HsaINT0180823 @ hg19
Intron Retention
Gene
ENSG00000176428 | VPS37D
Description
vacuolar protein sorting 37 homolog D (S. cerevisiae) [Source:HGNC Symbol;Acc:18287]
Coordinates
chr7:73083749-73084432:+
Coord C1 exon
chr7:73083749-73083920
Coord A exon
chr7:73083921-73084349
Coord C2 exon
chr7:73084350-73084432
Length
429 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TGTCCCTCTGTGGCCCTCAGAGG
3' ss Score
8.79
Exon sequences
Seq C1 exon
TTCCAGGGCCTGCAGCTGGAGCGTGAGGCCTGCCTGGCCTCCAACTACGCGCTGGCCAAGGAGAACCTGGCCCTGCGGCCCCGCCTGGAGATGGGCCGGGCTGCCCTGGCCATCAAATACCAGGAGCTTCGTGAGGTGGCCGAGAACTGCGCGGACAAGCTGCAGCGACTGG
Seq A exon
GTGAGGGCACGTCTGGGAGAACCCCCTGGGGCTGGTGGGGGCAGTTGGCCATCCGGTGGGTTGGCCTTGGGAAGTGCCAGGCTCTGATGGATGGGAGTTGGGCGGACCTGCTCCTGGCTTGCTGGGCAGTAGAGTTGAGGAAGTGAGAGGAAGTGGGGAGGGTTGGGTGGGAGAAAGGGGACCCAATACGCAGGGTCCCCCTGAGATGCTGAGGGGGACAAAGCCTCCCCTGTCTCTTTTGTACTAGGACGAGGAGCAGAAACTTGGTAGGGGCCGGATCCACAAAGCGGTCACATGGGCACGGTACAGATGAGGAAACTGAGGCTCTAGACCAGGGGAAAGGGAAATATAGAATCACATGGGGTCAGCGGGAGAGTGCAAGCCCGGGGCCCTGGCCTGTCTGTCACTCTGTCCCTCTGTGGCCCTCAG
Seq C2 exon
AGGAAAGCATGCATCGCTGGAGTCCCCACTGCGCGCTGGGCTGGCTGCAGGCTGAGCTAGAAGAGGCGGAGCAGGAGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176428-VPS37D:NM_001077621:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(38.0=100),PF0307011=TENA_THI-4=FE(38.8=100)
A:
NA
C2:
PF072008=Mod_r=FE(18.0=100),PF0307011=TENA_THI-4=FE(18.4=100)
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:
TTCCAGGGCCTGCAGCTG
R:
CTCTGCCTCCTGCTCCGC
Band lengths:
255-684
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)