DreINT0168620 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17298126-17298841:+
Coord C1 exon
chr21:17298126-17298236
Coord A exon
chr21:17298237-17298718
Coord C2 exon
chr21:17298719-17298841
Length
482 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TCCTACTTTGTTTTCCTCAGTTG
3' ss Score
8.98
Exon sequences
Seq C1 exon
AGCAAGCTTCAAGAATGCCAGAAGCGAATAGGAGAGATGGAGGCGGAGCTTCAGAAGGCCAATAATGAGGTGTGCCACACAGGACACCTGCTGAACCAGCTTACTGCCAAG
Seq A exon
GTAAAAATAATCACTCAGAAAACAGCCTGTACCACACTCTTGAGTATGTTTGAGAGAGTACAGTGGTAACCCAGCAAGCATTTTTTGTTTTTAAAAGATGTCCAATAGATGTCTAAACCTAGTCGTCTTTGCTAAAACCAGGCTAAATATGGACTGTCAGTGAAAATGTAATAGACGTCTGAAAATAGGCAAAAACTAGACTCGTCATCAAATAAACAGAAATGAATGACTACACACATGAAGTCTGTCTACTCTGTCTATTTGAGGACTAGTCTAGTTTTGGGCTGTTCTTAGATTAACTATTAGATTTTCACTGACAGCCCAAGTTTAGCCTTGTTTTATCCAAGCTGTCTACGTTTAGATGTCTATTGGATGTCTTTTAAACATAAAATTGTTTGCTGGGAAATATTTTTGCAGTCATCTTTGCCTTTAAATTTTGTCAGTACAGTGCTATTATGTATGTCCTACTTTGTTTTCCTCAG
Seq C2 exon
TTGTCCTCTAGTGAAAGTATTCAGCAGCAGTTGAGTTTTCTGAATAAGCAGCTGTTGCTGTTGGGAGAAGCCCATAAACTGTGTGTTCAGGAGCTTCATCAGGCTGGACCGGATACTAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:18
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=0.098
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:
AGCAAGCTTCAAGAATGCCAGA
R:
CTAGTATCCGGTCCAGCCTGA
Band lengths:
230-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]