HsaINT0074014 @ hg19
Intron Retention
Gene
ENSG00000148702 | HABP2
Description
hyaluronan binding protein 2 [Source:HGNC Symbol;Acc:4798]
Coordinates
chr10:115338386-115340451:+
Coord C1 exon
chr10:115338386-115338557
Coord A exon
chr10:115338558-115340353
Coord C2 exon
chr10:115340354-115340451
Length
1796 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TGTTTTGTTTTGTATTTTAGAAA
3' ss Score
10.53
Exon sequences
Seq C1 exon
GTTCTGATGACTGCTATGTTGGCGATGGCTACTCTTACCGAGGGAAAATGAATAGGACAGTCAACCAGCATGCGTGCCTTTACTGGAACTCCCACCTCCTCTTGCAGGAGAATTACAACATGTTTATGGAGGATGCTGAAACCCATGGGATTGGGGAACACAATTTCTGCAG
Seq A exon
GTAACATTTACCTTATTTATGCTCAGTTGATTTTGGTCACTTATTTTAAAACAGATCATTGAAATTCATCAGCCTCCTTTCTAGGAAGATTTTCTTACTCAGCAAGGCAATGTTATGCTGCTGTAGTAAACAACTGCCAAATGTCAGTGGCTCAAATACATCAAAGTCTATTTCTGGGCTGGTTGCTGTGGTTCATGCCTGTAATCCTAGCACTTTCAGAGGCTGATGCAGGCAGATTGCTTGAGCCCAGGAGTTTGAGGCCAGCCTGAGCAAAATGGCAAAACCCCGTCTCTACCAAAAAAAAAAAAAAAATAGCTGAATGTGGTGGTCAGCACCTGTAGCCCCAGCTAATCAGGAGGCTGAGATGGGAGGATCATCTGAACCCAGGAGGTCGAGGCTGTAGTGAGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACCCTGTCTCAAAAAAAGAAAAAAAAAAAAGAAAAAATGTCTATTTCTTACTAATGTTCCATGTGTCATGTGGGTTGGTGGTGATGATGGCAGGGGATTCAGCTCCACAGGCTTACTCAAATATTCAGGATCAGCAAGAAGAGACTGGGAAATGAAGCATGAGTTTTTCTCTACCTCAACCTAGAAGGGACACATCCTCTTCCCACACATACTTTGTTGGTCAGAAATAATCACATGAGCCCACGTAACTTCTAGGCAGAGATGGAGAAGAGCAAGTGGAAGGTCTGTTGAAGGTGATGGTCTCTGGCCCAAGGATGTTCAGGCTTTCCCATGTGAGGCTAATGCCACCACCCTCCCTGGTGGTGATCTAGTTTCCTTCTTCCTTTTCTGCTGCCTCCAGGCCACTCTGTTGGCTTCCTGCCACTACCCTTTGTCTGGCCAAGGCCAATGAGTCAGATGAGTTGCAGGTGAGGGGGTCTTTGTATGGCTTTGAACTGGCTTCATAAATGAGGATTTTTTCTTGTTTTTTTTTTTTGTTTGTTTGTTTTTGTTTTTGTTTTTTTGAGATGGAGTCTCACTCTGTCACCCAGGCTAGAGTGCAGTGGCACCATCTCAGCTCACTGCAACCTCTGCCTCTCAGGTTCAAGCAATTCTCCTGCCTCAGCCTTCCAAGTAGCTGGGATTACAGGTGCGCACCACCACACCCGGCTAATTTTTGTATTTTTAGTAGAGATGGGTTTCACCATCTTGGCCAGCCTGGTCTCGAACTCTTGACCTCATGATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACTGCACCCGGCCATGAAGATTTTTTTTTTTCACAAAACACTAGTACTTTCCACTTGCACTCACCTTGAGCTGTTCCCTTTGTGGAGCTGTCTTCGGGGGCGGGGGGAGGGGGGGCCTCTTGGCAGCCTTTCTCAGAGGATTCCCATGCATAGAATTCAAAGCCTCAGGCAGAGGAACCCAACTCTCACCATGTTTATGTGATGATTTTACTCTCCTGATATAGAAAGGTCTTCATCAGGGATCTCATTTCTTTTCCTACAAATAATTTGGTATGTCCTGTGGATCTGGCATGAGACTTGGGACCGCTTTCTTGTCCTTGAGATTTTCCTCTAGAAGAAAAGATTTTGCCAGAAAAAATACTATAAACACCCTTCTGTTCTAAGGTTTTGTAACCTGATGGAGGATTCAAAGAAATGTGGTCCCAGGGGGAGCACAAGAGTCTAGCACCTTCTTATCCAAAGGTTCTTTAATAAGATCCAGTGTGTTCATCAAGCCTTGACTCTGAGTTGTTTTGTTTTGTATTTTAG
Seq C2 exon
AAACCCAGATGCGGACGAAAAGCCCTGGTGCTTTATTAAAGTTACCAATGACAAGGTGAAATGGGAATACTGTGATGTCTCAGCCTGCTCAGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148702-HABP2:NM_001177660:7
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:
PF0005113=Kringle=PU(63.9=91.4)
A:
NA
C2:
PF0005113=Kringle=PD(34.9=85.3)
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:
TCTGATGACTGCTATGTTGGCG
R:
CTGAGCAGGCTGAGACATCAC
Band lengths:
262-2058
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)