BtaINT0151351 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27086743-27087131:-
Coord C1 exon
chr23:27086999-27087131
Coord A exon
chr23:27086895-27086998
Coord C2 exon
chr23:27086743-27086894
Length
104 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTC
5' ss Score
2.63
3' ss Seq
CCCCTCACTCCTCTCCCCAGGTG
3' ss Score
11.48
Exon sequences
Seq C1 exon
GAGATCCTGCTCCCAGGAGGGGTCACCTCTCACCAGCTCCGCGGCCTCTTTCCTTCCACCCCCTACAGCACATGGCTCCGGGCCATGTGGGGCGACAGCTTCACTCCCCCCGTGTCCACTTCCTTCACCACTG
Seq A exon
GTACTCGGGCCCTGGGACCTGAGTCTGGGGGATGATTGGGTAGCGGGGGTCTAGGATCGGTCTAGGATCTGGATAAAGAACTGGCCCCTCACTCCTCTCCCCAG
Seq C2 exon
GTGGGCTGCGGATCCCCTTCCCCCGGGACTGTGGGGAGGAGATGCAGAACGGGGTCAGCACATCAAGGACCACCACCATCTTCCTCAATGGCAACCGCGAGCGACCCCTGAACGTGTTTTGTGACATGGAGACCGATGGGGGTGGCTGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444:ENSBTAT00000001893:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.235
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(45.6=80.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
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:
GGTCACCTCTCACCAGCTCC
R:
CCCATCGGTCTCCATGTCACA
Band lengths:
253-357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]