HsaINT0025381 @ hg19
Intron Retention
Gene
ENSG00000198113 | C9orf167
Description
chromosome 9 open reading frame 167 [Source:HGNC Symbol;Acc:25981]
Coordinates
chr9:140172280-140177093:+
Coord C1 exon
chr9:140172280-140172359
Coord A exon
chr9:140172360-140173104
Coord C2 exon
chr9:140173105-140177093
Length
745 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TCCCCGTCTTCCCGTTGCAGGGA
3' ss Score
11.6
Exon sequences
Seq C1 exon
ATTTCCTGCTTGGAGTCTCAGGCCCCAGCGTCTGGCACAGGCAGGGGCCTGCGGAGCTGAGGGCAGTGGACCAGCTGCAG
Seq A exon
GTAGGGGGTGGGTTGGGGCCCAGGGCCCAGTTCCTGCCAGTCAGTGGCTCTCTTGCTCCGACCGGCCTCTTCTTTCTGTCCATCTTTTCGTTTCACCTCCACTAGTCTCCGGGGGGCTCCCTGCACTGCTCAGCTCGTTCACTGGAGGGGTGTTGGGAGGACCCCAGTTTTGGAGTCGGGGCTGGGAGGCCTGGGTTGAGCCTGGGGACGGGGCCCGGGCCTATTCTCAAAATCATAAGTTCCAGCCAGACCCCCGCCAAGTGTTCTGGAGCGTGTGGGGGCGTCTCTGAACTCCTGGGCGCTCAGGCCTCTGCTTCCCGCGGCCCCTCCTTGGGAGACGGCCCAGTCCAGTGGGAGCCGCGGGCGGGGGCAGGGTCCGGGGGTGACTGTTCACCCCAGTGGGCGCCTGGGCGGCCACTGACTCCTTCGACGACTCCTCCAGGAAGCCGGGGCGGCCACCAGATAAGCCTCTACCCCGCCACTTCCTCAAGGCCCGCGGCCGTTTATGGGAAGACCCGAGAGATTTGCATCGGGGCCCTGCGGAGGGGCGGAGGGGCGGAGGGGCGGAGGGGTCGCTTGCCGGTCTGAGGGGCGAGGCCGCGACCAGGCCCCTGGCCCTGGGGCAGCCCGGGCCGCACCCCACGGGACTCCCAGGGGGTAAGATCACTCCGGGGACCGGTTCCGGCGGCCCGCGGGAAAGGGCAGTGGCGGGAGTCCAGAGACCCTCCCCGTCTTCCCGTTGCAG
Seq C2 exon
GGAGGGCGACCTGTATGCGGAGCGCCGTTCCTGCGACATGGACCGCGGCCAGCCCAGCCTGGAGCCTGCTGCCGCGGCCCCCCGAGCCTCGGGCCGGTGCGTGATCGCGCCCGTGCGCGCTGTGCTCCGCCTGCGCCGCCGGGTGTGTGTCCTACGCAAACGGCGCCTCCTGCAGCCGGGTGGGGGGCCCGACGTCGGGACCGGGGCGCCCAGGCCGGGCTGCAGCCCCCGGGCACCGCGCGCGGACCTGGACCAGCCAAAGTTCTTCACCTTCGACAGCCCCGCGGAGCTACCCTCCAGGACGCCACGCAAGAAGCGCCGGCGCAGCCGCCTGGTGCTTTACCCGGAGACCTCGCGCAAGTATCGGCCGCGCGTGGAGCACAGGAGCCGCGCGCAGCGCTGCCTTCTGCTGCTAGTCGCCATCGTGGGCTTCCAAGTTCTCAACGCTATCGAGAACCTGGACGATAACGCGCAGCGCTATGACCTCGACGGGCTGGAGAAAGCGCTGCAGCGCGCGGTGTTCGGCCAGCCCGCTGCCGTATCGCGCATCGTGGCGCTGATGCGGGACTACCTGGCCACGCATGTGCACAGTCGTCCGCTCCTCCTGGCGCTGCACGGGCCCAGTGGCGTGGGCAAGAGCCACGTGGGCCGCCTGCTGGCGCGCCACTTCCGCTCGGTGCTGGAGGACAGCGCGCTCGTGCTGCAATACCATGCGCGGCACCACTGCCCCGAGGCGCGCGCCGCACAGGACTGCCGCGAGGAGCTGGCGCGGCGCGTGGCCGACGTGGTGGCGCGGGCCGAAGCGGAGGAGAAGACCCCACTCTTGGTGCTGGACGACGTGGAGCTCATGCCGCGGCCGCTGCTGGACGAGCTGCACGGCTTCCTGCAGCCGCAGCGCTCCCACCACTTCCACAACGCCATCTACGTGCTCCTCAGTGGCGCGGGTGGCGCCGAGGTCACGCGCTTCGTGCTGCAGAACGCGTCCCGCGCGCTGCCCCTGCGCCCCGACGGCTTCCGCAGTGCCGAGGCCGCAGCGGCGCAGGCGGAAGAAGACCTGCGCGCCAGCCTGCTGGCTGTGCTGTCCCGGGAGCATCCGCTGTGGCAGGCCGCGGCCATCGTGCCGTTTCTGCTGCTGGACAAGCGGGATGTGGTCAGCTGCTTCCGGGACGAGATGGCGGGTGAGGGCTTCTTTCCTGACCAGGCCCGCGCGGAGAACCTGGCCGCGCAGCTCAGCTTCTACCGCGTGGCTGGCCGCGAGTTTGCCGTCACCGGCTGCAAGCAGGTGGTGGCCACGGTGAACCTCCTGTAGTGGAGGCGCAGGACGGGACGTTTGGGTTGATGGCGGCAGTAGGAGGGCGACCAGGGACCTTGTGGGCTGGTGCAGGCCCCTGAGGTTTCTAGTGAATTTGTGGCTGCCCGGCTGGTGGGTGCGGATCAGCTTGGAGCTCTGCTTCCAGGTCCACACCCGCCTCAGAGTCCGGAGTCTGTCCCTGGGGGCGGCAGGACAGCAGCCACCTCCCTCCCAAACTTGCCCATTGCCCTGCTGGGCGTCCCAGGCATGGTCTGGTGCGTTCTCCCTGTGGCCCCAAGAGGTGGGTTCCCATGGTACAAGGATGATCTCAGGGCCAACAATTCCCGGGGTCACACAGCTGGGACGTGACCCCGCCTCTTGGGGGTGGTCGCGTGTTGCTCAGTGCTGAAGTGGGGTTCTCATTCCGGCCCCCCTGGAGATGACCCCGGAGGAGGCCACAGCCAACCATGACAGTGCTGGGGCTCTGGCTGCCTTCTCCACCCACCCCACCCCTCACTCAGGTCGTGTTTTCAGGAGCTCAAGGCTGGAGTGTCTTGACAGTAAGGGGAGGGGAGCGGAGGCGGAGGCGCCTCAGGCAGCCTCTCCCCCTCCTTCCTGGACCCCCCAACCCCGGGCCCGCCAGCCCTGGCTTGGGCTTACTGGGTGACCGAGAGCCCGCGGGGCAAGCGGGAGGTGCCTAGGCCTCTCCCCATCCCCCTCTTCTCCGCACGTGGGACCCTTAGCCCGTGGCCAGTCCCCTGGTCACCACGATTGCGCGACCTCCCTTTCCCTGGGGCCTTTTGTGCCCCGAGTTCCGCCCACCCGCACCCTCTGCGCAGAGCGCCCTCCCCACGCCAGTCGACCCCACACCCCACACTCCCCACGCGCCGCCTCCCGGAAGCCCTCCTGGACGCCTCCCGTGGATGGGCCCACCGCGCCCACGGGGGCTTTAGGGGAAGGTGCTTTGGGCGTTTTTTGCGCCATGTCTCCTCGGGGCCGGCGGTTGCCTCGGGACGGTTCTCGCCTCCTCCCACAGCCCCGGTGTCTGGGACGCACCCGGCAGCCCCGCTGCTGCCGCCTTGTGGCGCGCCCGGCCCAGCCGGTGGCTTCTGTGGTCGCCGGGGGCTGAGCGCGCGGCTGGGCCCTGAGTCCCCCAGGCCGCCCCGATCCTCTGTCCCCGCCGCCGGCCCCGCTGCAGTCCCAACCCGGGCCTGCCCGGGAGGAGCGCAGGGGCGGCGATGACCAGTCCCGAAAGGGGCTCAGAGGGCAGCGAGGAGGTTTCACGCCGGTGCGGGGCGCCGTCGAGGTGGGGGCACCGCGAAGGTGGAGGCGGGGCCGCGCCGGAAGCCCCGAGTCGAGCGCACACGGCGGGCGCCCCTGGCAAGTGGGACTCCTCCGGCCCCGAGGCCTGAACTCAGCCCGGAGACCGCGCCCACCAGCGCCGGTGTCCCCGGAGGGGCCCCGCTAGTTCCCTGAGCAGAGGTCCTGCGGCTTCCCGGAGGGTGTCCTGTTCTCTCCCCCGCCTCGCATCCATTCTCGCCCTGGTGGTTGGTGTCTGTGGTCGGGGGCGAGGGCCGTCTAGTGGAGACGGGGATTCAGGCCGCTTGAAAGTCTGGGATCTCTGGGCGGATGGCAGCGGCTCCGCGGAGCTCGAGCTCGGCGCGCAGGTCCTGGGCCCAGGGCGGGAGCGCTAGCGAGAGGGCTGCCCCGTCCTGCCCAGAGGGTCCTGAGGACTCCCGCTGCTCCTGGAGTCTTGGGGAGGGGTCCGGCTCCACGGGGTGGGGGTGGGGGCTACCAGGAAACCTTTGCCTCCTGGGGCTGTGCAGGACCGGCTAGCCAGCGCTGGGAACCAGGGCTGAGTTCAGCCCAGCTCTGTCCACCCCAACCCCAGGGCTAGGGGAAGGAGCTGGGAGAAGGAGCCCCACCTCTCCCAGGCGAGTATCTGTCCCAGGAGCCCACACAGAGGGACACCCAGCTCTGGTCTGGCCTTCGTGTTGGCTTCAAGGTGGTAACAGAGAGAGCTGCAGAGTGGGGGTGTGTTTGCCAGTCCCTGCATGGGTGAATGTTGGGGTGCCCACTGCTCCCCAGGCAGGACCCCCAGGACTGTCAGCTCCCCTTCCCACAGAGCACCCACCTGGAGGTGTCACCTGCCGGCAAGCGTGGGCCATTCATCCACCTGTCAGTCAACAACACCCGCTGAGCATCGGCTTGTATCAAAAGGTCCAGACCTAAGGGGAAATTTTATCTCTTTCTTTCTTTCTTTCTTTTTTTTTTGACACAGAGTTTTGCTCTTGTTGCCCAGGCTGGAGTGCAATGACACGATCTCGGTTCACTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCCCGCCATCACGCCCGGGTAATTTTTTTGTATTGTTGGTAGAGACGGTGATTCACTATGTTGGCCAGGCTAGTCACGAACTCCTGACCTCGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGTGCCCGGCCTCTTTTTATTTATTCCTAAAATATTACCTTGAGGCCAAATTCTGCGCTTAAGGAGAATGTGCACCAAGTGCTGGGGTGGGGGCTGGTAATAAACGAGGCCACAAATCATGCTTGTTAATAAATTGTGTGGTTCAAATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198113-C9orf167:NM_017723:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF063096=Torsin=WD(100=28.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGGAGTCTCAGGCCCCAG
R:
GGGCTGTCGAAGGTGAAGAAC
Band lengths:
354-1099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)