HsaINT0021267 @ hg19
Intron Retention
Gene
ENSG00000205710 | C17orf107
Description
chromosome 17 open reading frame 107 [Source:HGNC Symbol;Acc:37238]
Coordinates
chr17:4802948-4803440:+
Coord C1 exon
chr17:4802948-4803123
Coord A exon
chr17:4803124-4803230
Coord C2 exon
chr17:4803231-4803440
Length
107 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTGCTCTGCTCCTTCTCCAGGTG
3' ss Score
11.6
Exon sequences
Seq C1 exon
ACAAACACGGCTTCTCCTGGTACGGGCTGGTTACGCCCTCCAGCTGCGCCCCCTACACGACGACAGACGCGTCCCCCAGCCCTTCTCCTGTCCTACCACTTGTGGCGGCCATGAAGGGGACCCCCAGCTCCCTGGACACCCTGATGTGGATCTACCACTTCCACAGCTCCACCGAG
Seq A exon
GTGAGGCTACGCCCGCCAAGGGCTGCACCTCGAGACCTTCTGGGTAGGTCTCCTGTTCGCCCCTGTGACCCCTGCCCTGCTACTCTACTGCTCTGCTCCTTCTCCAG
Seq C2 exon
GTGGCCCTCCAGCCCCCGCTTCTGTCTTCCCTGGAACTCTCCGTGGCCGCAGCCCATGAATATCTGGAGCAGAGGTTCAGAGAGCTGAAGTCCCTGGAGCCACCCGAACCGAAGATGCAGGGGATGCTGCCTGCCCCGAAGCCCACCCTGGGGCTGGTGTTGAGAGAAGCCACAGCCAGCCTCGTGAGCTTCGGCACCACCTTGTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205710-C17orf107:NM_001145536:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.238
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
CAAACACGGCTTCTCCTGGTA
R:
CCAGATATTCATGGGCTGCGG
Band lengths:
242-349
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)