DreINT0168623 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17298936-17299416:+
Coord C1 exon
chr21:17298936-17299123
Coord A exon
chr21:17299124-17299242
Coord C2 exon
chr21:17299243-17299416
Length
119 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGA
5' ss Score
1.43
3' ss Seq
CTTGTTTGTCTTTTGCTCAGAGG
3' ss Score
6.13
Exon sequences
Seq C1 exon
GAGGTGCAGATGTTGCAGACGTCTTGGGGGAAGGAGACGGAGCGTCTGAAACAGAATCTGTTACTTCAGAGCCAAAAGCTGGACGCGGCTCAGCAGAGAGTGGCGGAGCTGGAGACTCAGCTCTCTAAGAAGGAGCACCTGATCGCAGAACAAAAGAAGTTTTTGGAAGATGTCAAGGCTCAGGCTAA
Seq A exon
GTATGATCTGAATTGAAGGTCTTTGTACCGTACAGACAACTTGACTCTTGGAAACATAAAATACCTTGTTGGTACTGCTAATGTATGAATTGAGTCGGTCTTGTTTGTCTTTTGCTCAG
Seq C2 exon
AGGGGAGCTGCAAGCTTCTGAGAGCAGGTATCAGGCACAGAGGAGAGTGACTCTGGCTCTGCAGACTGAGCTTCTGCAGCTCTATAGCAGGCTGGAAACAGAAGATTCTTCTGCTGCTGATTCGGCCTTACAGGCAGAGGGTGTTACTGAGCCTTGCATTACCACTGAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.542
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GATGTTGCAGACGTCTTGGGG
R:
TGCAGAGCCAGAGTCACTCTC
Band lengths:
243-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]