RnoALTD0014834-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000008346 | Itgb6
Description
integrin beta 6 [Source:RGD Symbol;Acc:1303119]
Coordinates
chr3:46726700-46728054:-
Coord C1 exon
chr3:46727315-46728054
Coord A exon
chr3:46726968-46727314
Coord C2 exon
chr3:46726700-46726775
Length
347 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
TTTTTAATCTGTCTGCACAGTGA
3' ss Score
7.9
Exon sequences
Seq C1 exon
ATACAAATAAATGATTCCTATGTGCCAAGCCGGGAGCTGGGAGGCTTTCCTTTCCTTTCCTTTCCTTTTTTTTTTTTTTTTTTTAACCTTGCTTTTAGTAATCATTTGTTTGCTTTGCGATCTTGGTACTTGAAGAGGCGCGCAGGACCTTCTGTGTGTCCAGCGAATGCTCTCTGTCGTCACCGCCCTGGAAGAATGCTCTAGAGACAGATTCAGAATCTTGGCTGCGATTGTTTCTCCCTGCATTGTTTCTGTTGTTACGCTGAGGCTTTCTTTCCATCCAGTTGATCTCCATATACAGTGCTTTTTAATGCACTTTTAAAAAAATAAGAATTCTGGGCGTGTGAAAAAAATACCTCTTATATAATTTGAAAGATAAGAAAACAGTGTTTGGTTCTCCTTTGCCTAACTTCTAATTTGACTGTAAAATAATGTTTTTATTTTCCAGAGCTCGTTTGAATTCTCTGCAGAGGCTCTAACATGAAAACCAAAAATTTCAG
Seq A exon
GTATTTTCGGTTGGCTTTTTTTTTTTTTTTTAATTAGCCTTCCTTATATTTAGCTTAAGTTCTGGTGTTTTGCTTCACATCCTCACTGCCTTAAACTAAAAATTGTCATAAGAAGCATACATTTAAATCCGTCTTTTGACAGCTCCTTGATTAGCATTTCACTGAAGAGACCGAGTCTCTCTAGGATACAGTACAGCTAATAGAATGCTCACACATAAAAATGTCTCCTGCACCCGAGTCTCCCCACCTTCTCGGTGATTGCACACCTGACTTCCTTATAAGGCGAATGAGGAAGTACGCATGTTGAAGTTGCTTTTAAACACAGCTTTTCTTCTTTGCCTGGCCAG
Seq C2 exon
TGAAAACTGAACCGAATGGGGATTGAGCTGGTCTGCCTGTTCCTGCTACTTCTAGGAAGGAATGATCACGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008346-3-1,4-1-2/2
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:
NO
Main Inclusion Isoform:
NA
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCCTGGAAGAATGCTCTAG
R:
GACCAGCTCAATCCCCATTCG
Band lengths:
350-697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]