RnoALTA0017674-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000018870 | Hapln2
Description
hyaluronan and proteoglycan link protein 2 [Source:RGD Symbol;Acc:621854]
Coordinates
chr2:187397890-187398453:-
Coord C1 exon
chr2:187398312-187398453
Coord A exon
chr2:187397992-187398100
Coord C2 exon
chr2:187397890-187397991
Length
109 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
ACTGTGGCCCCTCTGCTCAGCCC
3' ss Score
5.82
Exon sequences
Seq C1 exon
TACTAAGGCGTGCCTATCAACTGTGCCCTGCAGACAGTGCTTGCTGACATCACCATGCCAAGCTGGATCCCTCTCCCTGCGTTCTGCTGCCTCCTTCTCCCCTGGGCCTTCACCGTCTTTCACAAAACCCTGGGGAACCCCG
Seq A exon
CCCCCCATCCGGGTCCCCACTACCTCCTGCCCCCCATCCACGAGGTCATTCACTCTCGTCGTGGGGCCACGGCCACACTGCCCTGCGTCCTGGGCACCTCGCCTCCCAG
Seq C2 exon
CTACAAAGTACGCTGGAGCAAAGTGGAGCCCGGGGAGCTCCGGGAAACGCTAATCCTCATCACCAACGGACTGCACGCCCGGGACTACGGGCTCCTGGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018870-5-8,5-7-2/2
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:
NO
A:
NA
C2:
PF0768612=V-set=WD(100=94.1),PF0019312=Xlink=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
GTGCCTATCAACTGTGCCCTG
R:
CTCCCAGGAGCCCGTAGTC
Band lengths:
234-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]