BtaALTA0030912-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000001444 | TNXB
Description
tenascin-X precursor [Source:RefSeq peptide;Acc:NP_777128]
Coordinates
chr23:27108471-27110100:-
Coord C1 exon
chr23:27109795-27110100
Coord A exon
NA
Coord C2 exon
chr23:27108471-27108770
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TCTGTCTCCCTGGATCCTAGCTC
3' ss Score
5.8
Exon sequences
Seq C1 exon
CTCCACAAGCAGAAGAGACTCCTCCAGCCACCGAGCCCCCCAAGGAACCACGCCTCGGGGAACTGACAGTAACAGATGTGACCCCCAACTCCGTGGGCCTCGAGTGGACAGTCTCTGAGGGCCAGTTTGACTCTTTCATGGTCCAGTACAAGGACAGGGACGGGCAGTCCCACGTGGTCCCTGTGGCCGCAGACCAGCGAGAGGCCACTGTCTCCGGGCTGGAGCCTGAGCGCAAATACAGGATGAACGTGTATGGGCTACATGGTGGGCAGCGCGTGGGCCCCCTCTCCGTGGTGGCCCTGACCG
Seq A exon
NA
Seq C2 exon
CTCCCGTCCCCCCAGACCCCGTCACAGAGCCCCCCGTGGAGCCACGCCTGGGGGAGCTGACGGTGATGGATGTGACCCCGGACTCCGTGGGCCTCTCCTGGACCGTCGCCGAGGGCGAATTTGACTCCTTCTTGGTCCAGTACAAGGACAGGGACGGGCAGCCCCAGGTGGTGCCTGTGGCCACTGACCAGCGCGAGGTCACCATACCCGGCCTGGAGCCCAGTAGGAAATACAAGTTCCTGCTCTTTGGGATCCAAGATGGGAAACGCCGCAGCACAGTCTCTGTGGAGGCAAAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001444-14-17,14-16-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.631 A=NA C2=0.446
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=78.6)
A:
NA
C2:
PF0004116=fn3=WD(100=77.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TCCAGTACAAGGACAGGGACG
R:
AAGGAGTCAAATTCGCCCTCG
Band lengths:
295-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development