HsaINT0180820 @ hg19
Intron Retention
Gene
ENSG00000167987 | VPS37C
Description
vacuolar protein sorting 37 homolog C (S. cerevisiae) [Source:HGNC Symbol;Acc:26097]
Coordinates
chr11:60900727-60901679:-
Coord C1 exon
chr11:60901508-60901679
Coord A exon
chr11:60900810-60901507
Coord C2 exon
chr11:60900727-60900809
Length
698 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGG
5' ss Score
4.66
3' ss Seq
CGTTCTGCCCTCCCTTCCAGAGA
3' ss Score
11.27
Exon sequences
Seq C1 exon
GTCCAGGACCTACAGCTGGAACGGGAGATGGCACTGGCCACCAACCGGAGCCTGGCAGAGCGGAACTTGGAGTTCCAGGGTCCCCTGGAGATCAGCCGCTCAAACCTCTCGGATAGATACCAGGAGCTCCGGAAGCTCGTGGAGCGGTGCCAGGAGCAGAAGGCAAAGCTGG
Seq A exon
GTAGGGTGGCTCCTCTGTGAACTCAGGGTCCCCATTCAGGGTTGGACGGAGGCCCACCGTGTTCCCAGCCCTGTGCTAAGTGCTTTATGTATATTTTTTCACAACAGCCATAGAAGGGTGGGTACTGTTGTTACTCCATTTTATAGGTAAGAAAAATGAGGCTCAGAGAGATTCAATAACTTGACTAAGGTCACCCAGCTTAGAAATAGGTGGAATTGGGATTTGAATTGAGACAGCCTGCATCCTTTGCTGCTGCCGTTACCCTTGGCAGCTCAGCTTCTATGCTTTACTGAGCTGTTCCTGAGCTGCTCTGGGCTCTCTGTGTCCCAGGACCTGTCACCTTTGAAGGTGGGAGGGTGGTCCTTGTCTTGATGGTGAGAAAGCTTGACACTCAGGTTAGGTAACTCCCCTTGCTGGCAGGCAGAACTGGGTCAGTTGGGCTCTGAAGCCCAAGTCATTTCCCATCCCAGGATGGCGTAGGGTAGGCTTGGCCAAGGTCTAGGCTAGGTTCATTCGGGCCCTTCTCTGCTCAGGAAGGAACTGGACCAAAAGTGCTCATCAAGCCCACCCAGAAGGACCCTTTGGTGGACCCTGCTGTGGTGGCTGGGCCTGGATGCACACAGAGGGTATGCAAAGTGCCTTTAACACTGAATCAGGAAGCACTTTTCAAATGTCAGTCGTTCTGCCCTCCCTTCCAG
Seq C2 exon
AGAAATTTTCTTCAGCACTGCAGCCAGGGACCTTGTTAGACCTTCTGCAGGTGGAAGGCATGAAGATCGAAGAAGAGTCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167987-VPS37C:NM_017966:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.121 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(39.3=100),PF056227=HOOK=FE(59.4=100),PF0001021=HLH=PU(83.3=43.1)
A:
NA
C2:
PF072008=Mod_r=FE(18.6=100),PF056227=HOOK=PD(7.3=25.0),PF0001021=HLH=PD(13.3=14.3)
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:
GTCCAGGACCTACAGCTGGAA
R:
TCGGACTCTTCTTCGATCTTCA
Band lengths:
254-952
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)