HsaINT0161992 @ hg19
Intron Retention
Gene
ENSG00000148290 | SURF1
Description
surfeit 1 [Source:HGNC Symbol;Acc:11474]
Coordinates
chr9:136221679-136223175:-
Coord C1 exon
chr9:136223124-136223175
Coord A exon
chr9:136221813-136223123
Coord C2 exon
chr9:136221679-136221812
Length
1311 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AGTGTTGTGAAACTCTCCAGGGG
3' ss Score
3.99
Exon sequences
Seq C1 exon
GCCCCGGCCAGCGCCGCCTGGAGGAGCGTCCTCAGGGTCTCCCCGCGCCCAG
Seq A exon
GTGAGGGCTGCAGGCCGGGCTGTGATCCAGGCGCCTGGGCAGAGCCACCTGCTGTCTGCCCTGCACTTTGAAGGGTTGTCGTGGGGATTGAAATGAACCAACTGCCGGCTGAGCGGAGGCTCCCTGGGAGTGACAAGTTCCGTATTAAAATGCTTTCAGTGGAATTGTGGTCGTGTGCCGGGCATGTAGCGAGCGCTTTGTCCTCACAACGCGAGAGGTAGCTCCTTGGTCGTTCCCCTGTTACAGAGAAGGCTCGAGAGTTACTTCCGAACGTCCCATCCAGCTAATGGGTGGCCAGCCCAGGCTGAAAGCCCAGGGCTCTGAAAGTAAAGCGTATCTAACCACCGCGGCTTACGTGTTCCTCTCAGTGTGCAGCACAGGGCTGTTTTGCCGTGTGTAGAGTGCTGTGCAAGCCTGCCCCAGGCCTGCCTTTTTATAAAAAAAAAAAAAAAAATAGTATCCGCAAGGCCCCTGGTGCTTTTCAGCGGATGGAACTCATCCTCTGAGAGCTTAAAGGCACTTTCTGTGTACATTCTTCCCTCTTTACATTTACGATGAGTTGTAAAAATGGAAAGCTGTTAAGAGAGCTCTGTGAGCCATTACTGAATTGATATATTTTTCTACATAACACAATAACCACTAGTGCCTGACTAAGCTACTTAGTAACTGTAGCTGCTTATTTTTTATTTTTTGAGACAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTCGGCTTACAGCAACCACCTCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGAAGCACCATCGTGCTCAGCTAATTTTTGCATTTTTTTGTAGAGATGGGGTTTCTGCATGTTGGTCAGGCTGGTCTCGAACTCCTGATCTCGTGATCCGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGTGCCCGGCCAACTGTAGCTGCTTATTAAATGCATTTTGAATGGATGAATGGTGCATCTTAGTGCAGTGGAATACATCTAGATTCTTGAGTAAAAAGGCATGAGTTACTCAGGGTCGTGGTTGGTGGTCAAACCGGCACTGAGCCCTAGATCCCACTTACTCACTTGGCAGACGTACTGTGTGTGCCTTGTTCTGGGCACCGGGTTAGGAGCTGGGCTGGATACAGGTGCTGCTAGTTGGCTCTAGGCAGCAGGTTTTGATTGGCAGTACTGGAGTCTGTCTTGGAACGGGCTGCTCCAGGTCTGTGTTCGAGGGCTTCTGGCTCCATGTCAGTGTTGTGAAACTCTCCAG
Seq C2 exon
GGGTGGCCTGGAGGCCAAGCAGATGTGGCAGTTCTGCAGCAGAAGCATCTGCCACAAAAGCGGAAGATGACTCCTTTCTTCAGTGGGTCCTGCTCCTCATCCCTGTGACTGCCTTTGGCTTGGGGACATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148290-SURF1:NM_003172:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.078
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0210410=SURF1=PU(6.4=31.1)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)