BtaINT0151339 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27092770-27094013:-
Coord C1 exon
chr23:27093666-27094013
Coord A exon
chr23:27093058-27093665
Coord C2 exon
chr23:27092770-27093057
Length
608 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CCTCCTCTGCTCTGTTCCAGCCT
3' ss Score
9.34
Exon sequences
Seq C1 exon
CTGCAGAGGAAGAGACGCCCAGCCCCACAGAGATGGAGGAGACCCCCAGCCCCACAGAACCCAGCACAGAGGCCCCGGAGCCCCCCGAGGAGCCCCTCCTTGGCGAGCTGACGGTGACAGGATCCTCCCCGGACTCGCTGAGCCTCTCCTGGACTGTCCCCCAGGGCCACTTTGACTCCTTCACCGTCCAGTACAAGGGCAGGGACGGGCCCCAGGTGGTGCGTGTTGGGGGCGAGGAGACTGAGGTGACCGTTGGGGGCCTGGAGCCTGGACACAAGTACAAGATGCACCTGTACGGCCTGCACGGGGGGCGGCGCGTGGGCCCCGCGTCCACCGTGGGCGTGACCG
Seq A exon
GTGAGTAGGAGAGCAAGCCCCAAACCCTAGGTTTCCCTCTGTTGCCCTTGTGTTTCCCTCTTTGGGACATCAGCACTTCTCACAAATGGGGCCTGTTCCCTTTCCTCACGTGGTGCTGGGGATCCCACCCCATGCTCGAATTGCGTGAGGATTGATGGACGGTGTGCTCGGGGTCAGCTCGGCAGGTAGCCTCTGCCCCACACGTTTCCGCTTTCTTCCTTCCTTCATGATCTGGACCCTCAAACCTGCTCAGGTGTTCATGTATGGCTTCCTCAGCCACCAAGCATTTTAGCAGCTTGGCGCACAGATGGAGAACCAGGTTCCCTAGGTTGAATCCTGCTCTGAAGGTACTCATTTTGCAAATGTTTCTTAACCTCTCTGCACCACGGATGCCCACACAACAAGGGTGCTAAGGATAAAAGCACCTACTTCAGCAGCTGTGTGAGGATTAAATGCACTGTTTGCGAACTGCCTACAGCAGTGCCTGGGACACATGAAGCAGTTTTAAGAAGAGTTTGCTGCAAATGGTCATTTCACAGCCAGGGAACAGCGCCCCCTTCTGGCCCAGGGTCCTGTCCTTGACCACAGCCTCCTCTGCTCTGTTCCAG
Seq C2 exon
CCTCCCTGACTACGGAGCGTCCCCTGGCACCCCGCCTAGGGGAGCTGGCGGTGGCAGTCGTGACCTCGGACACAGCGCGTCTCTCGTGGACGGTGGAGCAGGGGCCCTTTGACTCCTTCCTGGTCCAGTACAAGGATGTACAGGGGCAGCCCCAGGCAGTGCCCGTGGCTGGAGACCTCCGAGAGGTCACAGTTTCGAGTCTGGCCCCCGGCCGCAAGTACAAGTTCCTCCTGTTCGGACTCCGGGATGAGAAACGACACGGCCCAGTTTCTGCAGATGCAAAGACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444:ENSBTAT00000001893:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.761 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=68.4)
A:
NA
C2:
PF0004116=fn3=WD(100=81.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
TGGAGCCTGGACACAAGTACA
R:
TGTCGTTTCTCATCCCGGAGT
Band lengths:
346-954
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]