BtaALTD0005666-1/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000013369 | COL14A1
Description
collagen, type XIV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2191]
Coordinates
chr14:84068000-84077994:+
Coord C1 exon
chr14:84068000-84076163
Coord A exon
NA
Coord C2 exon
chr14:84077959-84077994
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGA
5' ss Score
7.16
3' ss Seq
GACAATTTACTATTTTGCAGGGT
3' ss Score
7.45
Exon sequences
Seq C1 exon
AGAGGAGCCTGGCAGGCTACAGTCCACAGGGTCACAAAGAGTCTGACATGACTGAGCAACTGAGCATACACATGGTTAAATATATACAATAATAAAGATTTAGTATGAAATAGGTGGTCTTTGAATTGAGTATTGCATTAGAATATTGCTGATACTTGGTATATAAGATATTCTCTTAATACCTTTCTCACAAGTGTTCTGATATACTGACTAGACCAGGTCTGCGAGAATGAGAAGTTTTACTTTTGATAAGCAGATGATAGTGGAAGTTGAGGCCACGGATCAGTAACATGTCTTTGAAAGCGAGGACTCTGACTTTGTCACATGGATATCTAAGAGTCACCGGGTGACTCTGAATACAGGAAGAGCTGCTGTCGGTCCGAAGTCACTCAGCTTCCTGAACTGCATCCTGAACTGCATCAGGAGGACGAGACTCGTGGTTGTGCAGAGGATGAACTGAAGAGGAGGGTCTTTCGTTAGGGAAGCTGGCTTGAAGGAAG
Seq A exon
NA
Seq C2 exon
GGTGTCCCTGGAGCAAAGGGAGAGAGGGGAGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013369-52-57,53-57,54-57-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0139113=Collagen=FE(18.0=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGGTCTGCGAGAATGAGA
R:
CCTTTGCTCCAGGGACACC
Band lengths:
305-529
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development