RnoEX0023241 @ rn6
Exon Skipping
Gene
ENSRNOG00000016281 | Col4a1
Description
collagen type IV alpha 1 chain [Source:RGD Symbol;Acc:1307148]
Coordinates
chr16:83585238-83586197:+
Coord C1 exon
chr16:83585238-83585327
Coord A exon
chr16:83585419-83585463
Coord C2 exon
chr16:83586153-83586197
Length
45 bp
Sequences
Splice sites
3' ss Seq
GCATCTCTGTTCTGTTATAGGGT
3' ss Score
9.67
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
Exon sequences
Seq C1 exon
GGAGAGAGAGGCTTTCCAGGGTTACAAGGTGTCATTGGATTTCCTGGGATGCAAGGACCTGAGGGGCCACATGGACCACCAGGACAAAAG
Seq A exon
GGTGATGCTGGAGAACCTGGACTTCCTGGAACGAAAGGGACACGA
Seq C2 exon
GGACCCCCTGGAGCAGCTGGCTACCCTGGGAATCCCGGACTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016281-'9-7,'9-6,10-7
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(46.8=100),PF0139113=Collagen=FE(33.0=100)
A:
PF0139113=Collagen=PD(9.7=40.0),PF0139113=Collagen=FE(15.9=100)
C2:
PF0139113=Collagen=FE(15.9=100),PF0139113=Collagen=PU(8.3=33.3)
Main Skipping 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:
GAGAGAGAGGCTTTCCAGGGT
R:
AGGAAGTCCGGGATTCCCAG
Band lengths:
134-179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]