HsaINT1015700 @ hg38
Intron Retention
Gene
ENSG00000148357 | HMCN2
Description
hemicentin 2 [Source:HGNC Symbol;Acc:HGNC:21293]
Coordinates
chr9:130424776-130425130:+
Coord C1 exon
chr9:130424776-130424913
Coord A exon
chr9:130424914-130425008
Coord C2 exon
chr9:130425009-130425130
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TGGGTGGGGATGGTTTGCAGGGG
3' ss Score
2.59
Exon sequences
Seq C1 exon
GGCCTCTGATGCGGGTGCTCGTGGTCACCATCGCCCCCATCTACTGGGCCCTGGCCAGAGAGAGTGGGGAAGCCCTGAATGGCCACTCTCTGACTGGGGGCAGGTTCCGGCAGGAGTCACACGTGGAGTTTGCTACAG
Seq A exon
GTAAACAGGGCCTCCCCCAGGTGGGCCAGGTAGGACTAAAGCCTGCGCCCAGGACCTCCCGTGGTGACTCTGGGCTGGGTGGGGATGGTTTGCAG
Seq C2 exon
GGGAGCTGCTCACGATGACCCAGGTGGCCCGGGGTCTGGATCCCGATGGCCTCCTGCTCCTCGACGTGGTGGTCAATGGCGTTGTCCCCGAGAGCCTGGCTGACGCAGATCTTCAAGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148357:ENST00000624552:88
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF074747=G2F=FE(24.5=100)
A:
NA
C2:
PF074747=G2F=FE(21.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGAATGGCCACTCTCTGA
R:
TTGAAGATCTGCGTCAGCCAG
Band lengths:
182-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains