BtaEX0009614 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000013103 | COL1A1
Description
Bos taurus collagen, type I, alpha 1 (COL1A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001034039]
Coordinates
chr19:37094650-37096809:+
Coord C1 exon
chr19:37094650-37094748
Coord A exon
chr19:37094877-37094930
Coord C2 exon
chr19:37096756-37096809
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCTTCTCCCCCCTACTCAGGGT
3' ss Score
8.79
5' ss Seq
CCCGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGCGCTCCTGGTATTGCTGGTGCTCCTGGCTTCCCTGGTGCCCGAGGCCCCTCTGGACCCCAGGGCCCCAGCGGCCCCCCTGGCCCCAAGGGTAACAGC
Seq A exon
GGTGAACCTGGTGCTCCTGGCAGCAAAGGAGACACTGGCGCCAAGGGAGAACCC
Seq C2 exon
GGAGAGCCTGGAAAAGCTGGAGAGCGAGGTGTTCCTGGACCCCCTGGCGCTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013103_MULTIEX1-14/41=13-20
Average complexity
C3
Mappability confidence:
91%=88=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(23.3=42.4),PF0139113=Collagen=PU(42.7=97.0)
A:
PF0139113=Collagen=FE(22.7=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:
CTGGTATTGCTGGTGCTCCTG
R:
GTCCAGGAACACCTCGCTCTC
Band lengths:
132-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development