BtaALTD0005711-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000019807 | COL27A1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MTP1]
Coordinates
chr8:105148236-105157205:+
Coord C1 exon
chr8:105148236-105148272
Coord A exon
chr8:105148273-105148280
Coord C2 exon
chr8:105157152-105157205
Length
8 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAAG
5' ss Score
6.84
3' ss Seq
GCTCTCTCTCATGCCCTCAGGGG
3' ss Score
9.67
Exon sequences
Seq C1 exon
GGTCTGCCTGGCGTTCCTGGCAAGAGGGGCAAGATGG
Seq A exon
GTAGGCCG
Seq C2 exon
GGGTTTCCTGGAGACTTTGGGGAAAGAGGCCCTCCAGGACTGGATGGAAACCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019807-20-13,21-13-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(16.9=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.5=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:
CTGGCGTTCCTGGCAAGAG
R:
AGGGTTTCCATCCAGTCCTGG
Band lengths:
84-92
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development