BtaEX6105406 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011741 | COL13A1
Description
Bos taurus collagen, type XIII, alpha 1 (COL13A1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105433]
Coordinates
chr28:26376056-26377261:+
Coord C1 exon
chr28:26376056-26376100
Coord A exon
chr28:26376472-26376624
Coord C2 exon
chr28:26377163-26377261
Length
153 bp
Sequences
Splice sites
3' ss Seq
GTTGTTGATCTTTTCTCGAGGGA
3' ss Score
-4.72
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
Exon sequences
Seq C1 exon
GGGGAGATTGGACTGCCAGGCCCTCCTGGACTCGATGGGGAAAAG
Seq A exon
GGACCTCGAGGCAAACCAGGAGATGTGGGCCCTCCTGGTCCCCAAGGCCCCCCAGGAAAGCCTGGGCCTGCAGGAATGAAGGGAGAAGACGGCCTCCCGGGGAGCCCAGGAGAGAAGGGGGAGAAAGGGGAGACGGGGCAGCCGGGACCACCG
Seq C2 exon
GGTCTAGACGGCCCAACTGGGGAGAAAGGAGAACCAGGTGACCAAGGGAGACCCGGAGCGACTGGACTTCCTGGCCCAATCGGGCTCCCAGGATTTATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011741-'31-31,'31-30,32-31=AN
Average complexity
A_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(22.6=100),PF0139113=Collagen=PU(12.9=73.3)
A:
PF0139113=Collagen=PD(37.1=45.1),PF0139113=Collagen=FE(58.8=100),PF0139113=Collagen=PU(9.0=15.7)
C2:
PF0139113=Collagen=PD(41.1=90.9),PF0139113=Collagen=PU(29.4=60.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATTGGACTGCCAGGCC
R:
TAAATCCTGGGAGCCCGATTG
Band lengths:
139-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]