BtaALTA0030873-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000011706 | TNR
Description
tenascin R [Source:HGNC Symbol;Acc:HGNC:11953]
Coordinates
chr16:58096878-58104000:-
Coord C1 exon
chr16:58103524-58104000
Coord A exon
chr16:58097038-58097141
Coord C2 exon
chr16:58096878-58097037
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TGTGTATTGCCTCCTGGTAGTTG
3' ss Score
6.77
Exon sequences
Seq C1 exon
GACAACTGGACTATATCCCTCACTGCAGTGGCCATGGCAACTTTAGCCTGGAGTCCTGTGGCTGCATCTGCGATCAAGGCTGGTTTGGCAAGAACTGCTCGGAGCCCTACTGCCCCCTGGGCTGCTCCAGTCGGGGCGTGTGTGTGGACGGCCAGTGCGTCTGTGACAGCGAGTACAGCGGGGACGACTGCTCAGAACTCCGGTGCCCAACCGACTGCAGCTCCCGGGGGCTGTGCGTGGACGGGGAATGCGTCTGCGAAGAGGCCTACACGGGCGAGGACTGCAGCGAGCTGAGGTGCCCCGGGGACTGTTCAGGGAAGGGGATCTGTGCCAACGGTACCTGCCTGTGCCAGGAAGGCTACGTCGGTGAGGACTGCGGCCAGCGGCGGTGTCCAAATGCCTGCAGCGGCCGAGGACACTGCCAGGAGGGGCTGTGCCTCTGTGAAGAGGGCTTCCAGGGCCCTGACTGCTCAGCAG
Seq A exon
TTGCCCCTCCAGAGGACTTGCGAGTGGCTGGTATCAGCGACAGGTCCATTGAGCTGGAATGGGACGGGCCGATGGCAGTGACGGAATATGTGATCTCTTACCAG
Seq C2 exon
CCGACGGCCCTGGGGGGCCTCCAGCTCCAGCAGCGGGTGCCTGGAGATTGGAGTGGCGTCACCATCTCAGAGCTGGAGCCAGGTCTCACCTACAACATCAGCGTCTACGCTGTCATTAGCAACATCCTCAGCCTTCCCATCACTGCCAAGGTGGCCACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011706-1-2,1-1-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9),PF079748=EGF_2=WD(100=16.9)
A:
NA
C2:
PF0004116=fn3=WD(100=87.6)
Main Skipping 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:
GATCTGTGCCAACGGTACCTG
R:
CGCTGATGTTGTAGGTGAGACC
Band lengths:
258-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development