DreINT0168627 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17277123-17277550:+
Coord C1 exon
chr21:17277123-17277267
Coord A exon
chr21:17277268-17277395
Coord C2 exon
chr21:17277396-17277550
Length
128 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGTATGATCTCTGCTCACAGGAC
3' ss Score
8.96
Exon sequences
Seq C1 exon
ACAGACACAGATGTTGTGGTTCTGATAACTGGAGTCCTGGTGCTCATCACACTTTTACCCATGATTCCTCAAGCTGGCAAGCAACATCTCTATGAGTTTTTTGATATCTTTGGACGTCTGGCGTCTTGGAACCTAAGAAACCCAG
Seq A exon
GTATGAATAAATTACTGACTCTGAAGCTTCTGCATCAGTTTAGTCTTCAAGTCAAATCAGAAAAGTAAGTATGAGGCCTCTTAATGTTTAGAGTAGATGTTAATAAGCTGTATGATCTCTGCTCACAG
Seq C2 exon
GACATGTACCAGAGGTTTATCTCATCCATCTGCACGCAAGCGTTTATTCACTTTTCCACCGGCTGTATGGGATGTACCCCTGCAATTTTGTTTCATACCTTCGCTCCCATTACAGTATGAAGGAGAACATGGATACTTTTGAGGAGGTGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:5
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(6.4=100)
A:
NA
C2:
PF043887=Hamartin=FE(6.8=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:
AACTGGAGTCCTGGTGCTCAT
R:
CCTTCATACTGTAATGGGAGCGA
Band lengths:
242-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]