HsaINT1015644 @ hg38
Intron Retention
Gene
ENSG00000148357 | HMCN2
Description
hemicentin 2 [Source:HGNC Symbol;Acc:HGNC:21293]
Coordinates
chr9:130359319-130360604:+
Coord C1 exon
chr9:130359319-130359414
Coord A exon
chr9:130359415-130360427
Coord C2 exon
chr9:130360428-130360604
Length
1013 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
ATCTCTCTTCCTTTCCCCAGATG
3' ss Score
12.05
Exon sequences
Seq C1 exon
TGCCCCCCAACATCGAGCCAGGCCCAGTCAACAAGGCAGTGCTGGAAAATGCCTCAGTGACCTTGGAGTGTCTGGCTTCGGGCGTGCCCCCTCCTG
Seq A exon
GTAAGACCCCTCCTCTTGGCTGAAAGCTACTTCCAGCCCAATTTACTGTCTAATGAGGCTGGCGAGTGACCCAGGGACTCTCTGATTGGACATAATGGGGAGAAATCATCAGGTCTTTCCCCCCCGTTTCTCTCATGTTCCTCTCTTCCTCTTCAACAATGTCCTTCGGGCCAAGGCCATGTTAGGGTCCAGAGCCAGTGTGAAACAGGCCTGCAGGACATCTACTCACAGTAAGCTTCACAGGGCTGTCCGGGGCTAGGGGCGAGGATCAGGACCTCAGAGTCACCATCTGGTCTGTAGGGTCCTCCCCTCTAGACCAGAAGTGGAGGAAAGGGCCGGGAGCTGGGGGCTGGGTGTGGGTGTTTGCATAGGGGACTGGGTGAGGCTTACGGTGGCCCAGGAGGAAGGCCTCTCTCCTGCTCCCATCTGAACTAGGCCCACCCTGCTTTGCTTGTTGCCTGTGAGCCCTGGGGATATTTGCCCCCTCTCGTGGGGATGCCTGCTGAGTTCCGGGGACATGTCCCGGCAGGATGCAGGGAAGCTGCAGATACACGCGGTCCAGCCTGGCTTTGAGGCTGCTGCTTTGGGCTGGTCCATGTTCTCTAATGCCCCCTAGGGGACGGGGTCTTCTGGTAGGGGGAGGGCAGGGCTGAGTTTGACTCTCTCTGCTCCTGGCTGCCTCAGCCTCTGCCCACGGGGCTTCTTCTCCACCCTTGGTCCTGTCTTGGGCAACATTGCCCGGTTCCATCCCGGTTCCCTTTCCTGAATGAAGAACTCTGACCTTCTCCAATGCCTGAAAAAATAGTGTGGTCACCCTGGAAGTTTCTCTTGGGTGCCCACCACACCAGCAGAGTCTGACGGGCTGGCAGCACCCTTGCTTCTCTCTTCCATTCCCCCTTGCATCTCTCTTCCTTTCCCCCTTGCATCTCTCTTCCTTTCCCCCTTACTTCTCTCTTCCATTCCCCCTTGCTTCTCTCTTCCTTTCCCCCTTGCATCTCTCTTCCTTTCCCCAG
Seq C2 exon
ATGTCTCCTGGTTCAAGGGCCACCAACCTGTCTCTTCATGGATGGGAGTGACAGTATCAGTGGATGGGAGAGTTCTCCGCATTGAGCAAGCCCAGCTTTCTGATGCTGGGAGCTACCGCTGTGTGGCATCCAATGTGGCAGGTAGCACAGAGCTGCGGTATGGCCTACGGGTCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148357:ENST00000624552:37
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:
PF0767911=I-set=PU(34.1=90.9)
A:
NA
C2:
PF0767911=I-set=PD(64.8=95.0)
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:
CCCCCAACATCGAGCCAGG
R:
CGTAGGCCATACCGCAGCT
Band lengths:
262-1275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains