HsaINT0161993 @ hg19
Intron Retention
Gene
ENSG00000148290 | SURF1
Description
surfeit 1 [Source:HGNC Symbol;Acc:11474]
Coordinates
chr9:136221514-136221812:-
Coord C1 exon
chr9:136221679-136221812
Coord A exon
chr9:136221597-136221678
Coord C2 exon
chr9:136221514-136221596
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTTATGCTCTGTCACTGTAGGTC
3' ss Score
8.91
Exon sequences
Seq C1 exon
GGGTGGCCTGGAGGCCAAGCAGATGTGGCAGTTCTGCAGCAGAAGCATCTGCCACAAAAGCGGAAGATGACTCCTTTCTTCAGTGGGTCCTGCTCCTCATCCCTGTGACTGCCTTTGGCTTGGGGACATGGCAG
Seq A exon
GTAAAGACCGGCATCTGGTGTGCGTAACTCTGGGCCCTTGACCTTGCTGCCATCTGCTTGGCCTTATGCTCTGTCACTGTAG
Seq C2 exon
GTCCAGCGTCGGAAGTGGAAGCTGAACCTGATTGCAGAGTTGGAGTCCAGAGTTCTGGCTGAGCCTGTCCCTCTGCCAGCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148290-SURF1:NM_003172:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=PU(6.4=31.1)
A:
NA
C2:
PF0210410=SURF1=FE(12.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGCAGATGTGGCAGTTCT
R:
ACTCTGGACTCCAACTCTGCA
Band lengths:
173-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)