RnoEX0023357 @ rn6
Exon Skipping
Gene
ENSRNOG00000018951 | Col4a5
Description
collagen type IV alpha 5 chain [Source:RGD Symbol;Acc:1565499]
Coordinates
chrX:112967237-112971025:+
Coord C1 exon
chrX:112967237-112967308
Coord A exon
chrX:112969591-112969738
Coord C2 exon
chrX:112970897-112971025
Length
148 bp
Sequences
Splice sites
3' ss Seq
TCTATACCTATTCTTCCTAGATT
3' ss Score
6.4
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
Exon sequences
Seq C1 exon
GAATGAAAGGACCCATTGGAGTACCAGGCTCAACTGGCCCTGATGGGGAACCAGGTCTTACGGGGCCCCCAG
Seq A exon
ATTTGGTCTCTTTATAGTGGCCCAGAGGTCCTGTATCTTCCATTATTGGAATTCGTTGGATTTGACATTTTCTTTGGCTGAGTGATCCAATTCTTCTACCTATTCTTCAAGACCTAATATTCTCTCTTCCACTTGGTCTAATCTAATG
Seq C2 exon
GTCCTCCTGGGTTGCCTGGTCCTTCAGGACAGAGTATTGTAATCAAAGGAGATCCTGGACCTCCAGGAATTCCTGGACAACCTGGATTAAAAGGTCTACCAGGACTTCCAGGCCCTCAAGGTCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018951_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(23.8=80.0)
A:
NO
C2:
PF0139113=Collagen=PU(9.1=13.6)
Main Inclusion Isoform:
ENSRNOT00000064478fB3408
Other Inclusion Isoforms:
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGAAAGGACCCATTGGAGTACC
R:
GACCTTGAGGGCCTGGAAGTC
Band lengths:
194-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]