DreALTD0012707-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000075707 | nid2a
Description
nidogen 2a (osteonidogen) [Source:ZFIN;Acc:ZDB-GENE-030827-2]
Coordinates
chr17:14800424-14802039:-
Coord C1 exon
chr17:14801926-14802039
Coord A exon
chr17:14801815-14801925
Coord C2 exon
chr17:14800424-14800593
Length
111 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
GATTTTCTTCTATCATCAAGGTA
3' ss Score
5.5
Exon sequences
Seq C1 exon
TTCCTCCAACGCAGCGTCCGGAGAGTGTCTGTGAGCGCTGGAGAGCAAGTCTGTTACAGCAGTATGGAGGTCAGCCAGATTCCCAGCATTATCTACCTCAGTGTGACTCTGCCG
Seq A exon
GTGAGTTCAACCCAGTTCAGTGTTATGGAGGCAGCAGCTACTGCTGGTGTGTGGACGCAAATGGACGAGAAGTACCAGGAACCCGCTCACATGATGCTGTGAAGCCTGCCT
Seq C2 exon
GTATACCTACTGTGGCCTCGCCTACGGTGCACCCTCTCCCACGCCCAGATGTGACTCCGCCTCCTACGGGCACGTCTCTTCTCTACGCCCAGGGCCAGCAGATTGGAGTTTTGCCTCTCAATGGCACACAGATGGATAAGGAGAGATCGTCAGTGCTGCTCGCTTTACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075707-23-32,24-32-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.271 A=NA C2=0.447
Domain overlap (PFAM):
C1:
PF0301610=Exostosin=FE(67.0=100),PF0008613=Thyroglobulin_1=PU(97.0=82.1)
A:
NA
C2:
PF0301610=Exostosin=PD(18.3=36.2),PF0008613=Thyroglobulin_1=PD(1.5=1.7)
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGTGTCTGTGAGCGCTG
R:
GAGCAGCACTGACGATCTCTC
Band lengths:
255-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]