DreALTD0020918-2/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000001760 | tnxb
Description
tenascin XB [Source:ZFIN;Acc:ZDB-GENE-070103-5]
Coordinates
chr16:16717859-16719600:-
Coord C1 exon
chr16:16719460-16719600
Coord A exon
chr16:16719449-16719459
Coord C2 exon
chr16:16717859-16717955
Length
11 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
CTGTTGTTTTACAAATTCAGGTT
3' ss Score
8.51
Exon sequences
Seq C1 exon
CCCAGCTTCCACACCCATATCCCACAGACTGCTCAGAGGTGCAGATCAATGGGATGAAGGAGTCAGGAGAGGCTGAGATCTACCCTGAAGGGAAGAATGGAGAGCCGGTCAGGGTGTACTGTGACATGGAAACAGATGGAG
Seq A exon
GTGCCTGGACA
Seq C2 exon
GTTTTCCAGAGAAGAATGGATGGATCCACAGATTTCTTTAGGAGCTGGAGAGACTATAGTAAAGGCTTTGGTCTCTTAAGTGGAGAATTCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001760-11-11,12-11,13-11-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(23.7=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(17.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
GAAGGGAAGAATGGAGAGCCG
R:
CCAGCTCCTAAAGAAATCTGTGGA
Band lengths:
103-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]