HsaINT0162009 @ hg38
Intron Retention
Gene
ENSG00000148296 | SURF6
Description
surfeit 6 [Source:HGNC Symbol;Acc:HGNC:11478]
Coordinates
chr9:133334392-133336398:-
Coord C1 exon
chr9:133336039-133336398
Coord A exon
chr9:133334602-133336038
Coord C2 exon
chr9:133334392-133334601
Length
1437 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
GGGTGATAGAGGCACTGAGGCCAGGCCCCGGGGGTGCCCTGCTGCACCGACTCCGGGCGGAGATTGGCTGTCCTCGGCCCGCAATGCTGTGCGCCCCGCCCCGCGCGCCGCTTCCGGCGGAGTCAGGCTTGGCTAATCGAGCGCGCGGGCTGGCGGCTCGGCGTTCGTTTGGCCGCGCCTGCCCGTGTGGTGGTTTCCGGCGGAGGTGGTGAGAGTCGCACGCGCAGCGGGGAAGGTGTGAGTCGTGAACGGCCCGGGTCTCCGCCATGGCCTCTCTACTCGCCAAGGACGCCTACCTGCAGAGCCTGGCCAAGAAGATCTGCTCCCATTCGGCCCCGGAACAGCAGGCGCGCACGCGGG
Seq A exon
GTAACGCACAGGGCCGGGCCGGGACTAAGGGGCCTGCGAAACGGGGGACGCGGCCGGAGCCGGTGTAGACGAGTCTGTAAAGTACTAGAAAAAAAATCTAAGTGACTTGTGAAATTATCGCCGTTTCCCTTATTTGTTTTTTTTGTTTTTGTTTTTGTTTTTGGAGACGGAGTCTCGCTCTGTCGTCCAGGCTGGCGTGCAGCGACGCGATCTCGGCTCACTGCAAGCTCCGTCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCCGGCACTACAGGCGCCCGCCACCACGCCCAGCTAATTTTTTTTTTTTTTTTTGCATTTTTAGTAGAGACAGGAGTAATGGTCAGTCAGTGGGAAAAGACCCTTTCAGTCCCTTCACTACGGGCATGGTGCGGTGTGGGGAGGAGGAGGATGGCAGAGGGCTCCTGCGCTTAGGGTTCTCATGGCCTGGTGACCACGCTGCACAAGGGAAGTAGATAATCGGGTGGGGAAGCCGACAGCGGGGACGTGTCAGTGCTGTCTGGGCCCAGGAGGAGAGGAGAGCAGCAGGGTCTCTGGAACCACCAGAGGTAAAACGGGGTTTCCTTTTTATTCAAGGACGATATATTGGTTATAGCAAATCCAAAATCTTAAGTGAATTTTCTCATTACCTAGTATGTCTTCCGTCTGTCTTTCTCATCCTTTTTGAAATTTTTTTTTTTTTTCATTAAAACGATTCAGCTCCTACTTTACTTAGACTGATTTCTCCCATTTAAAATGTAAACATTGTCCGGCCGTGCGGCCTCATGCCTGTAATCCCAGAATTTTGGGAGGCTGAGGAGGGCGGATCACAAGATCAGAAGATCAAGACCATCCTGGACAACATGGTGAAACCCCGTCTCTACCAAAAATACAAAAATTAGCCGGGCACAGTGGTGGGCGCCTGTAGTCCCAGCTACTCCGGAGGCTGAGGCAAGAGAATCGCTTGAACTCGAGAAGTGGAGTTTGCAGTGAGCAGAGATTGCGCCACTGCACTTCAGCTTGGGGAACAGATTGAGACTCCATCTCAAAAAAGAAAAAATGTAAACATAACCCCCAGCAGCTAAAATGAAAGCCCTTGCCATTGTGTTTGATGGCAGCATGGTAGCTTATTGTAAAGCAGGGCCAGAAATTGTTAGTGGAGGTGGATATTCAGGTTTTTCTAATGTTTCACTCAAATAATGGTGATGAACGTCCTTGAAGCCTCATCTTTGTGCCTGATGAATTCTCACAAGCAGAACTACTGGGTCAAGGTTGTGGTTCTGAGCTCTAGGATCAGTGTCTCTGGCCCCCGATCCTGATCCTCTTTCGGCATCTTCCTGGGATCAAAGCCTTGGTGAGCCTTTCCTGCCTATTGAATGGGCCATGAGATTGGGACTTAACTCTTTCTTATTTTGCATTTCAG
Seq C2 exon
CTGGCAAAACTCAAGGCTCAGAAACTGCAGGGCCCCCAAAAAAGAAAAGGAAGAAAACACAAAAGAAATTCCGGAAGCGAGAAGAGAAGGCTGCTGAGCACAAGGCCAAGTCCTTGGGGGAGAAATCTCCAGCAGCCTCTGGGGCCAGGAGGCCTGAGGCAGCCAAAGAGGAAGCAGCTTGGGCTTCCAGCTCAGCAGGGAACCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148296:ENST00000372022:1
Average complexity
IR
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAGTCAGGCTTGGCTAATC
R:
GCTCAGCAGCCTTCTCTTCTC
Band lengths:
342-1779
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains