RnoALTD0007313-1/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000003897 | Col1a1
Description
collagen type I alpha 1 chain [Source:RGD Symbol;Acc:61817]
Coordinates
chr10:82748047-82749148:+
Coord C1 exon
chr10:82748047-82748148
Coord A exon
NA
Coord C2 exon
chr10:82749080-82749148
Length
0 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TTTTTCTCTTGTTTTTCTAGAAC
3' ss Score
11.72
Exon sequences
Seq C1 exon
GGACCTGTTGGCCCCCCTGGACAAGATGGCATCCCTGGACAGCCTGGACTTCCTGGTCCTCCTGGTCCCCCCGGCCCCCCCGGACCCCCTGGTCTTGGAGGA
Seq A exon
NA
Seq C2 exon
AACTTTGCTTCCCAGATGTCCTATGGCTATGATGAGAAATCAGCTGGAGTTTCCGTGCCTGGCCCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003897-8-8,9-8-1/2
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=FE(57.9=100)
A:
NA
C2:
PF0139113=Collagen=PD(10.5=26.1),PF0139113=Collagen=PU(6.5=17.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]