HsaINT1015708 @ hg38
Intron Retention
Gene
ENSG00000148357 | HMCN2
Description
hemicentin 2 [Source:HGNC Symbol;Acc:HGNC:21293]
Coordinates
chr9:130430284-130431486:+
Coord C1 exon
chr9:130430284-130430604
Coord A exon
chr9:130430605-130431366
Coord C2 exon
chr9:130431367-130431486
Length
762 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CACCCCCATGCCCGGGCCAGACC
3' ss Score
3.13
Exon sequences
Seq C1 exon
ATGTCAATGAGTGCCTGCAGCTGCCCAAGGCCTGCGCCTACCAGTGCCACAACCTCCAGGGCAGCTACCGCTGCCTGTGCCCCCCAGGCCAGACCCTCCTTCGCGACGGCAAGGCCTGCACCTCACTGGAGCGGAATGGACAAAATGTGACCACCGTCAGCCACCGAGGCCCTCTATTGCCCTGGCTGCGGCCCTGGGCCTCGATCCCCGGTACCTCCTACCACGCCTGGGTCTCTCTCCGTCCGGGTCCCATGGCCCTGAGCAGTGTGGGCCGGGCCTGGTGCCCTCCTGGTTTCATCAGGCAGAACGGAGTCTGCACAG
Seq A exon
GTAAGGCCAGGCCCTGACCATCCACGGGACACTGCCGTTATGGGCTCTTGGGCCCCTAGGGTGGGTGTGCAGGTGTCACCCACCGAGTTCAGAAACCCAGACCTTCCAGGCAAGTGGGGTGAGTGGTGTGGTGGATGGTGGCTTCTCCAATGCAGGGTGTCTCAGAGCCTTGGCTGTGCTATTGGGCAGGGGGCTTCCAAGATGGTGTGGACTATTTTTTAAACCATTTGACTTCAGGACACTTTGCCCAGAGGGAGGGCATCCTAGGCAAGTGGTCCTGGGAACCCCCTTTGAGAAACACTCCTCTTAGCACTCAGAGGGAAAGCAGTCAGGGAGGGAGATTTTCAGGGGTGAAGGAGAATGTTCCAGGTAGACATGAGAATGTGACAAGGGACTGCTGGGTAGAGGGGGGTGGGGGTGGGGGATGGCCCCTGGACCCTGCAGAGAGGGACAAAGAGGAGGTGGCCTGCCCCAGGGCTGATGCCTCGGCATTCCCGCCTGGACGGAGGGGTCTGCGGGGTGGTGCTGCTTGCTCCTTCTATGCCTTGGTGAGCACGGGGTAGGTAAGGTGGGGCTCCTCCCTCTCAGCAAGCACAGGGACTCCCCCAACCCCTGAACCTGGGCTGGGAGGGGCAGGACAGGGAGAAGGAGCAGGGCAGCTCCAGAGCCCAGCGGGCAGGTGTGTGGCCACGTTGGTGTCTGTGGCTCAGTGCGTCTCTCTGCCCCCATCCCCCACCTGCCCCACCCCCATGCCCGGGCCAG
Seq C2 exon
ACCTTGACGAGTGCCGCGTGAGGAACCTGTGTCAGCACGCCTGCCGCAACACTGAGGGCAGCTACCAGTGCCTGTGCCCCGCCGGCTACCGTCTGCTCCCCAGCGGGAAGAACTGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148357:ENST00000624552:95
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=37.0),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=96.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAATGAGTGCCTGCAGCT
R:
GTGCTGACACAGGTTCCTCAC
Band lengths:
357-1119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains