HsaINT0161993 @ hg38
Intron Retention
Gene
ENSG00000148290 | SURF1
Description
SURF1, cytochrome c oxidase assembly factor [Source:HGNC Symbol;Acc:HGNC:11474]
Coordinates
chr9:133354659-133354957:-
Coord C1 exon
chr9:133354824-133354957
Coord A exon
chr9:133354742-133354823
Coord C2 exon
chr9:133354659-133354741
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:ENST00000371974:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 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