HsaINT0074006 @ hg19
Intron Retention
Gene
ENSG00000148702 | HABP2
Description
hyaluronan binding protein 2 [Source:HGNC Symbol;Acc:4798]
Coordinates
chr10:115342975-115344041:+
Coord C1 exon
chr10:115342975-115343117
Coord A exon
chr10:115343118-115343906
Coord C2 exon
chr10:115343907-115344041
Length
789 bp
Sequences
Splice sites
5' ss Seq
TTGGCAAGT
5' ss Score
2.72
3' ss Seq
CTACCTCTCTCTCCACCTAGCAT
3' ss Score
8.91
Exon sequences
Seq C1 exon
CATAAAAACCAGACATCTAAAGGTGGTGCTAGGGGACCAGGACCTGAAGAAAGAAGAATTTCATGAGCAGAGCTTTAGGGTGGAGAAGATATTCAAGTACAGCCACTACAATGAAAGAGATGAGATTCCCCACAATGATATTG
Seq A exon
GCAAGTTCCTCTTTCATGGCTTTCCTGAGGGTCTTGTCCTGGGTGGATTTCTCTATGACCAGAAAGCTGAAGTTTGGTTCTAGAAGGTGCTCTTGATTGTTTTTGGTCCCTGTGGACCCTGTGCGGTAGGGAATGTATTCCAGGGATTTTTAGTTTTTGAGGGTATGTGCAAATGTAGATAAATGGGCATATGCTCTTAAACTGAGGGGAAGCAATGCTAGGAACATTGTGCTATGGAATAGGCTTGGCCTGGAATCCCAGCTTCCCAACTTTATCACCAGGAGACAGCTCACCTCCTGAGCCCTCTTTTCTCTTCTATGAAATGGAAACACTGATGCACAACTCTCAGCTTCCTATGTGTCAGGAGACACAATGTGCTTGCAGGCATGCCTGGCCCCTAGCCCCTGGCAGGTGCTCCAGTGCAAATGCAATGACGTTCCTAGCTACCAGCTGCTCAGTTCTGTATCCCGTTTCCCTTTTCATGAGACACCCCCCCACCTCTCTCTCCTTCCTCAATAGCTTTTTTCCCCTCTAATGGCCTGTTTCTTAAAAAATGGATTAGAAATGATTTCAAAGTCAATTGTCATTTCTTGACATGACTCTCGCCCTGAAGTGTTACTCCTTCCTGGGTGGAAGTTCAAAATATGAAATGACCACGGAAGAAGATTTTCAGGCATGGTGGGGGCAGGTGGGGCTTTGCTGTGGCCACCTTCATGAGCAAGTTGGAGCTGGTGCTTCTCTGACAAAGAGGTGACATCGCATCCATTTTCTACCTCTCTCTCCACCTAG
Seq C2 exon
CATTGCTCAAGTTAAAGCCAGTGGATGGTCACTGTGCTCTAGAATCCAAATACGTGAAGACTGTGTGCTTGCCTGATGGGTCCTTTCCCTCTGGGAGTGAGTGCCACATCTCTGGCTGGGGTGTTACAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148702-HABP2:NM_001177660:10
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:
PF0008921=Trypsin=FE(20.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.0=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATAAAAACCAGACATCTAAAGGTGG
R:
CTGTTTCTGTAACACCCCAGCC
Band lengths:
278-1067
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)