DreINT0168591 @ danRer10
Intron Retention
Gene
ENSDARG00000026048 | tsc1a
Description
tuberous sclerosis 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9111]
Coordinates
chr5:29060076-29060442:+
Coord C1 exon
chr5:29060076-29060238
Coord A exon
chr5:29060239-29060329
Coord C2 exon
chr5:29060330-29060442
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
AGGGGTTATTTTTGTTGCAGGGG
3' ss Score
6.41
Exon sequences
Seq C1 exon
AGTGATGAGGTCAAATCCTCAGGGATGAAGGAGGAGCTGTGGAGCCCTTCCTCCATATGTGGGATGAGCACCCCTCCCAGTTCTAGAGGAATGTCCCCAACCACAGTTTCTGACATCTCACTTAGTGCCTCACACCTCTCAGGACGGATCCCCAGCACCCCAG
Seq A exon
GTCAGCCAAATGCATTCTGATCTACATAGCTGCATATCTCAGTTTGTTTGTTTGCTGTCTCAGATGGCTTCAGGGGTTATTTTTGTTGCAG
Seq C2 exon
GGGATGGAAAGTGGACTCTATCTCCCACCACACCCTCGGGGTCATCCCCTCTCCCATCGCTCTCAGAGGAAATAGGGCAGGCTGCCCAAAACACCAGCAGTACCCAGGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026048:ENSDART00000035400:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.964 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(7.8=100)
A:
NA
C2:
PF043887=Hamartin=FE(5.4=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:
ATATGTGGGATGAGCACCCCT
R:
TTCCTCTGAGAGCGATGGGAG
Band lengths:
180-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]