RnoALTD0007338-1/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000007657 | Col27a1
Description
collagen type XXVII alpha 1 chain [Source:RGD Symbol;Acc:735115]
Coordinates
chr5:79094712-79095160:+
Coord C1 exon
chr5:79094712-79094761
Coord A exon
NA
Coord C2 exon
chr5:79095116-79095160
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGT
5' ss Score
2.53
3' ss Seq
CCCCCATATTTCTGTTTCAGGGG
3' ss Score
11.5
Exon sequences
Seq C1 exon
GGGCAGCCAGGACCTGAGGGCAGTCCAGGGGCCAAAGGTTACCCTGGCAG
Seq A exon
NA
Seq C2 exon
GGGTTCCCTGGACCTGTAGGAGACCCTGGCCCCAAAGGCAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007657-12-11,13-11-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(20.8=88.9)
A:
NA
C2:
PF0139113=Collagen=PD(5.7=33.3),PF0139113=Collagen=FE(20.6=100),PF0139113=Collagen=FE(18.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCAGCCAGGACCTGAG
R:
TTTGGGGCCAGGGTCTCCTA
Band lengths:
86-90
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]