DreALTA0013400-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000003903 | hapln2
Description
hyaluronan and proteoglycan link protein 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8089]
Coordinates
chr16:29371199-29372217:+
Coord C1 exon
chr16:29371199-29371558
Coord A exon
chr16:29372101-29372120
Coord C2 exon
chr16:29372121-29372217
Length
20 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGC
5' ss Score
7.26
3' ss Seq
GTTTTAATAATGTATTTCAGGGG
3' ss Score
7.84
Exon sequences
Seq C1 exon
ACAAGGACAAAGAGTTAAAATACCTGCTGGAGCCTCTGGTGTTTGCTGAAGTCTCTGCTCGTCGTGGACACGCAGCCATTTTGCCCTGTGTGATGAGATTCAAACCATCGCATTACAGAGTGAAGTGGACTAAACTCGAGCCCTCTTCTCGTGGAGTGGAGAACATAGTGCTCATCACAAACGGTCATGCAGATAAGCAGTACGGCTCTGTTGGGCCTCGAGCGGCCCTCCAGCGAGCTCATGATCTGGACGTTTCTCTGCGACTCTCTGACCTGGAGCTGGAAGACGACGGCAGTTACCGCTGTGAACTCATCAACGGCATCGAGGACGAAAGTGTCATTATTACTCTGAGGATTGAGG
Seq A exon
GGGTTGTATTTCCTTATCAG
Seq C2 exon
AGTCAAAAAGGACGGTACAGATTTACTTTCTTTGATGCTAAAGAAGCTTGTGCTGAACAGGATGCAACCCTTGCCACCTACAAGCAGCTTTACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000003903-2-3,2-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=FE(80.0=100),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0768612=V-set=PD(9.3=35.0),PF0019312=Xlink=PU(41.1=97.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
CTCATCAACGGCATCGAGGAC
R:
TGCATCCTGTTCAGCACAAGC
Band lengths:
118-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]