DreINT0168604 @ danRer10
Intron Retention
Gene
ENSDARG00000026048 | tsc1a
Description
tuberous sclerosis 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9111]
Coordinates
chr5:29055333-29055710:+
Coord C1 exon
chr5:29055333-29055436
Coord A exon
chr5:29055437-29055557
Coord C2 exon
chr5:29055558-29055710
Length
121 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTGTGTGTTTTTTTCTGTAGTAT
3' ss Score
8.93
Exon sequences
Seq C1 exon
ATAAAGGGACCATGTTGCTGAATAGCCTTGTAGACTATTTCCTTCAGACAAACTCATCTCAAGCTGTGGACATCCTGTCTTCTGTCCGGGAGCCTCATGATAAG
Seq A exon
GTGAGGAAAATGTTCACCATTAGAAGTATTCTTTAGCTGAATAATGTCATCCTGGATTTCAGAACATCTGTGACTGATGAATAATGGACTATTTTTTATTTGTGTGTGTTTTTTTCTGTAG
Seq C2 exon
TATCTTTTAGATAAGATGAATGAATGCATGGGCAAGCAGAGCTGTCGTCTCTCCACCATCACCCTCCTTGGTCATGTTGTTCGCAAACAGCCACCATGGATCCACAAGATCGCACGCTTCCCTCTGCTTGTCTCGCTGCTCAAATGCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026048:ENSDART00000035400:3
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(11.4=100)
A:
NA
C2:
PF043887=Hamartin=FE(16.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGGGACCATGTTGCTGAAT
R:
ATTTGAGCAGCGAGACAAGCA
Band lengths:
247-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]