RnoEX6040613 @ rn6
Exon Skipping
Gene
ENSRNOG00000014851 | Col4a4
Description
collagen type IV alpha 4 chain [Source:RGD Symbol;Acc:1305355]
Coordinates
chr9:88237930-88241555:-
Coord C1 exon
chr9:88241439-88241555
Coord A exon
chr9:88240411-88240599
Coord C2 exon
chr9:88237930-88238216
Length
189 bp
Sequences
Splice sites
3' ss Seq
CTTGTTCTTTCTTTCTCTAGGTC
3' ss Score
13.47
5' ss Seq
TTGGTATGG
5' ss Score
5.53
Exon sequences
Seq C1 exon
GGTGCAAAGGAGAGGCTGGCCTGGATGGTAGGCGGGGCCAGGACGGCATCCCTGGATCTCCAGGACCTCCGGGACGCAATGGTGACACTGGAGAGGCGGGCCGTACTGGAGCACCGG
Seq A exon
GTCCTCCTGGTATGACTGGTGATCCTGGGCCCAAGGGGTTTGGCCCTGGATACCTCAGTGGCTTCCTCCTGGTTCTCCACAGTCAGACAGATCAAGAACCGGCCTGCCCTGTGGGCATGCCTCGGCTTTGGACAGGGTACAGCTTGTTATACTTGGAAGGACAGGAGAAGGCACACAATCAGGATCTTG
Seq C2 exon
GTTTGGCAGGATCTTGTCTTCCTGTGTTTAGCACTCTGCCCTTTGCTTACTGCAACATCCACCAAGTGTGCCACTATGCCCAGAGAAATGACAGGTCCTACTGGCTGTCCAGTGCAGCTCCTCTTCCTATGATGCCACTCTCGGAGGAAGAGATCCGCCCTTATGTCAGCCGCTGTGCAGTGTGTGAGGCCCCAGCCCAGGCGGTGGCTGTCCACAGTCAGGACCAGTCCATCCCACCGTGTCCACAGACGTGGAGGAGCCTCTGGATCGGGTACTCATTTCTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014851-'65-76,'65-75,67-76=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=0.267 C2=0.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(45.3=61.5),PF0139113=Collagen=FE(66.7=100)
A:
PF0139113=Collagen=PD(28.1=25.4),PF0141314=C4=PU(38.9=66.7)
C2:
PF0141314=C4=PD(59.3=66.7),PF0141314=C4=PU(25.6=31.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTGGCCTGGATGGTAG
R:
TTCCTCCGAGAGTGGCATCAT
Band lengths:
254-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]