GgaINT0125147 @ galGal4
Intron Retention
Gene
ENSGALG00000003500 | TSC1
Description
tuberous sclerosis 1 [Source:HGNC Symbol;Acc:HGNC:12362]
Coordinates
chr17:6731905-6733359:-
Coord C1 exon
chr17:6733287-6733359
Coord A exon
chr17:6732004-6733286
Coord C2 exon
chr17:6731905-6732003
Length
1283 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAAC
5' ss Score
3.32
3' ss Seq
TTTCTCTTTCTTTTTTTCAGACA
3' ss Score
11.58
Exon sequences
Seq C1 exon
GAGGACAAACCAGATTCTGGGAGGCCTTCACTGTACCGACAGCAAAATGTCATAAGCAGCGATAAATCATTGG
Seq A exon
GTAAACTCCAATTTCCTCTCCCCATTTTCCATAACCTATGTTAGACAAATCTTGGTTTTGTGGACACATTCCAACTACTGAACACTTTTCCACAGGTTTTTTCTCTTTTTCTCTCCCCTGAATTCTTCATAGTTCCAGGATCCTGCCTTAACTGTGATTCAGCCTAAAACCTTCCTGTGATGCTTTTCATTTCATTTTAACTATTCACCTTCAGAAATAGCTTGCAGATTTTTTTTTAACTGGCCCTCTTACATTCTTACACCCATCTAAATATGCATATCAACACTGAAAGCTGGAAAAGGATTTTAAAAAAGCTGATGCTTTGAGGGTTTTTTTTTTAGAAGCAACAAATTTGAAGCTTTTACTTGAACAACTTTTATGTCGTGTGCAGCCTTACAATTTGATCCAGACTTAAGGATAGATGCTTCTTTTTAAAGGCTTTTGGAAAAACTTTGTTTGCTATCTACAATTGTATTGCTGTACTTGAACCTTTTTTTTAAAGTCCTGTGGAATGTTGAAAGCAACAGTGGCTGGTTGAGGAACTCAGCTTCTAATAGGTAAATCTAGATTTCCTTTTCCATTCTCTATCATCTACATCTGTGACAGCTGTAAAAAGGAATTTTGACTCTATTTGAGATTTCTATGCTGTACTTCTATACTGTCCTCAGGGTGGAGATGGTAATGAAGCTTAAGCTCATTTTCCTGGTGAGGTTGTAACGGCAACCCTGGAATCTGAACTTCCTGAACTACAAGTGAAGACCATGCTAGGTTCTTCACTGGGTTCATAATCTGTGACTGAGCTGTGAGCATGAGGTTTCTATCTTGTACAGTTTCGTGTGTGTATTCCTGGCAGTTATCTCGGAGTTTTGATCAATAGTGTAATAATACATCAGTTTACTGTACCTCCTTCTCTCAGGGAGTAAGTACTGTGACTGAGTAGCCACGTCAGAAGCCAAGAGGGAGTTCAAAGCTAACGTGGAAGTGTAATAGTCACACTACGTTTTGGGTGCTTTTCTAACTTTTATAATGGGTTCGGTTGAATCCTTATTGGTAGAAGAGGCCACCTGCAGTAGCAGGTGTTGAGTTTACAAAAAGAAATTTCTGGATCAGGAGAAATGTGTGACTAGACTCTGAACTGGTTTCCACACGAAGGGATGCTTCCTTAAGACAGGGGTGCATTTAATCAAAGGTCCTTACAGCAGTAAAAGGCTCCTGTTTTGTGCTCTGATGAGAGTAGACAAGACAACATCTGTACAACTAGCTTTTCTCTTTCTTTTTTTCAG
Seq C2 exon
ACACATCTGGTAGTAAAAGTTCAGTAACCTTAAGTGATCTTCCGGAGTTTTTAGGCGGTTTGTCTTTTGAAGATAGTGCTGAAAAGGACAGAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003500:ENSGALT00000005537:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.840 A=NA C2=0.842
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(3.3=100)
A:
NA
C2:
PF043887=Hamartin=FE(4.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]