCACTCCCAGCCCTTGCAAAGCATCAGCACAAGGAAGAGCAGTGTTTGGGAGTGGGCAGCCTCCCCTGTATGAGCACCTTTTTGAGGTTGCGCTACCAAAGACTGCCTACCTCTTTGTTGGCAAGAAGACTGAGGAGCTGCTAAAGAAAGCCAAGGGAACCCAGGATAAAGACTGCATGTCCTCTACTTCTCCTGTGGAAGTACTGGACAGACTGATACAGCAAGGGGCAGATGCACACACTAAGGAACTGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.842 A=NA C2=0.738
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(4.6=100)
A:
NA
C2:
PF043887=Hamartin=FE(26.3=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:
CTTCCGGAGTTTTTAGGCGGT
R:
TGTTACCAGCAGGGCTTTCAC
Band lengths:
346-1031
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]