BtaEX0009612 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013103 | COL1A1
Description
Bos taurus collagen, type I, alpha 1 (COL1A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034039]
Coordinates
chr19:37094324-37096809:+
Coord C1 exon
chr19:37094324-37094422
Coord A exon
chr19:37094509-37094553
Coord C2 exon
chr19:37096756-37096809
Length
45 bp
Sequences
Splice sites
3' ss Seq
CACCTCTCTCTGTGGCACAGGGC
3' ss Score
6.5
5' ss Seq
AATGTAAGT
5' ss Score
8.62
Exon sequences
Seq C1 exon
GGTGAAGGTGGTCCCCAAGGACCCCGAGGTTCTGAAGGTCCCCAGGGTGTACGTGGTGAGCCTGGCCCCCCTGGCCCTGCTGGTGCTGCTGGCCCTGCT
Seq A exon
GGCAACCCTGGTGCTGATGGACAGCCTGGTGCTAAAGGAGCCAAT
Seq C2 exon
GGAGAGCCTGGAAAAGCTGGAGAGCGAGGTGTTCCTGGACCCCCTGGCGCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013103_MULTIEX1-12/41=11-20
Average complexity
C2
Mappability confidence:
89%=93=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(3.3=6.1),PF0139113=Collagen=PU(48.3=87.9)
A:
PF0139113=Collagen=FE(23.3=100)
C2:
PF0139113=Collagen=FE(18.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAAGGTGGTCCCCAAGGA
R:
TCCAGGAACACCTCGCTCTC
Band lengths:
137-182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development