HsaINT0161999 @ hg19
Intron Retention
Gene
ENSG00000148291 | SURF2
Description
surfeit 2 [Source:HGNC Symbol;Acc:11475]
Coordinates
chr9:136223421-136223944:+
Coord C1 exon
chr9:136223421-136223546
Coord A exon
chr9:136223547-136223789
Coord C2 exon
chr9:136223790-136223944
Length
243 bp
Sequences
Splice sites
5' ss Seq
AAGGTTCGC
5' ss Score
5.95
3' ss Seq
GCCCGCCCACGCGTCCGCAGGTG
3' ss Score
10.15
Exon sequences
Seq C1 exon
AGGTTCTGCGAGCGGCTTCCGCCGGGCTGCTCCGCGGGCGCGTCGGCCATGAGCGAGTTGCCGGGCGACGTGCGGGCGTTTCTGCGGGAGCACCCGAGCCTGCGGCTCCAGACGGACGCCCGCAAG
Seq A exon
GTTCGCAGCGCGGGAGGGGAACGGAGTGGCGGAGAAGGGCGCAGTTGGGATGAGGGGCTGAGGGGAGGGCAGGGGAGAGGAGAGGGCAGGGGAGAGGGGAGAGGGGAGAGCAGGAGAGAGGGGAGGGCAGGGGAGAGGGCGCGGCGGGATCAGGGGAGGAGAGGGAAGGGGGCGCGGCAGGAGGGGGCACCAGGGAGCGGAGCCCTGGCCCTCCTGACGTCCTGCCCGCCCACGCGTCCGCAG
Seq C2 exon
GTGAGGTGCATCCTGACAGGTCACGAGCTGCCCTGCCGCCTGCCGGAGCTCCAGGTCTACACCCGCGGCAAAAAGTACCAGCGGCTGGTCCGCGCCTCCCCGGCCTTCGACTATGCAGAGTTCGAGCCGCACATCGTGCCCAGCACCAAGAACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148291-SURF2:NM_017503:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF054776=SURF2=PU(9.9=96.2)
A:
NA
C2:
PF054776=SURF2=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTGCGAGCGGCTTCC
R:
GGGTTCTTGGTGCTGGGC
Band lengths:
279-522
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)