BtaINT0151359 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27119616-27121414:-
Coord C1 exon
chr23:27121046-27121414
Coord A exon
chr23:27119910-27121045
Coord C2 exon
chr23:27119616-27119909
Length
1136 bp
Sequences
Splice sites
5' ss Seq
TGGGTACAT
5' ss Score
1.38
3' ss Seq
CCCCCTTCCTCCAACTCCAGACA
3' ss Score
8.81
Exon sequences
Seq C1 exon
GGTCCTCCCTCTCAGGCCTCTTGGGGGCCACTGATGAGCCTCCTCCCTCAGGCCCTTCAACGACTCAAGGGGCTCAGGCCCCTGTCCTGCAGCAGCGCCCCCAGGAGCTGGCCGAGTTGAGGGTGCTGGGCAAAGACAAGACAGGGCGCCTCCGAGTGGCCTGGACCGCCCAGCCTGACACCTTTACCCACTTCCAGCTGCGCCTACGGGTGCCCGAAGGGCCAGGGGCCCATGAGGAGCTACTGCCAGGGGATGTCCGTCAGGCTCTGGTGCCCTCACCCCCTCCCGAATCCCCCTACGAGCTGTCACTTCGTGGGATCCCTCCCAGTGGCGAGCCCTCTGCCCCTCTCATCTACCAAGGCATTATGG
Seq A exon
GTACATCCTGGACTCTGTTCAAGTCCAGTGTCCTGAGGCTGCGGGAGGGGCTGGGCCATTAGGACTTTAGGGGTGGGATGAAGACCGAAGGGCAGGGCTGGTGTTTGGGTCGAGAACGTAGGAGAAACAAGGAGAGAAAGGGAGTTGAGGGCTCAGAGGCAAGAGGGATGGGGAAAGTCTTAGTACAACGAAAGGGTGGATCGGAGAGGGGAGTCCTTCCAGATAAATAGATGAGAGGAGAAAAGTCAAAGCATGGGACAAAGATTCAGGGAAAGAGACTGTTGGCCCCTGCCTCTCCACTTGCAGCTTTCTTTGTGTAGAAGTGTCCCGCCCCCACTTCCTGGTCACTCCTCTGCCCCTCTCCGCCCCCTGCGTCTCTCAGGGTGGGTGTGGGAAAGCCTCTGGCTCCGAGGATATTGATCCTCAGCCCCCTCCTCTTTCAGCCCCCTCCCTTTCCCTTCTCTCAAGCCCCTGCCATCCCCTCACTGGACAGACTAGGACACGTTGTCCCCCTACCCTGCAAGCCTGGTCTGCAGCACCCCATGGTCCCATCAGCCAGTTCTCCTAGGGGTGGAGGTTCCCTGGGGAGGGCACTCCACGGCCATCGGGACTTCGGAGATGGGTGAGGTTTGTGGAACCCAGGCAGGAGCCTGGGGCTCCTGGCATTCACAGTTTCTCCTGGTCCCCCTTTATGGGACTCGGGTAGCCAGCTCTCCCTGCAACTCCAGATCTCTCACCAGGAAGAGAGTGGCAAGGGAGAGAGACATTCAGGTGGACTAAGGCATCTCCAGGCTGCTCTGAAGCAGCAATGGTTCCAAACTCTCAGGAAGAACCTCAGGGGACCCAAAACTCCCTCAAAGTGTTCGTGTGTAGAGGGCCTGGGACCTTTGTGAGTGGGGAGGAAGTTATCACAGGGAAGAGCGGAAGCTCTGGCTCAAGAGTAGACGCTGGGGAGAAATGCCGCCCTTCTTAGAAAGGCTGGTCCCAGAGAACTGAGGGCGGGGAATGGAGGCATCAAGGGAAGGAGCCGTCCAGCATGGAGGGAGCCAGAGGGCAGAGGAGAGGGACGGAGAGCAGGGACGAGACAGTGCTTGAGCCCACGTGCTTTGTTTTTGCCCCCCTTCCTCCAACTCCAG
Seq C2 exon
ACAAGGATGGGGAGAAACCTGGGAAACCCTTGGCCCCACCTCGCCTGGGCAAGCTGACAGTGACAGACGTGACCTCGGACTCCCTGCTTCTGCACTGGACAGTCCCTGAGGGCGAGTTCGATTCCTTTGTGATCCAGTACAAAGACAGGGACAGGCCCCAGGTGGTGCCTGTAGAAGGGCCCCAGCGCTCAGCCCTCATCTCCAACCTGGACGTCGGCCGCAAGTACAAATTTGTCCTATACGGGCTCGTGGGCAAGAAGAGGCACGGCCCCCTGGTGGCTGAAGCCAAAATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444:ENSBTAT00000001893:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.806 A=NA C2=0.333
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=WD(100=79.8)
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:
AGCCTGACACCTTTACCCACT
R:
GGCCTGTCCCTGTCTTTGTAC
Band lengths:
355-1491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]