HsaINT0161998 @ hg38
Intron Retention
Gene
ENSG00000148290 | SURF1
Description
SURF1, cytochrome c oxidase assembly factor [Source:HGNC Symbol;Acc:HGNC:11474]
Coordinates
chr9:133351755-133352142:-
Coord C1 exon
chr9:133352061-133352142
Coord A exon
chr9:133351983-133352060
Coord C2 exon
chr9:133351755-133351982
Length
78 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GGCTTGCTTTCAACCCCTAGGTA
3' ss Score
9.15
Exon sequences
Seq C1 exon
AGAGCACAGTCCCTGGAGGACCCATTGGAGGGCAAACCAGAGTTACTCTGAGGAACGAGCATCTGCAGTACATCGTGACCTG
Seq A exon
GTGAGTCCCCAGCGGCCCTCTGGCTTCCTCCCCTTCAGCCTAGCAGCCTGCTAATGCTGGCTTGCTTTCAACCCCTAG
Seq C2 exon
GTATGGACTCTCTGCAGCTACATCCTACCTGTGGTTTAAGAAATTCCTACGTGGGACACCTGGTGTGTGACAGATCAGCTGCTGAAGCCCTGTCCCTGGATAATGCAGTATTTCAAGACTGCCTTTATGCTGGATCATGTGCTACTGGTATAAAGTTCTGGCCTTCTACCTTAAATGAGCTCATGACTGGTTCATCATAAAATCCTGGCTTGGTTTCAGTCCAAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148290:ENST00000371974:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(12.3=100)
A:
NA
C2:
PF0210410=SURF1=PD(2.7=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGAACGAGCATCTGCAG
R:
CCAGTAGCACATGATCCAGCA
Band lengths:
183-261
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