BtaINT0153717 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005190 | TSC1
Description
TSC1 protein; Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:A6QQZ6]
Coordinates
chr11:102980451-102982404:-
Coord C1 exon
chr11:102982289-102982404
Coord A exon
chr11:102980521-102982288
Coord C2 exon
chr11:102980451-102980520
Length
1768 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGC
5' ss Score
5.42
3' ss Seq
AACGGTATCTGTCGTTTCAGGAA
3' ss Score
8.35
Exon sequences
Seq C1 exon
CAGGTGGGAAAGGAACTCCTCTGGGAACCCCTGCAACCTCTCCTCCTCCAGCCCCACCCTGCCATTCGGACGACTGCGTGCACCTTTCACTCCCACAGGCCACGGCCCCCAAGAAG
Seq A exon
GTTTGCCAGGCTCGTCTGCTGTCCCCTCGCCCACGCACAGAGACTTGCTTCCAGCCTCTCTTTGGGAAACCTTTTATGCCAGTTAGAAGTCTGACCTAAAATGTAATGGGTTTGAATCAGATCAGTTGAAAATAGACCAATCAGCAGCTCTCATAGAATGTGGTCTGCTGACCCTGAGGATCCCCAAACCTTCTAAGAGACACTGCCAGGGCAAATCTACTTTCATAGTTACTCTTACGTGGTCATTCGCCCCTTTTTTCTGTATTGGCATTTATACTCATGGCATAGAAATAGTGGTGGGTAGGATGGCTGGCCCCTTGGTACAAAATTGCACTCTTCTAGTGGCATTGCATTCTTCTTCCTTGATGTGTTCTTTCAGTTTGGCAGAAGAAAAGAAGCAACAACCAAAAAAAAAAAAAAAGTGCCAACCTTGAGTATTCTATAGAAAGAACCCACGTGTTTAATATTGTTTGTGATAAAACAGGAAGTAGACTTAAAGCAGTCTGAGTGCATACCAGCACGTGGTGGTTTCCATACGCACTTGTGACATTATTTGAGTTGAGAGCTGAACTGGTTGCTCTCTTTTACGCAGCAGCAGTCTTATTTGAAAGAATAACTGGTGACAAACCACGGTTACTCAGACTTGAGTGTTAGGCAGGCAGTTAGCTTCTTAGATGACAAACTGGCTCTGTCACTTGAAGATAAACAACTGACAGTCTTTGTTGCCCATGATAAAAACGTGCGATTAGAATATTAAAAAACTGGTATCTGCCACCGAGTGCTTGATAGTGTCCCTAAGTCTTTCATGACGAGATTGAAAAGTCTTGAGAAGCTTGGTTGATAGTTTTGAATTTTTGATATCATATAATGAAGTGTTTTAACACTTAGAAGATGTGCACAGCTTGGTGAGCCAGTGTTCTGCCCGCCTTGTGTGTGATGTTAAAGACCCACATGTAGATAATACCTTGGGGGGGCAAGGGAGACCAGTGGATCTTACTTAACACGATGTGAAGAGTGAATTGCGATGACTTCAGGTTCTGCTCCATAACTGACCTTGAAGAAGAAATACCCTTGTCGAGTTTCAGAGTAACATCAGAGATGGCTTTCTGCAGTTATCTAAAAAATCTTTCTGCTTTTTATAACTGCTTATCCGTGGGGCCTAGAGTTTTCTTCGTACGCTTTAGCCAGAATAACATGTAACCCAGCAGAGCAGAGGCAGCCGTAAGAACCCATCCTCCTTCCATTAAGCCGTATATGGACGAGATCGCAGAAATGTGAGACCACTTGACCCTCTCACTAAGCTTACCTTTGTTTTGGGAAATATAGTTATGTTTCATAGAAATATGTCATTTATGTTTACATGGGTTGGGTGGGGTATTTTTCCGGCCATGCTGCACAGCTTGTAGGATCTTAGTTCCCCGACCAGGGATTGAACCCGCCTCCTCAGCAGTAAAAGCATGGAGTCCTAACATTGAATCACCAGGAAATTCCTGGGTTGGTTAAGTGAATTAATATTTTTAAAATTCTGTTTTAGTTTCTGGTGTGGTAACTATCAATAGATTTAGCCACATAAACAAAATCCTTGAGATTCTTAGTCACTTTTAAGAACAGAAAGGCATCCTGACACCAGTTTGAGAACTACTGGGCTAAACTTTAAACTCCTTTATAATATACTAAAATTTGAGGAGTTTAGGGTATTTCTCTAGCATTAGAGATCATGCACACAATTTTCTGCCTTGTGATATATAAACGGTATCTGTCGTTTCAG
Seq C2 exon
GAAGAGAGGACAGACTCCGCAAGGCCCTGTCTACACAGACAACCCCATGTTCCGAATGACAGAGGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005190:ENSBTAT00000006842:11
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=1.000
Domain overlap (PFAM):
C1:
PF043887=Hamartin=FE(5.3=100)
A:
NA
C2:
PF043887=Hamartin=FE(3.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTGGGAAAGGAACTCC
R:
TCCTCTGTCATTCGGAACATGG
Band lengths:
182-1950
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development