RnoALTD0031352-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000058645 | Tnc
Description
tenascin C [Source:RGD Symbol;Acc:621057]
Coordinates
chr5:79805182-79806561:-
Coord C1 exon
chr5:79806479-79806561
Coord A exon
chr5:79806439-79806478
Coord C2 exon
chr5:79805182-79805325
Length
40 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
TTGCTTTTGATAATCTCCAGGTC
3' ss Score
8.62
Exon sequences
Seq C1 exon
CCATGGGTTCTCCGAAGGAAATCATGTTCTCAGACATCACTGAAAATGCAGCCACAGTCAGCTGGAGAGCACCGACTGCTCAA
Seq A exon
GTGGAGAGTTTCCGGATTACTTATGTGCCTGTAACAGGAG
Seq C2 exon
GTCCCCCATCCATGGTGACCGTGGATGGGACGGATACTGAGACCCGACTGGTGAGGCTCACCCCTGGAGTGGAGTACCACGTCAGTGTGATTGCCATGAAGGGATTTGAAGAAAGTGATCCGGTCTCGGGGTCTCTAATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058645-27-40,28-40-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.063 A=NA C2=0.388
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=92.9)
A:
NA
C2:
PF0004116=fn3=PD(50.0=81.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAATGCAGCCACAGTCAGCT
R:
ATGGCAATCACACTGACGTGG
Band lengths:
138-178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]