BtaEX0009660 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000017282 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr6:17660917-17663416:+
Coord C1 exon
chr6:17660917-17660970
Coord A exon
chr6:17662382-17662408
Coord C2 exon
chr6:17663363-17663416
Length
27 bp
Sequences
Splice sites
3' ss Seq
CTACTGTGGTTCTTTGGCAGGGG
3' ss Score
6.7
5' ss Seq
GATGTAAGT
5' ss Score
9.11
Exon sequences
Seq C1 exon
GGTGAAAAAGGAGCTATGGGAGAGCCGGGACCCCGAGGGCCGTATGGTCTGCCC
Seq A exon
GGGAAAGATGGAGAGCCTGGTCTTGAT
Seq C2 exon
GGTTTCCCTGGTCCACGAGGCGAGAAGGGTGACCTGGGAGAAAAGGGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017282_CASSETTE3
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=FE(18.7=100),PF0139113=Collagen=PU(18.9=77.8)
A:
PF0139113=Collagen=FE(10.3=100),PF0139113=Collagen=FE(11.3=100)
C2:
PF0139113=Collagen=PD(9.9=50.0),PF0139113=Collagen=FE(23.0=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAAAGGAGCTATGGGAGAGC
R:
TTTCCCCCTTTTCTCCCAGGT
Band lengths:
104-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development