HsaINT0180824 @ hg19
Intron Retention
Gene
ENSG00000176428 | VPS37D
Description
vacuolar protein sorting 37 homolog D (S. cerevisiae) [Source:HGNC Symbol;Acc:18287]
Coordinates
chr7:73084350-73086440:+
Coord C1 exon
chr7:73084350-73084432
Coord A exon
chr7:73084433-73085343
Coord C2 exon
chr7:73085344-73086440
Length
911 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCCCTTCCCTCCCGGCCCAGGAG
3' ss Score
8.34
Exon sequences
Seq C1 exon
AGGAAAGCATGCATCGCTGGAGTCCCCACTGCGCGCTGGGCTGGCTGCAGGCTGAGCTAGAAGAGGCGGAGCAGGAGGCAGAG
Seq A exon
GTGAGGGGAGGGGTGGCTGGGGCTGGGGGCCAGGAGGGAGACCCATTCTCTGCCACCCCCTGGCTCATTCTTACACCTCAGGCTGGGGAGCCCCTCCTCTGGGAAGTCCACCCTGAATGCCTGGCGCATGCCAGAGCCTAGCATTGCTGTCCACCAGCACTGGACAGCCAGCAGGGCTCACTTTCCTACCTGTGAATTTTTTTCGGGCTCCCCTGTGACTGGGCTAGGGCAGCGTGGATCTGGGGCTACAGAGGAGCTGGGGCAGACTTTGTGCTGGGTTGGGAGTGCAGCGATCAGTGAGCTGAAGGTGGTGGGCTCCCGAAGGACATGTTAAGTCTATACTTCACATATGTCCCTGCCTCTGCTCCTGCCTCATCTCTGATCCAGCAGGTCTGGTGATGGCATCCTTATTTTAGAAGTTAGGGCTGGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGACCGAGGCGGGCGGATCGCCTGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGTGAAACCCCGTCTCTACAAAATACAAAAAAAAATTAGCCGGGCGTGGTGGTGCATGTCTGTCATCTCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCCGAGATTGCGCCACTGCACTCCAGCCTGGACCACAGTGAGACTCTGTCTCAGGAAAAAAAAAAAAAAGTGGGAGGACATTTGTCCACAGTTCACTTAGCAAGTAATCGGAGGCAGGCCCAGGCTGGAACGCAGGTCCCCTGTCCCCCAGCTGAGGGGTGATCACCATGGGGAGGGCCTCAGGGTGGGAAGGAGTGAGGACCAGTCCCCAGTCTGTGGTCGTGCCTCTCCCAAGCCTTCCCTTCCCTCCCGGCCCAG
Seq C2 exon
GAGCAGATGGAGCAGCTGCTGCTCGGGGAGCAAAGCCTGGAGGCCTTCCTGCCTGCCTTCCAGCGTGGCCGCGCCCTGGCCCACCTGAGGCGGACGCAGGCAGAGAAGCTGCAGGAGCTGCTGCGGCGTCGGGAGCGTTCTGCCCAGCCGGCCCCCACCTCGGCTGCTGATCCCCCCAAATCCTTCCCGGCTGCAGCTGTCCTGCCCACTGGGGCCGCCCGGGGGCCACCAGCAGTGCCCCGGAGCCTGCCCCCCTTGGACTCCCGCCCAGTGCCCCCACTGAAGGGCTCCCCCGGGTGCCCCCTCGGCCCGGCCCCCCTGCTGAGCCCTCGGCCCTCGCAGCCAGAGCCCCCCCACCGGTAGGATCCACGGTGCGGCCCCCCAGTTGGGGGGCCTAGACAAACTTGATGCGTGGCTCCTCCTCCTCCCCCACTGCCTGGGTGGGGGGAGGGGCAGGCCCCTCCCCCTGGCCTCAGGCAGGCCCTGGCCCTGGAGGCTGAGCTGGGGAGGAGGGTCCCCTGGAAGAGGCCCGAGAGGGGGCTGGGGGTGGGTGGGCAGGGCTTTATGCCTCTGGCGCTGAAGACACCCTGCCTTTTTTGTTTCCGTGCCCCGGGGCCTCTAGGGTGATGGACCAGCCCCGTTAAAGAACTTGACTCAACTACAGGGGCCTGGGAAGATGCCTGGGTCCCCTAGGGGCCTTGCCAAGGGGACCTGTCGCACCCCACCACTCCACTGGGCTCGCACAACGCCAAGGCCGCCAGGAGTGTTTTACATCATGTCCTGAGCCTACCTTTCCCCCAAATTCTGGGGCCCACAGCCTAGGAGCCAGGTGATCAGGCCTCGGCTGTGGGGCCAGGGACACCATGGCCCTGGGGCTACTACGTGTCCACACATGCTCCAGACCCTGGGGCAAGGTAGGCCAGGGGCTTCTGACCTGTGCAGGTGAGAGTGGGCCATACCCAGGAAAGACCATTCTGTATTTTTCTGTCCCTGTCTCCTTAGAATGGAAGCTTTTTGAGGGCAGGTCCTTGTCTTTGTACGTTCTGTCCCCAGCCCCGCCTCTTAGGGGCCGTCAATAAATGTGATGATGAGGATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176428-VPS37D:NM_001077621:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.823
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100),PF0307011=TENA_THI-4=FE(18.4=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=29.8),PF0307011=TENA_THI-4=PD(27.2=33.1)
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:
ATCGCTGGAGTCCCCACTG
R:
CCCTTCAGTGGGGGCACT
Band lengths:
358-1269
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)