HsaINT0074016 @ hg19
Intron Retention
Gene
ENSG00000148702 | HABP2
Description
hyaluronan binding protein 2 [Source:HGNC Symbol;Acc:4798]
Coordinates
chr10:115341635-115343117:+
Coord C1 exon
chr10:115341635-115341890
Coord A exon
chr10:115341891-115342974
Coord C2 exon
chr10:115342975-115343117
Length
1084 bp
Sequences
Splice sites
5' ss Seq
CGAGTAGGT
5' ss Score
5.76
3' ss Seq
CATCTCATTTTCCCTTGCAGCAT
3' ss Score
11.22
Exon sequences
Seq C1 exon
ACGTTGCCTACCCAGAGGAAAGCCCCACTGAGCCATCAACCAAGCTTCCGGGGTTTGACTCCTGTGGAAAGACTGAGATAGCAGAGAGGAAGATCAAGAGAATCTATGGAGGCTTTAAGAGCACGGCGGGCAAGCACCCATGGCAGGCGTCCCTCCAGTCCTCGCTGCCTCTGACCATCTCCATGCCCCAGGGCCACTTCTGTGGTGGGGCGCTGATCCACCCCTGCTGGGTGCTCACTGCTGCCCACTGCACCGA
Seq A exon
GTAGGTGCCGCTGGGAGCAGGGACCAGGGTGGCTTGAGTGGCTGGGGGTGCTCTCCCCTTCCCCTCTGAGCAGCATCTTTGTAGCTCTGTCAGGATTAGGGGGTCTGATCTGTTCAAGGGCAAAAGAAGGGCTCCTGAAAGCCAGAGGGAAAATAGCTACCATGTCTGGAATGTTTACCATGGGCACTGCATTTATTATATGACATTTAATCCTTAAAGCTGTCTGCTGGAAGACAAGCTGAGGAAGGTCAGGGATTTTTATCTGTTTTATTAACTGTAGGATCTCCAGTGTCTTGAGCAGGCCTTTGTACATAGCAAGTGCTGAGTAAATATTTGTGGAGGAAAAGAGTTTATTGTTATTCCCTTTTTGTAAGTGAGGATCTTGAATCCCGGGATTCTTCCTTTACCTTGCCTGAAGTTGTATGGAAAGTTAAGTGGACAAGTAAGATGGAAACCCCATTCTATCTGCTTCTTTGACTTCTTTTGTCCTGCCCTGAATAGAGGAAAGCATGCTCCTTTGTCTGATACCATCACCAATGACCCTTCTGAGTCAGGTGTCTTCATCCATGCCTCCTGTGTGCCTTAGAGAAGCAAGTAACTTCTGGGGAGCTGAAGAGTCACCCCCTCTTCTGAGCTCCCTGTGCTCATGGTCAAGGCTGGTCCAACAAAGTCTGGGTTTTGGAGGTGGCCATGAAGGTCTTCCAGTTCACCTTATAGTAAATGATTTCTCTGGGATTCTAGGAGGTGCTCCTCAAGAGAGGTCAAGCAGGCAAACATTAGCACCTGCCAATGGATTTTAGAAGATTGGTTCAAGATGGCAATGGCTGTTTCTTTGGAAGGCCTAGGGAGAATGGGAGGTCTCCCATGAGAAGTGGGTAAAAGTTATAGCTTATATTTGGAGCTTGCTTCTGTTAATAAAGCACTTCCCTTACATAATCTTATTTGGACCCTACCACAGCAGAGTTCTGTGAGTGAGACGAGGGTTACAAATGAGGAGGCTGAGTCTGCAGAAGGTCAGATTTGCCAAAGGCCACACAGCTGAGCAGAAACAGTGCCTTCCTGACCATCTCATTTTCCCTTGCAG
Seq C2 exon
CATAAAAACCAGACATCTAAAGGTGGTGCTAGGGGACCAGGACCTGAAGAAAGAAGAATTTCATGAGCAGAGCTTTAGGGTGGAGAAGATATTCAAGTACAGCCACTACAATGAAAGAGATGAGATTCCCCACAATGATATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148702-HABP2:NM_001177660:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.5=59.3)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTGCCTACCCAGAGGAAA
R:
TCTCCACCCTAAAGCTCTGCT
Band lengths:
342-1426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)