RnoALTD0007272-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000026415 | Col14a1
Description
collagen type XIV alpha 1 chain [Source:RGD Symbol;Acc:1305806]
Coordinates
chr7:95154929-95160792:+
Coord C1 exon
chr7:95154929-95155071
Coord A exon
chr7:95155072-95155080
Coord C2 exon
chr7:95160663-95160792
Length
9 bp
Sequences
Splice sites
5' ss Seq
ACGGTCTGT
5' ss Score
5.11
3' ss Seq
ATATTTGCCTTTGTGCTCAGGTT
3' ss Score
9
Exon sequences
Seq C1 exon
TTCTCCAGACAGGAATCAGAAACCTGGTTGTAGATGATGAAGCTGCTACTAGCCTGCGGGTCACATGGGACATTTCTGACAGCAATGTGGAGCACTTTAGGGTGACCTACCTGACAGCCCAAGGGGACCCTAAGGAAGAAGTG
Seq A exon
GTAGGCACG
Seq C2 exon
GTTATGGTGCCTGGAGTGCAGAACAGTCTCCTTCTGAAAAATCTACTTCCAGACACAGAGTATAAAGTCACGGTGACACCCATCTACACTGTTGGAGAAGGCGTCAGCGTCTCTGCTCCTGGGAAGACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026415-21-21,22-21-2/2
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=0.042 A=NA C2=0.114
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(54.3=91.7)
A:
NA
C2:
PF0004116=fn3=PD(43.2=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACAGCAATGTGGAGCACT
R:
AGGAGACTGTTCTGCACTCCA
Band lengths:
100-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]