DreINT0168629 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17279237-17279578:+
Coord C1 exon
chr21:17279237-17279310
Coord A exon
chr21:17279311-17279399
Coord C2 exon
chr21:17279400-17279578
Length
89 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
ATGGTCTCTTTTCTCCAAAGGTG
3' ss Score
10.13
Exon sequences
Seq C1 exon
CCCATGCTTGAACATGTCAGAATACATCCTGAATTAGTGACCGGAACCAAGGACCAAGAGCTTGACCCCAGCCG
Seq A exon
GTGAGACATTACTGACTCATCCCACTCATTGCAGTACATAAACCACAGTCATCAGCCTTCATCCCTCATATGGTCTCTTTTCTCCAAAG
Seq C2 exon
GTGGAAGAGATTCGAAATCCACGATATAGTTATCGAGTGTGCCAAAGTCTCTCTGGACCCAAAAGAGGCGTCCTGTGAAGAGGGCTATGCCAGCATGCCTGAGCATTTCTGTGCTCATCTACAACAACGTCCGGCTGATTGCACTGCCAGTCCGTATGGTGACTTCCACAGTAGCTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(3.2=100)
A:
NA
C2:
PF043887=Hamartin=FE(8.0=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:
CCAAGGACCAAGAGCTTGACC
R:
ATCAGCCGGACGTTGTTGTAG
Band lengths:
167-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]