HsaINT0025520 @ hg19
Intron Retention
Gene
ENSG00000160325 | C9orf7
Description
calcium channel flower domain containing 1 [Source:HGNC Symbol;Acc:1365]
Coordinates
chr9:136328605-136330569:+
Coord C1 exon
chr9:136328605-136328677
Coord A exon
chr9:136328678-136330443
Coord C2 exon
chr9:136330444-136330569
Length
1766 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
TCCTGCCCTGGTCCCTGCAGCAT
3' ss Score
9.19
Exon sequences
Seq C1 exon
CTTGCGCGATCTCTGGCCTCTTCAACTGCATCACCATCCACCCTCTGAACATTGCGGCCGGCGTGTGGATGAT
Seq A exon
GTGAGTAATGCATGGCCGTCCCACCCCGGGGGTCTTGCTGGTCGGGAATCTGCTGGGCACCTCCCGGGACAGAGGAGTGGCAGGGGCCGTGGGAGTGGGCATCCTTGTGGTTGCCATGGCTACTGGCTCCAGCCTGGGTGCCTCGGGCATGTGAGTTTCTGGCCACAGCATGCGGCTTCTTCCCCTTCATACCCCCACCATGTTTAGTTTCCTAATGAGAGGTCAAGGCCCAGGGAATGCCCACCCCGGCCTTCATCCGGTGCAGGGGCAAGGCCATCAGTGCTCCAGACATTTCTGGAGCATCCACTGAGACTGCAGATGCCAAGTCCACTATACTGGGGCCCTCGCCCTCTGGGAGCTCCCAGGACTGGGGTGGGGAAGGCTGTTCATTGGGGCTGGCTGAGGACTGGGTTGAATGGTCTGCTGGGAGAGGGCACTCGAGCTCGGAGCTGTGCCAAAGATAGATGGGAGAGGCGGGTCGGAGTTGTCACGGGAACCCGTGGTCAGAACACCCTCATGTGCGTTCCATGCCCACCTCCTGCCAGGGTTTCGCCATCCCATCGGAAGGGAAGGCGGGGTGAGGGCAGGCCCGTGTGGCTTGGGGCACGTGAGAAGTGGCGGTGCACCAGGAATTGATGAGTGTCCTCATGGGGCTTGGTGCCTTGAGGGGTACAGAGCTAGACGAGATTCAGGTCCCGTCCCCAGTGACCTATGGCCAGTGGAGAGCCTCGGGGGCCTGCTGTGGTGGGGTCCTCAGTGCTTGTGCTGGCCAGTGGTGGATAGGGAAGGGGGATGGACAGAGAGGCGCCCAGCCCAGCTTCAGGGGGTGGAGTCGGAGCCTGGCCGAGTTTGAAGTGGAAGGGCTGGCCCAGCACAGAGTGAGCCCGTGCTTGGAGGCCTGGTGTGTGGGAGGCTCGGGGCGGGTGCAGTGGTTAAGAGTTGTGAAGAGAGTGCCTGCCCCGGGCTTGGGGTGGCTCTTAGGTGTCCTGAGCCTGCATTTCTGTTACACAGGCATAATGATGGCACTTTTCTCCCAGGCCTGGGGACAGAAGGGCCTGGCTCAGTGTCTGCTAACTGATTGTTATCCATGCATAGAGAATACCAAGACCACAGCAGACACCTTCCGTCACCAGTGGCTTAGCTGTTCCCACCCCAAACATAGGGCTGGATGCAAGGACTTGCTAAAGTTCTTCCTCCCCAGCGTGGGCTTCCCCTGGGTGTCCCCGGGCCTGGGGCCGGTGGCATCAGGTGTGTGGGCAGCTCTCCGTGACTGTTTTGGGACTGCGTGGCTCCAGCTCTCTGCCTCCCTGGTGGGGCAGCCTTCCTGGTGCTGGTGCCACTGACGGCTTTTGGTGGCCATGGCGATAATACTAACAGCAGACAGAGGACACAGCTGCCAGTGCTCCATCTGTGGATGAACCTGCCGCAGCGTTGTAGCAGTGCCATGATGTGGGGTCCCCTTTCCTCCATGTCACACAGGAGGAGGATAAAGGGAAGCAGAAGCCCAGGGGCTTCCCTCTAGGAGTGTTCAGTTCAGCTGGGGAGATGGGTGTGCAGGAGCAGCTGGGGAGTGCTGGAGTCTTCAGCAGAGGCTCTCCGAGGGGTACGAGCAGGTGCCCTGGAGCAGCCGGGCGGCTTCCCAGAGGAGGAGGGATGAGGGCAGGAGGGTGAGGGAGGTGGCATTCCTTATGGCACTGGCACTGGGGGCCGCCCTCATCCTCCTGGGATTGTCAGTCGCTGCTCTTCTCCTGCCCTGGTCCCTGCAG
Seq C2 exon
CATGAATGCCTTCATCTTGTTGCTGTGTGAGGCGCCCTTCTGCTGCCAGTTCATCGAGTTTGCAAACACAGTGGCGGAGAAGGTGGACCGGCTGCGCTCCTGGCAGAAGGCTGTCTTCTACTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160325-C9orf7:NM_017586:2
Average complexity
IR-C
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:
PF102334=Cg6151-P=FE(70.6=100),PF102334=Cg6151-P=PU(7.5=12.0)
A:
NA
C2:
PF102334=Cg6151-P=FE(38.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTGCGCGATCTCTGGCC
R:
CCGCAGTAGAAGACAGCCTT
Band lengths:
199-1965
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)