BtaINT0153722 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005190 | TSC1
Description
TSC1 protein; Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:A6QQZ6]
Coordinates
chr11:102976124-102977457:-
Coord C1 exon
chr11:102977291-102977457
Coord A exon
chr11:102976307-102977290
Coord C2 exon
chr11:102976124-102976306
Length
984 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
GCATCTTTGGTGTCTGCTAGAAA
3' ss Score
5.79
Exon sequences
Seq C1 exon
GCTCTCCTCCCTCAGATGAGATCTGCACCCTCCGTAACCAGTTGCTTTTACTGCACAACCAGTTACTCTACGAGCGTTTCAAGCGGCAGCAGCACGCGCTGCGCAACAGGCGGCTCCTGCGCAAGGTGATCCGGGCCTCGGCTCTGGAGGAGCACAACGCCGCCATG
Seq A exon
GTGAGCCCACGGGGTGGGGCGGGGGGCGGGCTCTCCATCTGGCCCCTCGCACCAGCTTCTGGCGGTCAGCCCGTGAAGGGCCGCATCCCCACATTCCCTTGCAGCTCTTGGCACCCGTGGGGACAAGTCATTTTTGGTGTTTGTTAGTCTGTAATGGGCGGTGATGATAGCAGAGGAGAAAGGTGATTTTGTTTCTCCAGATGTAAAACCAGCTCTCGGGACACAACTCTCATGACAAAAACTCACTGTGGGGTGGTGAAGCCAGTCGGAGCTGGACATGACCTTGGCGCCACGGCCCTGTTGCCTTAGGAAAGTAATGGAGCTTTTGGAGGCCCCTGTCACCCGTTACGTAAAATGAGAGTAGTGGTAGCTTCTCCTCCTTAACTGGGGATGCAGAGAGCACCTGCCCAGTGCAGGGCAGGGTGGGAACCCAGTGTCTGTCACTTTAGTGACCTTGGCCAGTACCAGTGCTCACATCAACACTGGTGGTTGCGTGCTGAGTCGCTTCGTGTCCGACTCCTTGCAACCCCAGAACTGTAGCCCAGCAAGCTCCTCTGTCCATGGGATTCTCCAGGCTAGAATACTGGAGTGGGTTGCCGTGCCCTCCTCCAGGGGATCTTCCCAACCCAGGGATCAAACCTGCGTCTCTTACATCTCCTGCATTGGCAGGTGGGTTCTTGACTACTAGGGCCATCTGAGAAGTCCAGTGCTGATGGTTAGGACTTCTGAAAGTATTGGGAGCAGGCTGATGGCTGAGAAAAGTTCTTTAAGCCACTTCTGATCCACTGGCTAACGTGCAGTCTGGAAGCCGTTGACCAAAAGCCAAGTTAGACAGCAGTGAGCTGTCAGGTTCCAGGTCTGGGGTTACAGCCTCAGGGTAGCTTGTGACTATTCAGGTGAAATGTCTGCAGTGTGCGCTGAACTTGAGCATCACTGCCCAGGCTGGAAGGCAGCTAAAATGATGGCATCTTTGGTGTCTGCTAG
Seq C2 exon
AAAGACCAGTTGAAGTTGCAAGAGAAAGACATCCAGATATGGAAGATTAGTCTGCAGAAAGAACAAGCCAGGTACAATCAGCTTCAGGAGCAGCGAGACACAGTGGTCACCCAGCTTCATAGCCAGATCAGACAGCTTCAGCACGACCGGGAGGAGTTCTACAACCAGAGCCAGGAGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005190:ENSBTAT00000006842:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=PD(5.3=67.9)
A:
NA
C2:
NO
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:
GCTCTCCTCCCTCAGATGAGA
R:
ACTCCTGGCTCTGGTTGTAGA
Band lengths:
345-1329
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development