HsaINT0025664 @ hg19
Intron Retention
Gene
ENSG00000198870 | C9orf96
Description
chromosome 9 open reading frame 96 [Source:HGNC Symbol;Acc:28669]
Coordinates
chr9:136255310-136256572:+
Coord C1 exon
chr9:136255310-136255380
Coord A exon
chr9:136255381-136256456
Coord C2 exon
chr9:136256457-136256572
Length
1076 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AACCCACCTCTTGGTTTCAGGAA
3' ss Score
8.09
Exon sequences
Seq C1 exon
TGGATGCAGAATGTGCTGGGCCAGGTGCTGGACGCGCTGGAATACCTGCACCATTTGGACATCATCCACAG
Seq A exon
GTAAGTGGGGCCCCTGACCTCTGCGGACTGGCTGGCTGCTTCGGGAGAAAAGGCACTGAGGCCACTCGGGTGCCAGTGCCCGTGGGCAGGATCTGGGGAGAAAGGTGCACCGGGCCAGTGCAGCCAGGATAGGATGGGACCTTACAGAGCTCCTCCCGGGCTTGAAAGAGGCTCTTCCAAGTGGTCTCAAGCCATGTGCACACGCACAGCTGCATGGGGTGTGCGCTAGCCAGGCGGGCTGCTCTAGAGTTCGTGGAAAGGAAGGAGGCAAAAGCCCTGCCAAGAAGAGAGACCGGGTTGCCTGCCGTGGGGCCAGTGTGGGCTGAGTGGGCCCTGCTGAGCCTTTGACCCCCAGCGGCACAACTTTCAGGCTGGAGAATCCATGGTCTGAAGGGGCTGGGAGATGGCTCCAATTCTGAACACCAATATCTTATTTAAAGAGGAAGAGGGAAACTATGCAGCTGGGCGTGGTGGTGCACGCCTGTGGTCCTAGCAACATGGAGGCTGAGATGGGAGGATTGCTTGAAGCCAGGAGCTTGAGGCTGCAGTGAGCTATGATCGTGCCACTGCACTTCAGCCTGGGCAACCCTGACTTAAAACACACACACACACACACACACACACACACACACACACACACACACACACCACGCAGACCATACGTACAAAGGGAATGCTCACATTCCACATCCAGTGTTCATGTCACTAGACGTCGCACAATGGCCAAAAATCAATCCCCAGGCAAACGTGTAGCTGAGATATCTAAGGAGGTGAATGTGTCAATTAAGGGGCCTCTTCGGAGTGCTGGGTGTGTTCCTACTTGTGGTTGAGGATTTTTCCCCCGATTTAAAATAATTGAGTATATTTCTGTACATAGGAAACAACTGCTTAAAAAGTAGGCTGAGATGGGGCATTTTGTGGAGGAGAGGAGGATGTGGGCTGCTGCTGCAGAACCAGGTGGGGCAGGGAGCAGAGAGTCAGGCTCAGCACACACACTGGTCCCACCTGGGGTTGTGGGTGGTGGCTGCCCAGGTGGCCCCTTGGCATCCAGAGGCAAACCCACCTCTTGGTTTCAG
Seq C2 exon
GAATCTCAAACCCTCCAACATCATCCTCATCAGCAGTGACCACTGCAAACTGCAGGACCTGAGTTCCAATGTGCTAATGACAGACAAAGCCAAATGGAATATTCGTGCGGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198870-C9orf96:NM_153710:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(10.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(14.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)