HsaINT0180824 @ hg38
Intron Retention
Gene
ENSG00000176428 | VPS37D
Description
VPS37D, ESCRT-I subunit [Source:HGNC Symbol;Acc:HGNC:18287]
Coordinates
chr7:73670020-73672110:+
Coord C1 exon
chr7:73670020-73670102
Coord A exon
chr7:73670103-73671013
Coord C2 exon
chr7:73671014-73672110
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:ENST00000324941:3
Average complexity
IR
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