RnoALTD0004392-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000018798 | Bcan
Description
brevican [Source:RGD Symbol;Acc:2194]
Coordinates
chr2:187370019-187372516:-
Coord C1 exon
chr2:187372416-187372516
Coord A exon
chr2:187372364-187372415
Coord C2 exon
chr2:187370019-187370127
Length
52 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TTTCATCTTTCCTCTTCAAGTTC
3' ss Score
8.73
Exon sequences
Seq C1 exon
CGTCTGCGTCCCGCGCGCCCGGCCCTGCTCGCGCCCGCGCATTGCGCCGCAGTCTCGGCTGCGGCTGCGGGACGCGCGGTGTGTGGAGGGGACCTCACAAG
Seq A exon
GTGAGTGCGGAGGCCTGGCCCTGTCTGTCGCTTACTTGCTGTGTGACCTTGG
Seq C2 exon
TTCTTCCAAGTTTGCAGCATGATCCCATTGCTTCTGTCCCTGCTGGCAGCTCTGGTCCTGACCCAAGCCCCTGCAGCCCTCGCTGATGACCTGAAAGAAGACAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018798-0-6,1-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0768612=V-set=PU(12.1=54.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
CATTGCGCCGCAGTCTCG
R:
AGGGGCTTGGGTCAGGAC
Band lengths:
134-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]