BtaINT0151343 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27089259-27090890:-
Coord C1 exon
chr23:27090603-27090890
Coord A exon
chr23:27089583-27090602
Coord C2 exon
chr23:27089259-27089582
Length
1020 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTGGGCTTCTCCCACACAGCCC
3' ss Score
7.76
Exon sequences
Seq C1 exon
CCCCCCTGGAGAAGGAACGACAGCCCCCACCCCGCCTGGGGGAGCTGACAGTGACAGATGAGACCCCAAACTCCCTGCGCCTCTCATGGACGGTGGCCCAGGGCCGCTTTGACTCCTTCGTGGTCCAGTACAGGGGCACAGACGGGCAGCCCCGGATGGTGCCTGTGGCTGCAGACCAGAGGGAGTTCACTGTAGAGGGCCTGGAGCCTGGCAGGAAATACAAGTTTCTGCTCTACGGGCTCCTCGGAGGACAGCGCCTGGGCCCTGCCTCTGTCCTGGGAATGACAG
Seq A exon
GTGAGCAGGAGGCCGTGCTGCTTGGTCCCTGCAAACCGGCCTGAGTGTGTGTCCCCAGGCCTCTGTGCTGCAGGTCAGGCAGGAGTGGTCAAGGTGGAGGCGCAAGGGGGCCCTGCCCAGGGCTCAGGAGGAAGAGTCTTGGAATAGTGTTCGAGGGATCCGTCAAAAGCAGAGCCAAGACGAGCAGAAAGACAAAGCCCTGGCAAGGGTCCCTAACCTCCCGCCTCCCCTCCCCACCCCCTAGCCCCAGCCCCACAGCTGCCAGCTGCTCCCTATCACCCTACTGGATCATCTCTTACCTCCCGGCAGCGGCCTTGCCCGGATAAGGCAAACCCCCTCCCGTGGATGAGTCAGGAGCATTTTCTCAAATGGAAAATTACTGGAAAACAAGGCAGGCAAGGAGCATAGAGAGCAACAGGAGTGACTGCACTGATGGAGTTCCCCTTCCAGACTTCCTAATATCGCACCCTCCCCTCCAGCCCTGCATCAGCCTGGCTGGTGGGAGTCGCTCTTCAAGCTCTCCTGCCAGTTCCATCCTCAGGCCTTCTCAGCAGGGAGACCCATGTGCCCTGAGCTCAGGGAGGGACTGAGTGAGTCCTGCCTCAGGCCATGGCTCAGGCCGCCCTGGGGGTTGGGGAGGGAGCAGGGCTGTGCAGACATCTAGAGCGGGGCATGCTGAGACTTCGGGGCAGAGAAGGAGAAAACAAGTGAAGGATTCAGGCAGCATAGGAGCCCCACAGAGAGGCCACGGGGCAACTGGGCTGGCGCTCAGAGAGGTCTGGGTGGGGGGTGGGGGAGTCAGGGTCTCAGCAGGGATGCAGCAGATTCAAGAGAAGGAAGATGCTAGGAGAGTCTGAGTCCCTGTCTTCTCTCCACTTGGCTGCTGTGGCCAAGATGGAAAAGTGCCCCCCTCAGCCTCAGCCCTGACCCCCTCCATCTCTGGAAGGTGAGATGGAATGGGAGGGCCCCTCTGCACCCCCTACCCTGCACTCAGCTTCTCCCTGGGCTTCTCCCACACAG
Seq C2 exon
CCCCAGAAGAGGACACACCAGCGCCCTGGCACGCAGCCACGGAAGCCCCCAAGCCCCCTGAAGGGCCCCGCCTAGGGGTGCTGGCAGTGAGGGATGTGTCCCCGGACTCCCTGCGCCTCTCCTGGAGCGTGGTCCAGGGCCCCTTTGACTCCTTCGTGGTCCAGTATCAGGACACAGATGGGCAGCCCCAGGCCTTGCTCGTGGGGGGCGACCAGAACAAGGTCCTCGTGTCAGGCCTGGAGCCCAGCACCTCCTACGAGTTCTTCCTCTACGGCCTCCACGAAGGGAAGCGCCTGGGGCCCGTCTCAGCTGAGGGCACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444:ENSBTAT00000001893:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.440
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=85.6)
A:
NA
C2:
PF0004116=fn3=WD(100=74.3)
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGTTTCTGCTCTACGGGC
R:
GGAGGCCGTAGAGGAAGAACT
Band lengths:
348-1368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]