HsaINT1015703 @ hg38
Intron Retention
Gene
ENSG00000148357 | HMCN2
Description
hemicentin 2 [Source:HGNC Symbol;Acc:HGNC:21293]
Coordinates
chr9:130425687-130427375:+
Coord C1 exon
chr9:130425687-130425924
Coord A exon
chr9:130425925-130427312
Coord C2 exon
chr9:130427313-130427375
Length
1388 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CTATCCTCTTTGCTTTGCAGAGG
3' ss Score
10.24
Exon sequences
Seq C1 exon
GACTTTGAGGAGCACTACGTGCAAACAGGGCCTGGCCAGCTGTTCGTGGGCTCCACACAGCGCTTCTTCCAGGGCGGCCTCCCCTCGTTCCTACGCTGCAACCACAGCATCCAGTACAACGCGGCCCGGGGCCCCCAGCCCCAGCTGGTGCAGCACCTGCGGGCCTCAGCTATCAGCTCGGCCTTTGATCCAGAGGCCGAGGCCCTGCGCTTCCAGCTCGCTACAGCCCTGCAGGCGG
Seq A exon
GTGAGGCCCCTCTGCTTTGTTCCACCCCCACTGCCCCAGCTAAAACCTGCCAGGGGGCCCAAATGCACGTGGCTGGAATCCACCCCTGCCCCTAACATCCACTGACCATGGGCCAGAGACTTCAGACTGAGACGGCCCGGCTGGCCTACTCACCTGGCCTGTCCCCACTCCCATCCATCCACCCCCCACTCCTCACAGGGACACAGCTCTCTAAGCCACCCTTGTTCCAACCTCTGGATCCTTTCCCCAGGCCCCAGGGTGAAGGTCCAACCACCCCAGGCTGATGTTCAGGAACTGAGTCACCCCGCCCTCTTCTCCCGAGGGCACCTGCACTGAGGCCACACCCAAGGAGCCAGGAACCACTGTTGGAACCCTAGAGACCCCCAGGAACATGCTTTCTGTTCACCCAGTGAATGCTAAAGATACATACGTTCACATTATTTGAGGTCCCAAAGTGTTTTGAACATTGAATGAGAGACAGTGCTAAGAGCACCGCTTTGAGGTCAGGCAGACCCCAGTTCAAATCCGAGGTACACCACTTTCTGGCTGTGGGACCTTGGGGGCAATGTCCTGGTCCTCTCGGAGCTTCAGTGTTCCCATCTGCACCGCGGGCATGACATCGCCTGCCTTGCAGGGTGTCGCCGTACAGATGTTGTCTCTAAAACCCTAGCCTGGCACCTAGTGGCTGCCTCATCAAGGCTGGCTGTCCCTACAATTTATGTGGACCAAGCTTGTCCAACCCATGGCCCACAGGCCGCATGCCACCCAGAACAGCTTTGAATGCGGCCCAACACAAATTTATAAACTTTCTTAAAACATTATGATATTTTTTGTGATTTTTTTTTTTTTTTTAGCTCATCAGCTATCCTTAGTGTTGGTGTATTTTATGTGTGACCCAAGGCAATTCTTCTTCTTCCAGCGTGGCCCACAGAAGCCGAAAGATAGGACACCCCTGATTTAGACTGCCTTGTGTCCTTCCTGCCTCCAGAACCCAGCTCACCCCTCCCCTGCCTTTGCTTTTGCTGCCCGTCTGACGCTATCCTCTGCCCCTCCGCACGGTCTCTGTGCATTGCTGCTATGGTCTCAGGAGAGCCGTTTTGCACGTGTTGACCTCCTGCGTTTTATTTTAATGGTTTTCCTGGGGCTGCCTGACTCACTGGCCAGCCCCACTGGGAGCCCTTCAGGACACATTTCCTTGACTGGGCGTGCCCTGCAGTCATCGCCTCCAACAGGCCTGGGCAGGAAATGGGCTTGCTGACTCTCTGGCACCGTCTTGGCTCTGCCTGGCTAAGCTGGCAGTGGGGGAGCTGTGAGCCTGGGCTATGGCCAGGGCAGCCTTGGGAGAGGACACCCTCATGTCCTTAGAGTCTATCCTCTTTGCTTTGCAG
Seq C2 exon
AGGAGAACGAGGTCGGCTGCCCCGAGGGCTTTGAGCTGGACTCCCAGGGAGCGTTTTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148357:ENST00000624552:90
Average complexity
IR
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:
PF074747=G2F=PD(26.1=61.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GACTTTGAGGAGCACTACGTG
R:
CACACAAAACGCTCCCTGGG
Band lengths:
300-1688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains