RnoINT0156979 @ rn6
Intron Retention
Gene
ENSRNOG00000011470 | Tsc1
Description
TSC complex subunit 1 [Source:RGD Symbol;Acc:620124]
Coordinates
chr3:7239738-7240895:+
Coord C1 exon
chr3:7239738-7239890
Coord A exon
chr3:7239891-7240750
Coord C2 exon
chr3:7240751-7240895
Length
860 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
GTCGCCCTTCCCTTCTGCAGATG
3' ss Score
11.05
Exon sequences
Seq C1 exon
CACCTCTTGGACAAAATGAATGAGTATGTAGGCAAAGCTGCCACCCGCTTATCCATCCTCTCGCTGCTGGGGCATGTTGTGAGGCTGCAGCCATCTTGGAAGCATAAGCTCTCTCAAGCACCTCTTCTGCCTTCTTTACTGAAATGTCTCAAG
Seq A exon
GTAGGATATTTGTAAGGTTTTGAGGGAAATACCTCTGTAAATATTGGTTCAGAAAAGGGACTGAACCAAGTTTGTAGGAGTCAGTTCTTTCTTTTTACCACGTGGGTCTCAAGCAGGGAATTTAGGTCGTCAGGCTTGGTGCTGGGTATCTTGATCCATTGAGCCACCTCCCTTGCCTTGGATTGATTTGTTTATTTGTATTTTATGTGTATGTGTGAATCCTGACATGTATTCCTGGTTAATCTATATATTACTGAGGAACCAGGCTGGCTTTCAACTCAAAGCAATCGTTCTGCCTTGGCCTCCCAGCTGTTAGAATTATAGAAGTTAGCCACCATGTTTGGCCTGTATTAGTCCTTTAAAAAATAGTGGTTTGGGCTGGGGATGTGGCTTATGTTGGAGCTCTTGCCTAGCATGCAGAAGGCCCTGGGTTTGGTTCCCAGTACTAGTGAGATAATAAACTGACTCTCCATGTGCAGTGTTCTTTAATCAGTTAACAGAGAGTCAGCATCTTAGAGGTTAGCCAGATAGGTGGGGATAGCATTGTCCTGTGTCCTGTGCCCTGTGCCCTGGGTCCTGTTCCCTGTGCCAGCTGTCTCTTACACTGTCATATCCAGGCACTGGGATAGGGATTTGGGATTCGGGAGTTTCAAGCCAAGTAGAACATGGGAAATGATCTCCCAGTCTCACCGCAATGGCAACAGGGCTCAGTGCTTCTTTTTTTGCTAAGTCTATTTCAGTGCTGTCCCTCAAATTCTTAGGGGTCAGGAAATGAGCACAAGAGGGGCTTCAGATCTGTGACCTCAGGATTTGGACCCTCATCCCAGTGCTGAGCCTGACGTCGCCCTTCCCTTCTGCAG
Seq C2 exon
ATGGACACTGATGTTGTGGTTCTCACAACTGGTGTCTTGGTGTTGATCACCATGCTACCGATGATCCCGCAGTCAGGGAAGCAGCACCTTCTCGACTTCTTTGACATCTTTGGCCGTCTTTCATCATGGTGCCTGAAGAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011470:ENSRNOT00000016904:3
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(7.0=100)
A:
NA
C2:
PF043887=Hamartin=FE(6.7=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:
CACCTCTTGGACAAAATGAATGAGT
R:
TGGTTTCTTCAGGCACCATGA
Band lengths:
297-1157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]