BtaEX6030116 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017282 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr6:17646717-17660970:+
Coord C1 exon
chr6:17646717-17646743
Coord A exon
chr6:17656218-17656271
Coord C2 exon
chr6:17660917-17660970
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTATTTTTATCTTTTTTTAGGGT
3' ss Score
12.11
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGACCCCATGGGCTTCCTGGACCAAAG
Seq A exon
GGTACAGATGGCCCTATGGGACCCCATGGCCCTGCAGGTCCCAAAGGAGAAAGA
Seq C2 exon
GGTGAAAAAGGAGCTATGGGAGAGCCGGGACCCCGAGGGCCGTATGGTCTGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017282-'26-33,'26-32,29-33=AN
Average complexity
A_C2
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(10.3=100),PF0139113=Collagen=FE(11.8=100)
A:
PF0139113=Collagen=PD(12.7=44.4),PF0139113=Collagen=FE(31.5=100),PF0139113=Collagen=PU(22.6=77.8)
C2:
PF0139113=Collagen=FE(18.7=100),PF0139113=Collagen=PU(18.9=77.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCATGGGCTTCCTGGA
R:
GGCAGACCATACGGCCCTC
Band lengths:
77-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]