HsaINT0074185 @ hg19
Intron Retention
Gene
ENSG00000140511 | HAPLN3
Description
hyaluronan and proteoglycan link protein 3 [Source:HGNC Symbol;Acc:21446]
Coordinates
chr15:89422198-89424956:-
Coord C1 exon
chr15:89424588-89424956
Coord A exon
chr15:89422501-89424587
Coord C2 exon
chr15:89422198-89422500
Length
2087 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGA
5' ss Score
4.74
3' ss Seq
CCTCTTTCCTTCCCCTGCAGGTG
3' ss Score
13.94
Exon sequences
Seq C1 exon
ACCTCCTTAATGGAGTGAAGCTGGTGGTGGAGACACCCGAGGAGACCCTGTTCACCTACCAAGGGGCCAGTGTGATCCTGCCCTGCCGCTACCGCTACGAGCCGGCCCTGGTCTCCCCGCGGCGTGTGCGTGTCAAATGGTGGAAGCTGTCGGAGAACGGGGCCCCAGAGAAGGACGTGCTGGTGGCCATCGGGCTGAGGCACCGCTCCTTTGGGGACTACCAAGGCCGCGTGCACCTGCGGCAGGACAAAGAGCATGACGTCTCGCTGGAGATCCAGGATCTGCGGCTGGAGGACTATGGGCGTTACCGCTGTGAGGTCATTGACGGGCTGGAGGATGAAAGCGGTCTGGTGGAGCTGGAGCTGCGGG
Seq A exon
GTGAGATGCTAACGGGGACTGGGTGACACTGGGACCTGAGAGCAGAGGGGAGAGGACCAGAGAAAACATCCAGACCTCTGTGCTTTAGACATTTAAAAGTACTTAATTCTCAAAACAACCCACATGGAAGCTACTGTTGTGACCCCCATTTTACAGGTGAGAAAACTGAGGCACAGAGAGGTCAAGTAACTTACCTAAGGTCACACAGCTTGTAAACGACAGAGCTGGGGTCTGAACCCAAGCACCCAGCCTCTAGAATCTGTTCCCCTCTACCCGCTGTAATTCACATCTCATTCAGAGAGAGGAAAACCAGAGCTGGTCCCACAGCTTATTAGAGACAGAGCTGAGATTTAAGCAAGGTTAGCGGGTAACACAAGCGAATGAGGCAGCCCACTGTGAGACGATGGGAGTGGTGGGGACTGGGCACACTCCTGAGCCCTTGTCCTGTGCCCAGGGAGCTCCCACACTACTCAGGCCCAGCTGATGATGCCACGCCAGAATGCAGACCCCACTGCCAAATTTTCTGGCTTGACAAGATAAGCTTATATTTTTATGTGAGATCTCCTGATTTTTATGTAAAAACCTCCTTTTTAAAAACAAAACAAAACAAAAAACAAACAAAAAGCCCCCCCAAAACCAAAAACAAAAACCCAGTGCTGTCCAAACCAGCCACACCCTGCAAGCCGGATCTTGTATGTGGGGTCCCTGTTTGATCTTTAATTTGTATTTACCTTCTCTGTCTCTAGGATGGGGCTGTGTGTCCTCACATCTCTCCCACATGTTAGGGAGGCAGTTCGGGGATAGAGGAAGGTGACCTGACTTTAGCCCCAGCCCGTCCCAGCTATGACATGTGGGTAAATGCCTCATCCCCCTTAGAGCCCTGGGCCTCTCAGGTGTAAAATGGGGTATCACAATCTTTCCTCCTTTACCTCCCTCAGAGGCAATGAGGATAAGATGTATGTCCTTAAAATGCGTTCTCTGTCTTTGCCACCAGTGTCCACATGGCTTACATGGTGGCTCAGAGGGGCCGCATTCCTCATTCTTGAAGTTGGGGTGGCAGTGGAGTTGGGGAGAACCTGCAAGAGTCATTGGTCTGGGGTCTGCAGGGGCAGCCTAGAGAAACAGGGAGCCCTCACCCCATTCCCGGGGCTTCAAGGGCTAGGAATTTGGGGTGGAACCAGGCATGAAATAGTCCCCCTGCAAACACACGTAGAGGCTGCAAGCTGACTGTCAGGGCCCATGGGCTTCTCTGCCGCCCAACCTGGCTTTGCCCAGGTGCCTGGCTTCCGGCCCTGGTGAGATCGGAGGTTTGGGGCTCAGGCTGTTCCTGGGTCCTTGGCCACACGGAGGAGATTCCAAAGTGTCCTTCCCAGACCCCTAGGGTCACCTCCACTCCCTAAGGTTTCATTGACTTGGTAGAGACTACATCTCAGAAGTTTAAAAACTTTTTATTAGAGTAAAATTTCAAACACGAACATATCTTTTCAGGGCCTGTGGCCTCTATCAGACCCTGACCACAAGGAGAGAAACCGCCTGCCCCAGACCTCCCTGCCCTTGAGCCTCCTTTATGGAAGGCCCTTCCCCAACCCTCTCCCCACGGCCTCTAGGGCCTCTCCTTCTCCTGAAAATCATCTGCCACACGTGGAAAGTTCCTTGCATTTTCCTAGGAAATTTCCACATTCATAATAACGTAGACGATCGGGTCCCAGCTAACGAGTGGGGAGCTGGGAGTCAAACCTGGCCCCTAGAGCCCAAAGCCCGGGCCTGTCTGGAGAAGATGGCACAGCCTCACTGGGGGTCTGGCGACAGCCTTGCGGATTAGGTTGGGGACATTGTTGGGGACATTAATGGACTAATTAATTACCTTAACTCATGGATGTTTTCTGAGTACTGCTGTGAACCAGCTGAGTCCCAGGAGAGAGGCGGCAACGGACAGGAGGTCAGAGGTTTGCTGAGTTTTTCTGAGGGATGGTGTATGTGTGTGTGTTGCAGGCAGCACATGTCCCAGTGAAGGTGGGAGGAGAGCGGGGTGTCCAGCCAGCTGGGCCCCTGGCCACCCCCTAAGCTCCTCTTTCCTTCCCCTGCAG
Seq C2 exon
GTGTGGTCTTTCCTTACCAGTCCCCCAACGGGCGCTACCAGTTCAACTTCCACGAGGGCCAGCAGGTCTGTGCAGAGCAGGCTGCGGTGGTGGCCTCCTTTGAGCAGCTCTTCCGGGCCTGGGAGGAGGGCCTGGACTGGTGCAACGCGGGCTGGCTGCAGGATGCCACGGTGCAGTACCCCATCATGTTGCCCCGGCAGCCCTGCGGTGGCCCGGGCCTGGCACCTGGCGTGCGAAGCTACGGCCCCCGCCACCGCCGCCTGCACCGCTATGATGTATTCTGCTTCGCTACTGCCCTCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000140511-HAPLN3:NM_178232:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=WD(100=92.7),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=WD(100=94.1),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)