DreINT0168618 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17295953-17297294:+
Coord C1 exon
chr21:17295953-17296119
Coord A exon
chr21:17296120-17297111
Coord C2 exon
chr21:17297112-17297294
Length
992 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
CTGTGTATTTGTTTCTACAGAAG
3' ss Score
8.97
Exon sequences
Seq C1 exon
GTTCAGCTCCTCTGGATGAGTTGCACACACTGCGCAGTCAGCTTCTGCTTCTACACAACCAGCTCCTGTATGAGCGCTATAAGCGAGAGCAGCACGCCGTTCGCAACCGACGTCTGCTTAGGCGAATCATCAACGCCACTGCACTCGAGGAGCAGAATAATGCTATG
Seq A exon
GTAATTTCAATAAAAAATTATTGATTTTCAGACTACATTTACACTAGAATCACTAGGTGTTTCTCAACCACATTCCTGGAGGACCACTGCATGTTTTGGATGTCTCCTTTGGCTGTCACACCCATTACAGGTCTTTCAGTCTCTGCTAATCAGCTGAAGATCTGAATCAGGTGTGTTTGGTTAAGGAAACATGGAAACTGTGCAGAGCTGGTGATCCTCCGGAAATGTGGTTGAGATACACTGCCTTAAAAGAACACTCCAGTTTTTTGGAAATAGGCTCATTTTAAAGACCTCTAGAGTTAAACAGTTGAGTTTTTCCATTTTTTAATCGATTCAGGTGATCTCTGAGTCACTTTTACCTTAGCTTAGCATAAGTCATTGAATAGGATTGTACCATTATCTTCTCGCTCACAAAATTCGAAAGAGTTCTGACAAGTTTTCTATTTAAAGCTTGACTATTCTGTAATTACAATGCGTACTAAGTCAAGCTTTAAATGGGAAACTTGTCAGAACTCTTTTTTTTAATTTTGTGAGGGAGATTCTAATGGTCTAATTCGATTCAAAAGTTTATACTAAGCTAAGCTAAAAATGCTTCTGTCACACCCAGAGATAAGCTGAATTAATATAAAAATTGTAAAACTCAGCTATTTAATTCCAAAGGACATGCAAAATAAGCATATTTCTATTAAAAATGAAAGTGTTCCTTGAAACTGTCAGTGGGTAAAATTTGACCTGTTTATATGGTTGAAAAACACACCATGCCATTGTCTTTACAACGTAATGCCTGGAGTCATGAAATGATTATATTTAGCCCGCAGACACACCATTAATCATGGCATTTAATCCATTATTTTCATTAAAAAAAATAAAAATAGTTCCTTTTTTTTAGTTAAGCAATGTTTGGTGGCAAAATGCTTTCACTATTGTTGACCACTAGAAGGCGTCAGATACCAATGGTGTTGATATGTGTATCTGTGTATTTGTTTCTACAG
Seq C2 exon
AAGGACCAGCTGAACCTGCAAAGTGTGGACATCTTGTCTTTGAGAGAGAGCCTTCAGGTGGAGCAGCAGAGATACCGGCAGCTCTGGGACGACCGAGAGACTGTAGTTACACGCCTGCACAGCCAGATACGACAACTGCAGCAAGCCAGGGATGACTACTACACTAAAAACCAGGAGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=PD(5.0=67.9)
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:
CAGCTCCTCTGGATGAGTTGC
R:
ACTCCTGGTTTTTAGTGTAGTAGTCA
Band lengths:
342-1334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]