BtaINT0153729 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005190 | TSC1
Description
TSC1 protein; Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:A6QQZ6]
Coordinates
chr11:102994278-102995633:-
Coord C1 exon
chr11:102995530-102995633
Coord A exon
chr11:102994431-102995529
Coord C2 exon
chr11:102994278-102994430
Length
1099 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
TTGTTCTTGTGCATGTTCAGCAC
3' ss Score
6.27
Exon sequences
Seq C1 exon
ACCGTGGTCCTATGCTTGTGAACACCCTGGTGGATTATTATCTGGAAACCAACTCTCAGCCTGTATTGCACATCCTGACTACCTTGCAAGAGCCCCATGATAAG
Seq A exon
GTACCTGCTGAGTGGTAGAGATGTGATACACTTTCTCCGAGGGCCGTGACTGCATCTCTGTAGCCCCAGCGCCTGGTGTGTTTATAGCTTACTGCTTCCGCTTCCGTGTGCCAGTGATGACACTGCTCCCAGATTGTAGCTACACATACAAACAGTCGTCAGGACTTTTGTTTCCTGAAAAGGTTTCAAAATACAACATATTTCAGAGGCCTTCAAAGATCTTGCTCTCAGAAGAAATCCTGTCATCCTAAGCTGTAATTGTATAGTGACGATGATCCATAAGGTACCCATCTTTAAACACTTTTAGACTTTTAATCCATATGGCAAAAGCTGTAAATGTGGGTACCTCATGGGGCTAATTGCCTAGTGCTCTTTCCAGGCACCAGGCACTTGGAAGGCTCCTTTATGTTTTGTTTTTGCTTTTATTTTTGTTGATGGTAAATAGCTAACAAAGCCTTGCAGTTGCACATTTTGATTTGTCTTGAGTTTGTATGTACTGGTGATTTACTTAACTGGGATTTGAAGGCCTTGCCATTGTCTGCCTTTTACAGTACATCTTGGGTTGTTTTTTTGTTTGTTTTGTTTTTTTTCACTCTGGGCTGAATTTTAACTTCTACTGCTACCGGAGTTATATGTGGGGCCAAACGACGGAGGTGAGGCCCTGGTAGCAATAAGCAGCTGCTTCCAGCAGGATCCCCTGAAGCTTCAGCAGCCTCCACTTATTAGAGACTTATTAGAACAGTGGTTATTCTAAGAAGTGGCCTGTTTGTATTTCAGAAAGATACAGAGGAGTCTCCTTCCCGCTTACAGACCTGTATTGTGGGGACTCTCTTTCAGGAGTTGCAGACTGGCTGCCCTCTCTTAGGACTAATGCAACACAACAGTGTGTTTGTTTGCATGGCTTTAAAAAAACCTTGAGTTTGATCTCTTTACCTGCATGAGCTTTTTTTACATCCAAGTGACCACTCAAGAGACTGGCGTTGGTCACTCCTGCCTATCCTCGTGTGCACTTCACGCATTCACATGAGTGTCTCCCTGGGGTCCCTTGACTTTCCCTAGCTTTACTGAGATAATTTCTCTTGTTCTTGTGCATGTTCAG
Seq C2 exon
CACCTCTTGGACAAAATGAATGAATACGTGGGCAAGGCCGCCTCTCGGTTATCCGCCCTCTTGCTACTGGGCCACGTCGTGAGGCTGCAGCCGTCATGGAAGCATAAGCTCTCTCAAGCACCTCTTTTGCCTTCTCTACTAAAATGTCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005190:ENSBTAT00000006842:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(26.2=100)
A:
NA
C2:
PF043887=Hamartin=FE(38.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCGTGGTCCTATGCTTGTGA
R:
TGAGACATTTTAGTAGAGAAGGCA
Band lengths:
255-1354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development