DreINT0168596 @ danRer10
Intron Retention
Gene
ENSDARG00000026048 | tsc1a
Description
tuberous sclerosis 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9111]
Coordinates
chr5:29062209-29062815:+
Coord C1 exon
chr5:29062209-29062252
Coord A exon
chr5:29062253-29062642
Coord C2 exon
chr5:29062643-29062815
Length
390 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
ACATATTATTTTTTTTACAGGTC
3' ss Score
10.28
Exon sequences
Seq C1 exon
AACTTTCTCTTCTCCAAGCCAATCATCAGACCCACACTTGAAAG
Seq A exon
GTAAACAGCATAGCAATAAAGGAAAAGGTATTTAGTCATTTTACTAATTAATTCTGTGCTCTAGACAATTGTGCCCTCCAACTGTCCTTCTCCAACATTTCCTGTTTTTACATTTTCTTGTTGCTTTCCTTTATTTACTTTTGTCTTTCAAATTCCTTTTCTTGTCTTGTGCAGTTCACTACCAAATCCTCAGAGTAAGCTTTGTGTTTGTCCTGATTAGCTATAATTAAAATCCCAGTTGAAATGGAGCTGCATGATATATGGAAATAAAAATCAGTACTGTGATTGTAAACATGAAAATCTGCTTTTTAATTAAATAATATGTGAAGCTGTTTTGTTTGTAAAGCACAGGAACTTTCAATTGACCGCAACATATTATTTTTTTTACAG
Seq C2 exon
GTCTTGTGCCTGCAGTGTCGGATGAGCTAGACATGTTACGCAGTCAATTGCTGCTGCTGCATAACCAGTTGCTTTATGAGAGACATAAGAGAGAGCAACATGCGCTTCGTAACCGTCGTCTGTTTGGCCGCATCGTCAACACTACTGCACTGGAAGAGCAAAATAACTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026048:ENSDART00000035400:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=NA C2=0.190
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(2.2=100)
A:
NA
C2:
PF043887=Hamartin=PD(5.8=69.0)
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:
AACTTTCTCTTCTCCAAGCCA
R:
GGAGTTATTTTGCTCTTCCAGTGC
Band lengths:
214-604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]