BtaINT0153719 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005190 | TSC1
Description
TSC1 protein; Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:A6QQZ6]
Coordinates
chr11:102979121-102980034:-
Coord C1 exon
chr11:102979930-102980034
Coord A exon
chr11:102979680-102979929
Coord C2 exon
chr11:102979121-102979679
Length
250 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACG
5' ss Score
10.19
3' ss Seq
TCCCTCCTCCTCCTTTGTAGCGG
3' ss Score
9.8
Exon sequences
Seq C1 exon
AAGAGCTGCACGGAGGCAAGGGATCTGTCACTCTCAGTGATCTTCCAGGGTTTTTAGGAGACCTGGCTTCTGAAGAAGACAGTATTGAGAAGGATAAAGAAGAAG
Seq A exon
GTAACGTGTGCAGGGTTCTGGGCTTGTGGAGATGCTGCACATTGATAAAGCCCTCATTTTCTGCCCGAGAACCAGGACTTAGTATCAACATGCACAGGACTGCCTGCTTTTTCTTCCTTTGGGGGAGGGAGATGGGAGTTTTGTTCTGAGCCCTGTGCCTGGTCCCTTCGGGTGGCACAGGGCAGCACACAGCCCCACACTGCCCGACCTGACCCAGATGCACCGTCTCTTCCCTCCTCCTCCTTTGTAG
Seq C2 exon
CGGCCATATCTAAAGAGCTGTCTGAGATCACGACGGCCGATGCCGAGCCCCTGGTTCCTCGAGGAGGCTTCGACTCACCCTTCTACCGGGACAGTCTGCCGGGCTGCCCGCGGAAGACCCTCTCAGCTTCCTCCAGCACTCAGGGCACCAGCGCGAACCCTGAGCCTTTAAACTCCTCCCTGGACAAGTCGGGGCCTGACACACCAAAGCAAGCCTTCACGCCCATAGACCTGCCCTGCGGAGGCACCGGGGAGAGCCCTGCCGGGAACAGGGAGCGCCAGGCCTCTCTGGAGGCCAGCATCCTCACCCCCAGCCCCTGTAAAATTCCACCTCAGAGGGGAGTGGGGTTTGGCAGTGGGCAGCCTCCCCCATACGATCATCTTTTTGAGGTGGCATTGCCAAAGACTGCCCATCATTTTGTCAGCAAGAAGACGGAGGAACTGCTCAAGAAGGCAAAGGGAAGTGCAGAGGAGGACTTCACGCCCTCCGCCTCCCCTATGGAAGTGCTGGACAGGCTGATACAGCAGGGAGCGGACGTGCACAGCAAGGAGCTCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005190:ENSBTAT00000006842:13
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=0.850
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(4.9=100)
A:
NA
C2:
PF043887=Hamartin=FE(26.0=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:
AGGCAAGGGATCTGTCACTCT
R:
AGGCTTGCTTTGGTGTGTCAG
Band lengths:
308-558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development