DreINT0168626 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17275637-17277267:+
Coord C1 exon
chr21:17275637-17275789
Coord A exon
chr21:17275790-17277122
Coord C2 exon
chr21:17277123-17277267
Length
1333 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TGATTTTTGATGTGTTACAGACA
3' ss Score
7.94
Exon sequences
Seq C1 exon
CACCTTTTTGATAAAATGAATGAATGCATGGCTAAAGCCCCCTGTCGCCTGCCCACCCTCACTCTCCTGGGGCATGTTGTCCGTAAGCAGCCATCTTGGATCCACAAGATCGCGCACTATCCGCTGCTGCTATCTCTCCTCAAATGCCTCAAG
Seq A exon
GTAAGCTTATAGTGTGAACTTTATCTGATTTGCTGCTTGGTATTAGGTGAATGATTTTTGAAGGAAATACTTTGTTATAACTGCACACTAGGAATCTTTAAGCATTAAGTCCGCATTAATAGACATTAGTATCAGATCATTCGTGGCTTATGATAATAATATTATTATTATTAATTATTATTATTAATTAATTTTTTTCTTGATAAAATCTTGACTTGTCTTGGGTAACAAACGTGCCAGATTAGACGTTCCTTCAAGATCAGTCATCCTATGGCATCTACAACGAGCGTTATTACCCAAAGCAGTCACAAGTGTTGCTATAACAATATTTCAATTTTATGCTATATCCCAATTTCAATTTTTTCACTGATGCTTGCAGACAACTTATGATTACATTTAAGGGCATTCGTTACGACATGGATAGGATCAAACTTATGATTCTTTTTTAATATTAAGATATTTTCTTTGAATATTCTTTTAGATGTATATTTTCCTGCCAGGGTTGCTGATTAAACAATAACTCAAGTTATTGAGTGCAGAGCAAATAAAAACTCTGCAAGTGTAGAGCAAATAAAAGCACACAAGCAGCAGCAAGGAAAAGTTAGATGCTCAAGACATAATCTTTAAACTAATGAGATATTAAAAATGAGCAAATATATTACAGGCTTGTGATACAATCACAGTGAAGCATTCAGTAAATTCTTATTTTCCTTAGAGCAAAACAAATCATCCACCTGTATAGTTGAGTAGTGGAGAGGCACAAACAAAAATATAATTTATATATTTTTCTTAAAAAAACAAAACAAAAAAAAACTTGTAAAAATCTTCTAATGTATCTTTAGTTGGTCAGTTATCTATAAACAAGAATAACGAGTAACATTTGAGGTGAAACACTGCAAAACAAGTCCGCTATATGCACCAAAACACAAATTAACACAAGATTGTGTTGGTTTGTGAAATAAAATAATAATCTAGCCTAAATAAAATTAAAGTGAAATATCCACAGTTTTAGAGAAGCCTATATTAAACTGTTTTCACTATTAATGACACATTTCAATAAGCATGAAATGCTTTTGCAATGTATTCACGGCAAAAGTATCTCCAACAGGATCTGGTGAAACAACAGTATCTCCAGCAGAAACGATATGCAAAGATGCTGTTTTAAATTGTAAAGAAATCTGTGTTTCTGAAACTATGAAGACAGCAGAAGTCAATGACTCACTTGAATTATTTAGCTTGACATACTACCTGCTTACTGATTTTATCCAAGGTTATACTTATACTGGTTCATGCCTAATTGTAACATACACGTATGATTTTTGATGTGTTACAG
Seq C2 exon
ACAGACACAGATGTTGTGGTTCTGATAACTGGAGTCCTGGTGCTCATCACACTTTTACCCATGATTCCTCAAGCTGGCAAGCAACATCTCTATGAGTTTTTTGATATCTTTGGACGTCTGGCGTCTTGGAACCTAAGAAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:4
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(6.6=100)
A:
NA
C2:
PF043887=Hamartin=FE(6.4=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:
TGATAAAATGAATGAATGCATGGCT
R:
GTTTCTTAGGTTCCAAGACGCCA
Band lengths:
286-1619
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]