RnoALTD0014835-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000008346 | Itgb6
Description
integrin beta 6 [Source:RGD Symbol;Acc:1303119]
Coordinates
chr3:46721459-46722583:-
Coord C1 exon
chr3:46722552-46722583
Coord A exon
chr3:46722379-46722551
Coord C2 exon
chr3:46721459-46721705
Length
173 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
TTTCTCACGGGACATTGCAGGGG
3' ss Score
2.55
Exon sequences
Seq C1 exon
AATTTCACCCACCTGTCCGGAGCTGGCGAAAG
Seq A exon
GTGCGACACCCCCGAGAATCTTTTAGCCAAAGGATGTCAGTTACCCTTCATCGAAAACCCTGTCTCCCAAGTAGAAATACTTCAAAATAAGCCTCTCAGCGTAGGTCGACAGAAAAACAGTTCTGACATTGTTCAGATTGCTCCTCAAAGCTTGGTTCTTAAGTTGAGACCAG
Seq C2 exon
GGGGTGAGCAGACTCTGCAAGTGCAGGTCCGCCAGACGGAAGATTACCCAGTAGATCTGTATTACCTCATGGACCTCTCGGCCTCCATGGATGATGACCTCAACACAATCAAAGAGCTTGGCTCCCGGCTGGCCAAAGAGATGTCTAAATTAACCAGCAACTTTAGACTGGGCTTTGGCTCTTTTGTGGAAAAGCCCGTTTCTCCTTTTATGAAAACAACACCAGAGGAAATCACCAACCCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008346-8-5,9-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.096
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(16.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(19.3=100)
Main Skipping Isoform:
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTTCACCCACCTGTCCGGA
R:
TAAAAGGAGAAACGGGCTTTTCCA
Band lengths:
242-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]