HsaINT0142686 @ hg19
Intron Retention
Gene
ENSG00000136942 | RPL35
Description
ribosomal protein L35 [Source:HGNC Symbol;Acc:10344]
Coordinates
chr9:127623698-127624240:-
Coord C1 exon
chr9:127624189-127624240
Coord A exon
chr9:127623835-127624188
Coord C2 exon
chr9:127623698-127623834
Length
354 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
ACACTCTCTCTTGCGCGCAGGCC
3' ss Score
9.62
Exon sequences
Seq C1 exon
CTTCCTCTTTCCCTCGGAGCGGGCGGCGGCGTTGGCGGCTTGTGCAGCAATG
Seq A exon
GTGAGAGCTGCGGAATCGGGCGCCATCCGAGCGCTGTGAGGCGCGGGGGTTGGGGAAGGCGGTGCGGGCTGAGCCCGCGGATTCTATCTGCCACCTAGGCCTGTGGGGCGCCGCGCAGAATGGTCTGGCGCCACCACAACCCGCCTCTTCGCTTGGCGCCGGGAGAGGCGCGCGGCCCGGGCCTGGGTTACTCTGCCCAAGGCACGGCCGGCGAGGGAGACTGTCCTGAGCCCTGGTTGGGGCTCCGGCGCACTCGTAGTCGATGGCGAGTCGCGCGCCTTTGGGGGCTGGCCACGCAGGTGAAGGGGATATGGCCCCGCGGCCTGGCTGAGGCACACTCTCTCTTGCGCGCAG
Seq C2 exon
GCCAAGATCAAGGCTCGAGATCTTCGCGGGAAGAAGAAGGAGGAGCTGCTGAAACAGCTGGACGACCTGAAGGTGGAGCTGTCCCAGCTGCGCGTCGCCAAAGTGACAGGCGGTGCGGCCTCCAAGCTCTCTAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136942-RPL35:NM_007209:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.076
Domain overlap (PFAM):
C1:
NO
A:
PF0083118=Ribosomal_L29=PU(67.8=87.0),PF0038014=Ribosomal_S9=PU(50.0=89.1)
C2:
PF0083118=Ribosomal_L29=PU(67.8=87.0),PF0038014=Ribosomal_S9=PU(50.0=89.1)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCTCTTTCCCTCGGAGCG
R:
TCTTAGAGAGCTTGGAGGCCG
Band lengths:
188-542
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)