HsaINT0180821 @ hg19
Intron Retention
Gene
ENSG00000167987 | VPS37C
Description
vacuolar protein sorting 37 homolog C (S. cerevisiae) [Source:HGNC Symbol;Acc:26097]
Coordinates
chr11:60897728-60900809:-
Coord C1 exon
chr11:60900727-60900809
Coord A exon
chr11:60900012-60900726
Coord C2 exon
chr11:60897728-60900011
Length
715 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CTGGACCTTATGTCTTCCAGGCC
3' ss Score
7.52
Exon sequences
Seq C1 exon
AGAAATTTTCTTCAGCACTGCAGCCAGGGACCTTGTTAGACCTTCTGCAGGTGGAAGGCATGAAGATCGAAGAAGAGTCCGAG
Seq A exon
GTGAGAGGGCGAGGCGACACCCCTCTTCCCTGGACGGGGTGTCAGTCCCTGCAGCAGGGGCCCTTGGAAGGAGAAGCAGATGTCTGCAAAGCATGGAACAAGGGAGCTTTCGTAGATGGCAGAGGTGAAGGACATCTTTAGTCCTGGGGAGGCCTTTTGGGTATAAATAACAGGAACCCAGTCCCACTAGCTGAAGCAGAAACGGGTGACAGTGGACAAGGGCAGCTCGCAGCCCTGGATGGTAGGGCAGCACAGCAGGAGGCCCCCAGGGGCTGAGGCCAGCTCCCTACTCCACTCTCCCTGCTTCCTGCTTCCCTCCGGCCACCTCTTCAGCCTCTGTGGGCAAACTGGTGCTGTCCACTCTGTGTCTGGGTGGAAGAAGCTTCTAGGCCCTCCCAGTCCCTGGGCTAGTGCTCATCCAGGTGTTCAGCACATATATGCAGTGGCCACTGTGGGCCTGGCATGATGCCAAGGTGCCAGGACAGAGGTGACCACGACAGAGACAGTCCTCGCCTTCAAGGGACTGACATTCTAGTGAGGGAGACAGTGCATGTACCATATGTCAGCTGTGAGAAGGGGCGTATGGGCAGGGAAGAGGAGGGGGTGCCTGAGGCGGCGTGAGGTGGGAGGGCTGCAGCTGAACTCAGACCCTGGGGAAAATCAAGAGGCCTTGATCCCAGCTGCCCCTGTTGTCACTGGACCTTATGTCTTCCAG
Seq C2 exon
GCCATGGCTGAGAAGTTCCTGGAGGGCGAGGTGCCCCTGGAAACGTTCCTGGAGAATTTTTCCTCCATGAGGATGCTGTCCCACCTGCGCCGGGTTCGCGTGGAAAAGCTCCAGGAAGTGGTGAGGAAGCCCAGGGCTTCCCAGGAGCTGGCCGGCGATGCCCCTCCACCCCGTCCACCACCCCCGGTGCGCCCAGTCCCCCAGGGAACACCCCCTGTGGTTGAAGAGCAGCCGCAGCCACCATTAGCCATGCCTCCCTACCCTTTGCCCTACAGCCCATCCCCCAGCCTGCCTGTGGGCCCCACTGCCCATGGAGCCCTGCCACCGGCCCCTTTCCCAGTAGTGTCCCAGCCCTCCTTCTACAGCGGGCCTCTGGGCCCCACTTACCCGGCAGCCCAGCTTGGACCCAGGGGTGCTGCGGGTTACTCCTGGTCCCCACAGAGGAGCATGCCACCCCGGCCGGGCTATCCTGGGACCCCAATGGGTGCCTCTGGGCCTGGGTACCCCTTGCGGGGAGGCAGGGCCCCCAGTCCTGGTTATCCTCAACAGTCCCCATACCCCGCAACAGGAGGAAAACCTCCCTACCCAATACAGCCTCAGCTCCCCAGCTTTCCAGGCCAGCCCCAGCCCTCAGTGCCCCTGCAGCCCCCTTATCCCCCCGGGCCCGCCCCTCCCTATGGGTTCCCACCACCGCCGGGGCCTGCCTGGCCTGGGTATTAGACACACTCCTGGCCCTCGGCCCCTCCCTAGTCCCACCCACGCTCAACCTTTGGCCCAGCCATCGCCGAGATTCGAGGGTCAACTGGAAGTGGCGTTGGTGCTCCCTGTGGACTTGCGTCGGCACCCAGAGGCCTTGGAGGGACAAGGCACTGGGCGGTGTGACTGGTCATGGCACTTGCTGGCCTTCTGGCCAGAGGTCCTCCTGGAAGCCCCTCCTTTCAGTGCCTGGCTGCAGCGGTGCTAGCCAGGCTGGAGTCCAGCACCTCTCGCCGGTGTCTGTGTGAGTGAGCGCATGTGCGCATTTATGAGCATCTACTTGCGGCTGCACTCAGGGCCATTTGAACCCAGTGCAGAGTTATCTCTATGAGGAGGCCCCGGGTCTCCAGCCCCCTCCATCTCCCCTGGGGTTTGGCATATTTGACATGGAGCCCCATGCCAAGGGATGCAGCTGTTGGTGTCTGTCCAGTCCATTCAAGGCTAGCCTGCCCATGCACTGTGGCAGGGGTTGGATTGGAGGGAGAGAACAGAGTTGGGAAAAACAACAGGTTTGAGTCCTATAAAGCCATAATTTAACTCCAGTAGCTGATGTCAGACAAGCTTGTCCTATGTCCTATTTGAGTGGCAGCAGCGCCAGCCCAGCAAGAAGGCTGGGGGTTGTCAAGGTTGTCCCCAGACCTTGCTTGCAGTGGTTGGAGAACCCAGGGGGCTGCCTTGGGCCCTCTGGCCAGAGGGAAGCGGGCAGCTCTAGCCCTGGAGATTGTGGTCACATTGGGGCTTGTTTAGGATTGGAGGGCCAGGTCACCTCCCCAGCCACCCTCCCTTCTCTCCTCTGGGGTCCCCACTTTAGGGCGACTTTGCCCGAGGCCCACGCATCCATCCACTCCTTTAGTGCCTTGAATCTCATTCACAAGCAGCCCCCTCCCTTCCCCTCCCCTTCTCACTCTGTTGATGTAATCCTCCCACCCCCAGTGTCCATCCTAAGACAGGCATCAAAAGAGGCCCTAACTTTACTTCCCAAATGGTGCTTTTTAAAAAACACCATCACTACATTAGGGGCAATTTTTTCACACCTCCCTGTCTTCAGAATGTAAAGGGTGGGGATTATGTCTCTGTTTAATATGCAGCCCCCTGCACTGTGGGGTTTGGGGCATGTTCAGTAATAAGAATGAATACAATAGACAAAGGGGGTGTGATGAGTGTTAACTTGGTTGTTCCAGAGGTAAACCAGGTCTCAGGGAAGAGCCTGGAGCTGCTATTGCTTAGGAAGTTGTACGTGCCTTGAAATGTCCACTACCTGAGGACGCAGCATCTGGTGGGCCCGGGGCTGCTGGGGCCAAGGAGGGACCTTGACCTTCTGGTGCCTGCCCCTCCCCGGCCTATGTGCCATCCGCGTGACGCTAGGTCAGCGCTGCCGGTTCTTTACCAAATGTGCTTGCTTCTCCTAAGTTATTTATAAAGAGAAATCACTAATGGACTCTACTGGTTTGAGTGCTTCTGAGCTGGATGACCGACCGCCTGTATGTTTGTGTAATTAATTGCCATAATAAACTTTGATGAGTCACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167987-VPS37C:NM_017966:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.858
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.6=100),PF056227=HOOK=PD(7.3=25.0),PF0001021=HLH=PD(13.3=14.3)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=15.0)
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:
TTTTCTTCAGCACTGCAGCCA
R:
TGTAGGGCAAAGGGTAGGGAG
Band lengths:
352-1067
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
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)