RnoALTD0020030-3/4 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000000341 | Nid2
Description
nidogen 2 [Source:RGD Symbol;Acc:1311685]
Coordinates
chr15:4896672-4897737:-
Coord C1 exon
chr15:4897414-4897737
Coord A exon
chr15:4897383-4897413
Coord C2 exon
chr15:4896672-4896829
Length
31 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
ATCTTAAAACTTGTCCACAGCAA
3' ss Score
6.13
Exon sequences
Seq C1 exon
GCTCCAAGATCTAGAATCTAGAGGACAATGTCACTTGAGCCTTCACGGAGGGTTGGCCACTCATCTCCAAGGATACTGCTCACTGAGTGGATCTCAGCCTGCCACAAAGTGGAAACTGCTCTCTCTTCCTGCCACCCACGAGGAGTGATGCCCGCAGCAGAGGAAACTCCGCTTCTCTCCTTTCTGTGGGGTTCTCTGTGGCTCAACCAACAAATAGCTCTAGCTCTCATGGAACTCTCACTGTTCTTGCTCTGTAGTAACCCTGCATCCATGTGTATAACTTCCAGTTAATGAGATCCCGCTTTCTGAGGATGTGTGCATTAG
Seq A exon
GTCAGAGTGCTTCTGTCCAGGTCATTGTCAG
Seq C2 exon
CAACTTGTACTGGACAGACTGGAATAGAGAAGCTCCTAAAATTGAAACATCATCTTTAGATGGTGAAAACAGAAGAATTCTGATCAACAAAGATATTGGATTACCCAATGGATTGACCTTTGACCCCTTCTCCAAACTTCTCTGCTGGGCAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000341-34-28,35-28,36-28,37-28-3/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=79.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENSRNOT00000082196fB9638
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:
GCTCTGTAGTAACCCTGCATCC
R:
AGGAGCTTCTCTATTCCAGTCTGT
Band lengths:
113-144
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]