HsaINT1015710 @ hg38
Intron Retention
Gene
ENSG00000148357 | HMCN2
Description
hemicentin 2 [Source:HGNC Symbol;Acc:HGNC:21293]
Coordinates
chr9:130432429-130434123:+
Coord C1 exon
chr9:130432429-130432555
Coord A exon
chr9:130432556-130433347
Coord C2 exon
chr9:130433348-130434123
Length
792 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TGTGTCTGTGCCGCCCGCAGGAC
3' ss Score
11.76
Exon sequences
Seq C1 exon
ACATCAACGAGTGCGAGGAGGAGAGCATCGAGTGTGGACCCGGCCAGATGTGCTTCAACACCCGTGGCAGCTACCAGTGTGTGGACACACCCTGTCCTGCCACCTACCGGCAGGGCCCCAGCCCTGG
Seq A exon
GTAAGGGCTGAGTTGGCAGGGCCTCGTGCCCTCAGGAAAAGCACATTTTTCAGTCACTGGGGGTGCAGGCTGGCCCTGTCATTGTCACTCCCCACACAAGTGATGCAGGCAGGAACGCACGGAGCCCTGGGGGCAGGGAGAGGCCAGAGTGGGAGAGAACGGGGACACAGGAGCACACACACCAAACCCCAGACACAGGACCACCATGCAGACTCACACAACCCCAGGACAAAACTCAGACACGCCAGCACCAAACCCATCTCCTCCACGCCACTCACAGCGGCCACGGACACTCATCAAGACACACGGAGACATGGGGACCTTAGGGGTGGCAGCTGCTGCCCTGGAAAGGTTTCTCCCGGCGGGTGACCTGCCCCAGGCCTTACAACTAGAAACGTAGGCTGGGGTTGGAAGCAGATGCCCGCGGCAAGGCTAAGCGCAGTCTCCACCTCCAACCCCGCCCCCGCAGGGCAAATCCAGACTGGGTGACTTGGCCCAGGGGCACATCGCTCCCCTGTGTCTGCTGGGCTTCCCTGGGGCATGGATCCCGAAAGTCCGCTGGAGGGACCATGAAAGGGCAGGCCTCTGGCTTCTCTGGGCTTCAGTTTGTTGAACTCTAAAACGGGCTAGCGTGGGAGCCTGCAGAGAAGGCGTGTGGGGCTCTGCGGGAGAAGGACGGGCAGCGCGTGGGCGGAACTGCAGGGGCTGGCAGGGAGGTCTGAGTTACGCGGATGGGCCACGCTCCGACCGCACCCCCGAGTCCGCCTGTCCGTGTGTCTGTGCCGCCCGCAG
Seq C2 exon
GACGTGCTTCCGGCGCTGCTCGCAGGACTGCGGCACGGGCGGCCCCTCTACGCTGCAGTACCGGCTGCTGCCGCTGCCCCTGGGCGTGCGCGCCCACCACGACGTGGCCCGCCTCACCGCCTTCTCCGAGGTCGGCGTCCCCGCCAACCGCACCGAGCTCAGCATGCTGGAGCCCGACCCCCGCAGCCCCTTCGCGCTGCGTCCGCTGCGCGCGGGCCTTGGCGCGGTCTACACCCGTCGCGCGCTCACCCGCGCCGGCCTCTACCGGCTCACCGTGCGTGCTGCGGCACCGCGCCACCAAAGCGTCTTCGTCTTGCTCATCGCCGTGTCCCCCTACCCCTACTAAACGGGAGAGGGCATTGGCGGCCGCCCTGGCGTGACCCCCGAGGAAGGGGTCGAGGAGAAGCTTGGTCCACGCCACCTGCTGTGGCAAGCGGAGCGTCATCGTCTCCCGCCCCGTGCGTCAGCGAGACCTTGGGTCAACACGACCCTGCGCACAGCCTTGACCCCCGACAGCGAGGACCTGACCTCACAGAGGGAGGCGTCCAGGGCGGCCCTTGGGTGGCCAGTCCCGCAGGCAGGGCCCGGGGAAGCCCGGATCAGACCTCCAGGTCTGATCCGCCCCTCAGTGGGAGCGGGACAGGGACACAGGGCACCTGGACGCGCGGGAGAGGGGGCAGACCCCGCGTTAGGGGTGGCAGCAGCTGTCGCCCGGCCACACCTGGTGGTGTCATTCTGAACCCTGTTGCAATATAAAGGGATTTTTTTTTAACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148357:ENST00000624552:97
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.349 A=NA C2=0.257
Domain overlap (PFAM):
C1:
PF126622=cEGF=PD(12.5=7.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCTGTCCTGCCACCTAC
R:
AAGACGAAGACGCTTTGGTGG
Band lengths:
354-1146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains