HsaINT0025297 @ hg19
Intron Retention
Gene
ENSG00000179082 | C9orf106
Description
chromosome 9 open reading frame 106 [Source:HGNC Symbol;Acc:31370]
Coordinates
chr9:132083295-132084882:+
Coord C1 exon
chr9:132083295-132083325
Coord A exon
chr9:132083326-132084070
Coord C2 exon
chr9:132084071-132084882
Length
745 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGG
5' ss Score
4.36
3' ss Seq
CTGCCCTCTGACCTCTCCAGGTG
3' ss Score
10.99
Exon sequences
Seq C1 exon
AGGCAAAGCCGGGAGAAACTGCTGAGACGAG
Seq A exon
GTTAGGATTTAACCTTTAAATTCTGGAGCCATCGGAAACCGAGGGGAGGACGACGGGTGTCGGTGCTAATGAGGCTGGGGGCGGGCGATGCGCGGTGGGCCTCCGAGTCCGGGGCAGGTCTCGGGGGTTCCCCGGGGAAGGCCCTGGGAGCCCTTGGCCCTGGCGGCCTCCGCCATCAGACTGGGAATGTCTCTGATTGGGTGGCCAGGAGGCGGTGGCCCTCCTCCCCGCCCAGCTGAGGGGTGTCGTCTTCCGCGAAGTTAGGGTCTCACCTGGGAGGCAAGGAGGGAGGGGGCTGCCTGAGGCCCTGGGCCCCTCCGGGACTGGCGCACCCCGTCTCACCCACATTCCTTCGCCTTTCCCTGCCCAGTGTGGATTTCCAAAACCCATCCCCGCTCCCCTCCTTCCTTCACCCCAAGTCACCCGTTCCCAGCTCTGTTTCTTGCCCCACCCAGGGAGGGCTTTTCCGCACCTCAGGCTTGTCCTAGGGCCCCCAGACAGACAAAAACTGCGGCAGTTGAGGGGTGTTGTGCTCTCCCTAAGCCTCAATTTCTTCATCTGTTAAAGGCAGGTGATGAAAATTGGGCCTACCTGGCTGCTGGTCAAATGCCAGGGCTGCTGTGGGCCCAGCCTTGCATGTTGACTCTCACCTGAGCCAGGAGTCAGGAGATCGGGGTTCTAGTCCAGCTGGGAATTGTCCCAGTGTGAATTGGGAGTAAGAGTTCCTGCCCTCTGACCTCTCCAG
Seq C2 exon
GTGGCAGCGGGGACCACGTGAGATGGCGTATGTGGCCTTGAGCGATAAACCTCACCTGTCGGGGGAGGTGGGCGAGGAAGCCTGCAGCTCCTGGAACCCACCACTTTTCTCTCCCAGGCCCTTGCCCAGGCTGTGGCCTCTGCCTGGAACCCCTTTTCTTCCCATCCGAGCCCTTCCCTTCAGTGCCTCTTCCTCTGGGAAGTCCTCTCTGGTGCCCAGCCCGTCCTCTTCTGCCCACTCTGGGTTTCGCACCCCATGCTTAGGCCCTGATTGCCTGCTTTGCACACAGGGCTGTGAGCTCCATGAGGGCAGGAACCACATGGCTGTTCACAGCTGTGTTGCCAGGGCCTGGCCTGGAGACCCTCAGGAAGTGAGACATCTGAATCCTCTGCTCTGTGACCCTGGCAGCCAGGTAGAGCCATCTTGGCCATGGCACCCAGGCTTGGAGCAAGCAGCAGCCTCATGGGTGGGGAACCACGTTTCCCCAGCACATCGGCAGGCCCTAAGGGGACATTCGCTTGGCTCTGCCCTCAGAGCACTGATGCCCGGGGGACACTGCCCTTTGTGTGTCCCATGTAAGAGAGGATGCAACCTTAGAGGGGGCAGGGGTAAACATGGTCCCAGGCCCTGTTGTCCCCTCCTAAGAAAGTTCCCAGTTCTGCCTGTCCATCCCTGGCCTTTTCCCTGTGCTGTCTGGGACAGTGGGTGGAGCTGCCGCTGAGCGGTGGGACCTAGAAAACACATACTGACCTATAGGAGGCACTGCCCAGAGCTCCTAACTGGGGTGGGGTGCAAAGGAAAGGTGGGTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179082-C9orf106:NM_001012715:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGAAACTGCTGAGACGAG
R:
TGTGAACAGCCATGTGGTTCC
Band lengths:
353-1098
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)