HsaALTA0003896-3/4 @ hg38
Alternative 3'ss
Gene
ENSG00000132702 | HAPLN2
Description
hyaluronan and proteoglycan link protein 2 [Source:HGNC Symbol;Acc:HGNC:17410]
Coordinates
chr1:156623807-156624467:+
Coord C1 exon
chr1:156623807-156624160
Coord A exon
chr1:156624351-156624391
Coord C2 exon
chr1:156624392-156624467
Length
41 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GGATCCCCGCCACCCCCTAGGTG
3' ss Score
5.8
Exon sequences
Seq C1 exon
CATCCCACCCGGGCCCCCACTACCTCCTGCCCCCCATCCACGAGGTCATTCACTCTCATCGTGGGGCCACGGCCACGCTGCCCTGCGTCCTGGGCACCACGCCTCCCAGCTACAAGGTGCGCTGGAGCAAGGTGGAGCCTGGGGAGCTCCGGGAAACGCTGATCCTCATCACCAACGGACTGCACGCCCGGGGGTATGGGCCCCTGGGAGGGCGCGCCAGGATGCGGAGGGGGCATCGACTAGACGCCTCCCTGGTCATCGCGGGCGTGCGCCTGGAGGACGAGGGCCGGTACCGCTGCGAGCTCATCAACGGCATCGAGGACGAGAGCGTGGCGCTGACCTTGAGCTTGGAGG
Seq A exon
GTGTGGTGTTTCCGTACCAACCCAGCCGGGGCCGGTACCAG
Seq C2 exon
TTCAATTACTACGAGGCGAAGCAGGCGTGCGAGGAGCAGGACGGACGCCTGGCCACCTACTCCCAGCTCTACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132702-7-19,7-18,7-17,7-16-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(98.3=97.5),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=PU(41.1=97.5)
Main Skipping Isoform:
NA
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:
CTAGACGCCTCCCTGGTCATC
R:
CCTGCTTCGCCTCGTAGTAAT
Band lengths:
140-181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains