RnoEX6040605 @ rn6
Exon Skipping
Gene
ENSRNOG00000014851 | Col4a4
Description
collagen type IV alpha 4 chain [Source:RGD Symbol;Acc:1305355]
Coordinates
chr9:88279064-88282589:-
Coord C1 exon
chr9:88282521-88282589
Coord A exon
chr9:88280094-88280201
Coord C2 exon
chr9:88279064-88279282
Length
108 bp
Sequences
Splice sites
3' ss Seq
GTTCATTTGTTTTTGCCTAGGTC
3' ss Score
7.79
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
Exon sequences
Seq C1 exon
GTGACTCCATTCCATGTAATGTAACCTACCCGGGGAAACCAGGTCCGCCAGGTTTTGATGGACCTCCAG
Seq A exon
GTCTGAAGGGGTTTCCAGGACCCCCTGGGGCTCCTGGTATGAGATGTCCAGTTGGACAGAAAGGTCAGCGGGGCAAACCGGGAATGCCTGGAATTCCAGGTCCACCTG
Seq C2 exon
GTTTCCGTGGTGTCGTGGGAGATCCAGGCATCAAAGGTGAAAGGGGGACCTCCCCTTTTGGACCCCCAGGTCCACCTGGGCCTCCTGGAATGGATGGCCAGAAAGGAATGCCAGGAGACTCTGCATTTGGTGACCCGGGGCCCCCTGGAGAGAGGGGTCTTCCAGGAGCACCCGGCATGAAAGGACAGAAAGGTTACCCAGGATGCCCCGGGGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014851-'39-45,'39-44,41-45=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(7.8=20.8),PF0139113=Collagen=FE(31.5=100),PF0139113=Collagen=PU(25.0=70.8)
A:
PF0139113=Collagen=PD(26.0=51.4),PF0139113=Collagen=FE(52.9=100),PF0139113=Collagen=PU(32.3=54.1)
C2:
PF0139113=Collagen=PD(20.6=18.9),PF0139113=Collagen=PD(66.1=55.4),PF0139113=Collagen=PU(71.8=75.7),PF0139113=Collagen=PU(0.1=0.0)
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:
ATGTAACCTACCCGGGGAAAC
R:
TTTCTGTCCTTTCATGCCGGG
Band lengths:
242-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]