GgaINT0125140 @ galGal4
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
tuberous sclerosis 1 [Source:HGNC Symbol;Acc:HGNC:12362]
Coordinates
chr17:6737145-6738461:-
Coord C1 exon
chr17:6738317-6738461
Coord A exon
chr17:6737300-6738316
Coord C2 exon
chr17:6737145-6737299
Length
1017 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AATACAACTACTTTTTCCAGGTC
3' ss Score
6.19
Exon sequences
Seq C1 exon
ACTGACACAGATGTAGTAGTACTCACCACAGGTGTCCTAGTGCTAATAACCATGTTGCCAATGATTCCTCAGTCTGGCAAACAGTACCTCCATGATTTCTTTGGTATCTTTGGGCGTCTCTCAGCCTGGTGCTTGCAGAATCCAG
Seq A exon
GTGAGATTTCAGTTTGGTTGCATGCAGTTGCAATGTAGCAGTATCCTTGAGATTCTTACACACTTCCTTTTGTGAGATTCCTAATGGTTTCAGATGATTTAAATGGAGAAAATGTTGTAGCTCACAAGGTATGCTGTTCTTTGAAAGCATTGGGCTGTACATCTTTACTCAAAAATTAGAAGCCTTAGATTCTTTAGTGTGATGCTGCTATTACATGAAGTGTCATTGGTCAGAATTGCTACGTTGATGGCAGTGGAAAAAGCAGTTTTATTTATGTTAATTGAGAAGGAAAAACTTTTAATATTTGAGGTAGATATTTGGGAGTTTGAGATTCCTAGGTATGGATAGGTAGGAGAGTGAAACAACATGCGTGAGTTTATTTTAATATGCAACTATCAATAGTATTGAAATGTCATCAAACCTAGCCTTCTTGGTAGCAACATTGGTTTTGCAGAAATCTTAAGTTATCTGAGATGTAACACTATGGTTACGTATGTATGTCTTAGGGATGTGTGAATGAAGGCTGGGTTAAGCACACAAAGGTACTGTTCAGAGGGCCATTTGACACTGGCAGTTAAGATTGGAAGTTATAGGAGGAAAGATGGCTGGTAAGGGTCGAGTCAGAATGCTTTGTGTAGAGACAAGCTTTTGGTTTTTACTTTTGAAGTGAAGCATACCTTGTCTTTTTTTAATCACTTAGTCTTGCAAACTGTCTTACTACCTAGAGTGGTTTCAACCTCTTAATTTGGATAGAAGGGACTGTACTTTAGGGACAAATTCCAACCAGCGTCCTTTAATTTTTAATAGTCTATATCTGTTTTTTGTGTTAGCTGTGATTGGATGAGTGAGTATTTGCTTGTTCACTCAGAAGATTACACAGCTTTGCTAGGGAATGTTCATAACTCAGAAGACTTTTTCCAGTTAGCATTTCAAATTTAAAAGCACTTTGCTTGCCTTCTTGAAGTGTTGTTCTTTACTCCAATGTACTGAAAAAAAAAATACAACTACTTTTTCCAG
Seq C2 exon
GTCACGTGGCAGAGATTTACCTTGTCCATCTTCATGCCAGTGTTTATGCTCTCTTTCATCGGCTTTATGGAATGTATCCTTGCAATTTTGTCTCCTTTCTGCGTTCTCACTACAGTATGAAGGAAAACTTGGAGACCTTTGAAGAGGTAGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:4
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(10.5=100)
A:
NA
C2:
PF043887=Hamartin=FE(11.1=100)
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:
ACACAGATGTAGTAGTACTCACCACA
R:
CCTCTTCAAAGGTCTCCAAGT
Band lengths:
288-1305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]