HsaINT0162009 @ hg19
Intron Retention
Gene
ENSG00000148296 | SURF6
Description
surfeit 6 [Source:HGNC Symbol;Acc:11478]
Coordinates
chr9:136201228-136203047:-
Coord C1 exon
chr9:136202876-136203047
Coord A exon
chr9:136201438-136202875
Coord C2 exon
chr9:136201228-136201437
Length
1438 bp
Sequences
Splice sites
5' ss Seq
GGGGTAACG
5' ss Score
4.76
3' ss Seq
TTTCTTATTTTGCATTTCAGCTG
3' ss Score
9.39
Exon sequences
Seq C1 exon
GGTGGTTTCCGGCGGAGGTGGTGAGAGTCGCACGCGCAGCGGGGAAGGTGTGAGTCGTGAACGGCCCGGGTCTCCGCCATGGCCTCTCTACTCGCCAAGGACGCCTACCTGCAGAGCCTGGCCAAGAAGATCTGCTCCCATTCGGCCCCGGAACAGCAGGCGCGCACGCGGG
Seq A exon
GTAACGCACAGGGCCGGGCCGGGACTAAGGGGCCTGCGAAACGGGGGACGCGGCCGGAGCCGGTGTAGACGAGTCTGTAAAGTACTAGAAAAAAAATCTAAGTGACTTGTGAAATTATCGCCGTTTCCCTTATTTGTTTTTTTTGTTTTTGTTTTTGTTTTTGGAGACGGAGTCTCGCTCTGTCGTCCAGGCTGGCGTGCAGCGACGCGATCTCGGCTCACTGCAAGCTCCGTCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCCGGCACTACAGGCGCCCGCCACCACGCCCAGCTAATTTTTTTTTTTTTTTTTGCATTTTTAGTAGAGACAGGAGTAATGGTCAGTCAGTGGGAAAAGACCCTTTCAGTCCCTTCACTACGGGCATGGTGCGGTGTGGGGAGGAGGAGGATGGCAGAGGGCTCCTGCGCTTAGGGTTCTCATGGCCTGGTGACCACGCTGCACAAGGGAAGTAGATAATCGGGTGGGGAAGCCGACAGCGGGGACGTGTCAGTGCTGTCTGGGCCCAGGAGGAGAGGAGAGCAGCAGGGTCTCTGGAACCACCAGAGGTAAAACGGGGTTTCCTTTTTATTCAAGGACGATATATTGGTTATAGCAAATCCAAAATCTTAAGTGAATTTTCTCATTACCTAGTATGTCTTCCGTCTGTCTTTCTCATCCTTTTTGAAATTTTTTTTTTTTTTTCATTAAAACGATTCAGCTCCTACTTTACTTAGACTGATTTCTCCCATTTAAAATGTAAACATTGTCCGGCCGTGCGGCCTCATGCCTGTAATCCCAGAATTTTGGGAGGCTGAGGAGGGCGGATCACAAGATCAAAAGATCAAGACCATCCTGGACAACATGGTGAAACCCCGTCTCTACCAAAAATACAAAAATTAGCCGGGCACAGTGGTGGGCGCCTGTAGTCCCAGCTACTCCGGAGGCTGAGGCAAGAGAATCGCTTGAACTCGAGAAGTGGAGTTTGCAGTGAGCAGAGATTGCGCCACTGCACTTCAGCTTGGGGAACAGATTGAGACTCCATCTCAAAAAAGAAAAAATGTAAACATAACCCCCAGCAGCTAAAATGAAAGCCCTTGCCATTGTGTTTGATGGCAGCATGGTAGCTTATTGTAAAGCAGGGCCAGAAATTGTTAGTGGAGGTGGATATTCAGGTTTTTCTAATGTTTCACTCAAATAATGGTGATGAACGTCCTTGAAGCCTCATCTTTGTGCCTGATGAATTCTCACAAGCAGAACTACTGGGTCAAGGTTGTGGTTCTGAGCTCTAGGATCAGTGTCTCTGGCCCCCGATCCTGATCCTCTTTCGGCATCTTCCTGGGATCAAAGCCTTGGTGAGCCTTTCCTGCCTATTGAATGGGCCATGAGATGGGGACTTAACTCTTTCTTATTTTGCATTTCAG
Seq C2 exon
CTGGCAAAACTCAAGGCTCAGAAACTGCAGGGCCCCCAAAAAAGAAAAGGAAGAAAACACAAAAGAAATTCCGGAAGCGAGAAGAGAAGGCTGCTGAGCACAAGGCCAAGTCCTTGGGGGAGAAATCTCCAGCAGCCTCTGGGGCCAGGAGGCCTGAGGCAGCCAAAGAGGAAGCAGCTTGGGCTTCCAGCTCAGCAGGGAACCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148296-SURF6:NM_006753:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.531 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGAGGTGGTGAGAGTCGCA
R:
CCCAAGCTGCTTCCTCTTTGG
Band lengths:
342-1780
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)