HsaINT0162003 @ hg19
Intron Retention
Gene
ENSG00000148291 | SURF2
Description
surfeit 2 [Source:HGNC Symbol;Acc:11475]
Coordinates
chr9:136227141-136228040:+
Coord C1 exon
chr9:136227141-136227310
Coord A exon
chr9:136227311-136227931
Coord C2 exon
chr9:136227932-136228040
Length
621 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GAATTTTGTTTATCCCACAGAAG
3' ss Score
7.5
Exon sequences
Seq C1 exon
CTGAGCTATTCACCAGAAAGGACCTTGGAAGCACGGAGGATGGGGATGGCACTGATGACTTTTTGACAGACAAAGAGGATGAGAAGGCAAAGCCCCCAAGAGAGAAGGCCACTGATGAGAGCAGGAGAGAGACGACCGTGTACCGAGGGCTGGTCCAGAAGCGCGGGAAG
Seq A exon
GTGAGCTGTCACCTCCTCTGTTAGTGTGGCAGTGGCTTCCCCTAGTGATGGTTTTCCATTTGTTTAAAAAAAGAAAACTGAACCTTTTTCACAAGTGAAATCCCAAGCCAACAACACACAAGAACCATAGAAGCCGAGGCCGCTGGCTGGCGGAAGGCCGTGAGTGCCTACCATTGCTTCCCAGCCAGCCCCTTGTGGAAGCCAGGCTCTGTGGACCACGGTCAAGACCACTGGTTTGTGAGGACACCCTCCTACCTCAGACTATGAGCTGTGGTGTGTTTGTCCTTACCCCTGGGCACAGGGACCTGATTACTAGCCACCACCTTTGCCTTTGCCATCAGGGCAGGAGTGGAGACTTCCCCGCCTTTGGTAGATAAGCAGGACCAAGGCCAAAAGAGGACAAGGTCCTAATGAGTGTGTGGCATTGCACTGTACTCCTCTGAGGCCCTGCTGAGCGGGGTCTAATCCTGCAGCTGTTAAGGAAACGGGGGTGGAGAAAGCCTCTGTGGGTATTTGACCGACACCTCTGAGGCTGTGTGGGTGGGGAGAGCCCTGCACTCCAGGGCCCCTTCTCCATGGGATCAGAAAGGCTCAGTAATCAGAATTTTGTTTATCCCACAG
Seq C2 exon
AAGCAGTTGGGCTCGTTGAAAAAGAAGTTCAAGAGTCATCACCGCAAACCCAAGAGCTTCAGCTCCTGTAAACAGCCAGGTTAATAAAAGCACATGCCGTGAAGTTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148291-SURF2:NM_017503:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.982 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(22.1=100)
A:
NA
C2:
PF054776=SURF2=PD(9.1=82.1)
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:
TGAGCTATTCACCAGAAAGGACC
R:
CACGGCATGTGCTTTTATTAACCT
Band lengths:
270-891
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)