BtaINT0151361 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27116671-27117632:-
Coord C1 exon
chr23:27117342-27117632
Coord A exon
chr23:27116977-27117341
Coord C2 exon
chr23:27116671-27116976
Length
365 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CTGGGCCTTCTTATTTACAGCCC
3' ss Score
8.31
Exon sequences
Seq C1 exon
TGTCTCAGACTGATCCCAGCCCAGTGACTCCACCCCGCCTGGGGAAGCTGTGGGTGACTGATCCCACCCCAGACTCACTGCACCTCTCCTGGACTGTCCCTGAGGGCCAGTTTGACTCCTTCATGGTCCAGTACAGGGACAGGGCCGGCCGGCCACAGGTGGTGCCCGTGGAAGGGCCCGAGCGCTCGGTCATTATCTCCCCGCTAGACCCTGACCACAAGTACAGATTCACTCTGTTTGGGATTGCCAACAAGAAGCGGCATGGCCCCCTCACGGCTGATGGCACCACCG
Seq A exon
GTGAGTGGCAGCCTCCTAAGCCCCCAGCCTTACAGGGGGCTGACCCCTCCCAGCCTTCCACATGCCTGCCCTCAGCCAGGAGCTGGCTGGGGCCTCCCAGCGAGATGGCTGACTCGGAATCCTGGCCCCGCTTTTGGGCTCAGGGCCAGCCAGCCTCCCCCGCACTGCTGGGCCCCTTTCATCCTGTTCAGCTGCTCCCCGAGGCCCAGAAGGTGTGTCATACTCTGGCTGTGCCAGGCTTCTCAGAGTTCAGTGCTCATGCTAATCGAGTAGAGACCCCCACAGGTGTGACAAGCCTTCCAAACCCCAGGCCCCAATCCTGGAGTTCTGCCAGTTCAGCCCTGCCTGGGCCTTCTTATTTACAG
Seq C2 exon
CCCCAGAGAAGAAAGAGGAGCCCCGCCACCCAGAGCCCCCAGAGCGGCCCCTGCTGGGGGAGCTGACAGTGGCTGGCGCCACTGCAGACTCTCTGCGCCTCTCCTGGACGGTGGCCCAGGGCTCTTTCGACTCCTTTGTGGTCCAGTACAAGGATGCCCAGGGGCGGCCCCAAGCAGTGCCCGTCACGGGTGATGAGAATGAGGTCGCCATCCCCGGCCTGGAGCCCGACCGGAAGTATAAGATGAACCTCTACGGGCTTCATGGCAGGCAGCGCGTGGGGCCCGTGTCCGTGGTGGCCACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444:ENSBTAT00000001893:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.418 A=NA C2=0.709
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=82.7)
A:
NA
C2:
PF0004116=fn3=WD(100=78.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCCTGGACTGTCCCTGAG
R:
ACTGGACCACAAAGGAGTCGA
Band lengths:
355-720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]