RnoALTD0007319-4/7 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000003897 | Col1a1
Description
collagen type I alpha 1 chain [Source:RGD Symbol;Acc:61817]
Coordinates
chr10:82760191-82760711:+
Coord C1 exon
chr10:82760191-82760206
Coord A exon
chr10:82760207-82760380
Coord C2 exon
chr10:82760521-82760711
Length
174 bp
Sequences
Splice sites
5' ss Seq
AGAGCGGTA
5' ss Score
-23.58
3' ss Seq
CGTTGCCCTGCCCACTTCAGGAG
3' ss Score
8.15
Exon sequences
Seq C1 exon
AAGTCTCAAGATGGTG
Seq A exon
GCCGTTACTACCGGGCCGATGATGCCAACGTGGTCCGTGACCGTGACCTTGAGGTGGACACTACCCTCAAGAGCCTGAGCCAGCAGATTGAGAACATCCGCAGCCCTGAGGGCAGCCGCAAGAACCCCGCCCGCACATGCCGTGACCTCAAGATGTGCCACTCTGACTGGAAGA
Seq C2 exon
GAGAGTACTGGATCGACCCTAACCAAGGCTGCAACCTGGATGCCATCAAGGTCTACTGCAACATGGAGACAGGTCAGACCTGTGTGTTCCCCACTCAGCCCTCTGTGCCTCAGAAGAACTGGTACATCAGCCCAAACCCCAAGGAGAAGAAGCATGTCTGGTTTGGAGAGAGCATGACCGATGGATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003897-99-62,100-62,101-62,102-62,103-62,104-62,105-62-4/7
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.863 A=NA C2=0.109
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(27.0=17.9),PF0141013=COLFI=PU(12.3=28.4)
A:
NA
C2:
PF0141013=COLFI=FE(28.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
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]