DreEX0023335 @ danRer10
Exon Skipping
Gene
ENSDARG00000052061 | col4a6
Description
collagen, type IV, alpha 6 [Source:ZFIN;Acc:ZDB-GENE-101001-2]
Coordinates
chr7:50668561-50671959:-
Coord C1 exon
chr7:50671776-50671959
Coord A exon
chr7:50671010-50671060
Coord C2 exon
chr7:50668561-50668632
Length
51 bp
Sequences
Splice sites
3' ss Seq
CTTGCATGTTGTTTGACTAGGTG
3' ss Score
7.84
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
Exon sequences
Seq C1 exon
GGGGAACCTGGTTTTGGCTTGACTGGAGATAAAGGTTTTCCTGGTATTCCAGGGTCCAAAGGTCGCCCAGGTGCCAGTGGCGAACCTGGTATTGGCTATCCAGGTGTAGCTGGGTTCAAAGGAATGCAAGGTGAACCTGGATTCAATGGTCTTCCTGGTCCCCCTGGACCTCCAGGTTCTAAAG
Seq A exon
GTGACAGCTGTAGGCAGGCGGGGCTTATTGATGCCTCTTTGGAAGAGGGAG
Seq C2 exon
GAACACCACTACCCTGTAGGCTTCCTGGTATACAAGGAGATAAAGGATTCCCTGGACGTCCTGGAGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052061_CASSETTE2
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=PD(25.5=22.6),PF0139113=Collagen=PU(90.5=91.9)
A:
PF0139113=Collagen=PD(7.9=27.8)
C2:
PF0139113=Collagen=PU(32.1=72.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGTGTAGCTGGGTTCAA
R:
AGGACGTCCAGGGAATCCTTT
Band lengths:
148-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]