DreALTD0000761-1/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000101258 | COL27A1 (2 of 2)
Description
collagen, type XXVII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:22986]
Coordinates
chr16:51942777-51945034:+
Coord C1 exon
chr16:51942777-51942813
Coord A exon
NA
Coord C2 exon
chr16:51944981-51945034
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATA
5' ss Score
4.18
3' ss Seq
TTTCACTGTTTGTCTCTCAGGGT
3' ss Score
11.29
Exon sequences
Seq C1 exon
GGCGTCCCGGGGAACATGGGCGAGTCCGGACTGAAAG
Seq A exon
NA
Seq C2 exon
GGTGACGTTGGGCTTCCTGGAGAACAAGGAGAGATTGGCTTCCAAGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101258-15-12,16-12-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(6.7=27.8)
Main Inclusion 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
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCCCGGGGAACATGGG
R:
CTCCTTGGAAGCCAATCTCTCC
Band lengths:
84-92
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]