DreINT0168615 @ danRer10
Intron Retention
Gene
ENSDARG00000057918 | tsc1b
Description
tuberous sclerosis 1b [Source:ZFIN;Acc:ZDB-GENE-030131-3404]
Coordinates
chr21:17289271-17291037:+
Coord C1 exon
chr21:17289271-17289366
Coord A exon
chr21:17289367-17290445
Coord C2 exon
chr21:17290446-17291037
Length
1079 bp
Sequences
Splice sites
5' ss Seq
ATGGTATAA
5' ss Score
2.05
3' ss Seq
TTTACCCTCCATCCCCTCAGCTG
3' ss Score
8.94
Exon sequences
Seq C1 exon
ATGGCAGAGGTGAAAACATGCCCATGACCCTGACTGAGCTCTCTGTGTACATGAAGGAGCAAGAACAACTGAGGATCGAGAAGGAGAGGGAGGATG
Seq A exon
GTATAAACTTGTTTTCTTTCTTACTTTGACTGTAATGCTGTAATTCTATTAGTTTGCAGGGTCAAATTCAATTTTTCTGTTACATTTTTCTTGGCACATTTTTAATTGTTAAATTACATTTTTATAGTTAAATATCTGTCAAAATAATTACCAATTATTATATAACATGTTTACAGTTTTACAACTTTTACATTTACATTTTAGATAATGTTTAGGTTTTTCTTTCAAGTATGTTTAATTAAATAATTAAAATAATTTCTTTTAACAAAATAAACTAACTAAAATACACTTTGTAGTGTATGTAGTGTAATATGCTGCAGTATTAAGCCTTTATTTCTATCACAATTTTTAACACGACAAATTGTAATACTATACATCTTTTAACTATCCTTTAACTCTTTTTTCGAATAAATTATTTAACGATGCATCCCCAATACTGATTCATTCACTCATTTTTTCTAAATTTTTGACATTCAGTAAATTAGAGTGGAATCCATAGATTTTTATATATATATATATAGATAGATCATAGATCATCAATATATACACTAGATATTGCATACGGACCCTGAGCAATGTGTCAATACCACCGGCAATTTTGTACAGTGCTCCCAGGACAAATGACATTTGTCTAAAAAAAGACTAAAGCCAAAGTGAAGATGCTGGACTTTAGCACCGCGTATGGGTGGTGTAACGAGCAAACAAATAAAAAAAAGCATAAAGGCACAACATTTCATTGGTAAGATTTAGTTTTTTAAGTTTTTGTATATTACGAACGTTCGTGCTAATCAAGTATTGATGGTAATATGGTCCCTTTCTGCACTGACCATAAGGTAAAGTAGCACCATCTTGCATTGAATACTAGGCTTATGCTAGTTTTGTTAAATAAAATTAGCAAACAATGTAAGTGAAATATGACAACAAAGCGCTGCGGTGCCAGAAACTTGTATTATTGTTGGCTAAGTCAAGTAACGGCTAGTTTTTGAAGTAAGGAGTCTCTCTCCTTTACATAATGACAAAATCATTAAGTTGTAAAGATCTGTCGACGCCTCCATTAATTTTACCCTCCATCCCCTCAG
Seq C2 exon
CTGCCATCACAGAGGAGCTCCTGAAGTTAACCGAGGAGAAGCGGGATCTAGCCGGCCTCCGTGGCTTCGACTCTCCATTCTTCAGCACTACAGAGACCCTGACTGGAGCACAACAGAAACCCCTGCCCTCCTCTATTCTTCACAACACCATCTCCACCCCTGACAAAACTGAAATAACACCCAGTGACAAAGGAAGAGTCAGCAGAGGCCCATCCCAAGAGCAACCCTGGTCCTTCCAGCCAGTGTTCATGCCCATCGAACACCCGACGCACAGCCTCCTTCATCGGAGCCCGTCAGCACCAGATGACGAGGCCTTAAAATTTGGCTTGTGTTCCCCGAGCCCATGCAAACCTCCACCCATGCCATACGAGGCTCTGTTTGACATGGCTCTGCCTCGGGCTGCCTCTCTTTTTGTGGGAAGGAAGACTTCAGAGATTGTGCAGCGAGTGGCGATGGAGAGGTTTCAGAGAGGGGATTCTGGCAGGCAAGGGGAGGACGAGGGTGTGGAGGGGGTCGCCTCTGCTTCGCCTCTGGAGGTGCTGGATCGCCTCGTGCAGCAGGGTGGAGACGCCCATGACAAAGTGCTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057918:ENSDART00000145057:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.740
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(4.2=100)
A:
NA
C2:
PF043887=Hamartin=FE(26.1=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:
AAACATGCCCATGACCCTGAC
R:
TTCGATGGGCATGAACACTGG
Band lengths:
343-1422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]