DreALTD0020809-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000021948 | tnc
Description
tenascin C [Source:ZFIN;Acc:ZDB-GENE-980526-104]
Coordinates
chr5:27972524-27975427:-
Coord C1 exon
chr5:27975305-27975427
Coord A exon
chr5:27975301-27975304
Coord C2 exon
chr5:27972524-27972663
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAAGTAACA
5' ss Score
-1.13
3' ss Seq
CTGTCTCCCCCTGCAGGCAGTCC
3' ss Score
2.95
Exon sequences
Seq C1 exon
GGCTTGGAACACCGAAGGGAATACGCTTTTCTGATGTGACCGATACATCAGCTACTGTTCACTGGACTATGCCACATACCCGTGTAGACAACTACAGGGTCATCTATGTGCCCATTCAGGGTG
Seq A exon
GTAA
Seq C2 exon
TCCTCTGACACTGAGAGTGGATGGAGGAGAGTCTCAAGCCATGCTCTCCAATCTGACCCCTGGTGTCACCTACCAGGTCACGGTCATCGCTGTTAAGGGCTTGGAGGAGAGTGAACCCGGATCTGAAAGGGTCACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021948-17-23,18-23-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.162
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.1=92.9)
A:
NA
C2:
PF0004116=fn3=PD(49.4=83.3)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTATGCCACATACCCGT
R:
AGCATGGCTTGAGACTCTCCT
Band lengths:
106-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]