GgaALTD0004224-3/3 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000010566 | NPNT
Description
nephronectin [Source:HGNC Symbol;Acc:HGNC:27405]
Coordinates
chr4:38020425-38021476:-
Coord C1 exon
chr4:38021357-38021476
Coord A exon
chr4:38021342-38021356
Coord C2 exon
chr4:38020425-38020543
Length
15 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCTT
5' ss Score
-1.17
3' ss Seq
TGTTCCATTATTGTCCCTAGGTG
3' ss Score
10.07
Exon sequences
Seq C1 exon
ATCTAAACGAGTGTGGACTGAAGCCCCGGCCATGCAAACACCGGTGCATGAATACCTACGGCAGCTACAAGTGCTACTGTCTGAATGGCTACATGCTTCTGCCAGATGGAACGTGCTCCA
Seq A exon
GTACGGCAAGGCTTG
Seq C2 exon
GTGCCCTTTCTTGTCAATGGCAAACTGTCAGTATGGCTGCGATGTGCTGAAAGGGGAAGTGCGCTGCCGCTGTCCTTCTCCAGGCCTGCAGCTGGGGCCTGATGGTAGAACCTGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010566-14-9,15-9,16-9-3/3
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=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=82.9),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCAGCTACAAGTGCTACTG
R:
TTTCAGCACATCGCAGCCATA
Band lengths:
114-129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]