BtaINT0153731 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005190 | TSC1
Description
TSC1 protein; Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:A6QQZ6]
Coordinates
chr11:102990340-102992134:-
Coord C1 exon
chr11:102991990-102992134
Coord A exon
chr11:102990495-102991989
Coord C2 exon
chr11:102990340-102990494
Length
1495 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CCGGTGGATTTCTTTTTTAGGCC
3' ss Score
9.16
Exon sequences
Seq C1 exon
ATGGACACCGACGTCATTGTCCTCACAACAGGAGTCTTAGTGTTGATAACCATGCTCCCAATGATTCCGCAGTCGGGGAAACAGCACCTTCATGATTTCTTTGATATCTTTGGCCGTCTTTCGTCATGGTGCCTGAAGAAACCAG
Seq A exon
GTAAAGATCTCCTCCTATACCCGTCATGCTGCACCAGGTGAGTGCTTTTGTGAGTGATGAACGGTTATGTGCTGGAAGAGAAGAACGTGTTAGAATCCTGTTGCTGAAATGGTTGGTTGTCACCAGACAGGTGAGGGAACACCTCAGGTATTTTCCACCAGGGGCACAAATAAGAAGCAAAACAGGGACTTCCCTGGTGGGCCAATGGCTACGACTCCAAGCTTCCAGTGCCAGGGGTGTGGGTTCAATCCCTGGTCATGAAACTTAGATTTCACATGCCAAGAAATTAAAAAAAAAAAAAAAAAGGCATGACTGTTGAAATGCTGTCCTTATTTTGTTGGCTTAAGAGGATTAGTTGTCAGAGAAACTGAGTGGTGGGTACAGCTTCCTGATTTTCAATAAACTGAAAAACAGCTTAAATCTGTGTTGCAGCAGCACGGGACTACGCTTGTGGGGCGTGTTTGTTCTCCTCTTGGTCTGTAGTGACAGAGCACAAGCTTCTGGTTCAGAGAACTCATCTATTGTACACGTGGACGGAGGAGAGAGAACGCGGCTGTTTCTGATTAGTGTTCTAGCTTTTAGTACAGGGGGTTTTGTTTCTACATCAACAGGTAGTACAGCTCTATCAGAATGACTCAGAAGCTGTAAACATGTGAACTCTGGCTCTTTTGGTCCTCCCAGCACGAGATGTTCACATCAAAAGAATGAAATGGATAAGCCCTGGGAAATGGAACACTGTGGCTTCTTGTACCGGATTAAGTAACAAGCCCGAGGCCTGTATGATGCCGACTTGTCTAGTAGGCTCTTCCTGGGGAGAAAGGAGTGGCCTGTCCTTTTTTTAGGGGGGCTTTATATATACCATTGGGATTTTCCATAGGGTCTGGATAAGGCTAGATGAATTAAATTTTCTGTTTCTCCCACTCTTAGCTCTTTAAGCTAATTTCAGATAGTAGCTTTTCTGTAGTTACGAATCTGCATAGCTAAGACTACGAACTGTTTTTAAAAGGTTCTCACACATTCATTCCACAAATATATGAATGCCTGTTAGGCAGCAAGCTCGGTGAGCGCTCTCAGGGCACAGAGGTGAGTGAGTTGGTGGTCTTCTTGAGGTGTGTACTGAATCAGGCTGTGGAGATGTACGATGACAGCTTGCAGGGGGTGTTCTTGTAAAGGTGCTTCAGTATTACAATTCTAGGGGCCCTGTGAAGGGGCGCCTAGAGAGGAGGCAGGGATTAGATGAGTGCACGCCTCTGTGGGCCACTCCAAGTAGATGGGAGTTTATCCAGAGGCCAGGGGAGCCACCCATGGATCTCAGACAGTGGTGTCTGGTATGTTCAGATTTGGGTTTTAGAAAACTGCTCTCCTTTACTTACTGTCTTCGGGGCAAGGCGGGGCACACATACGCAGAAAGTCCCATTGGCAGCCTGTGTGCGTGTCTGTCTTGCACACGTGTCCCGTGTCCAGCTAGGACCCCCCCGGTGGATTTCTTTTTTAG
Seq C2 exon
GCCATGTGACAGAAGTCTATCTCGTCCACCTCCACGCCAGCGTCTACGCTCTCTTCCATCGCCTGTATGGGATGTACCCTTGCAACTTTGTCTCCTTTCTGCGTTCTCACTACAGTATGAAGGAAAACCTGGAGACTTTTGAAGAAGTGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005190:ENSBTAT00000006842:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(6.7=100)
A:
NA
C2:
PF043887=Hamartin=FE(7.1=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:
ATGGACACCGACGTCATTGTC
R:
CCACTTCTTCAAAAGTCTCCAGGT
Band lengths:
295-1790
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development