HsaINT0180817 @ hg19
Intron Retention
Gene
ENSG00000139722 | VPS37B
Description
vacuolar protein sorting 37 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:25754]
Coordinates
chr12:123349875-123353109:-
Coord C1 exon
chr12:123353027-123353109
Coord A exon
chr12:123352155-123353026
Coord C2 exon
chr12:123349875-123352154
Length
872 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CAGGTTTCTGCCTCTTTCAGAAC
3' ss Score
9.41
Exon sequences
Seq C1 exon
ACAGACAGTCTAGCAGTGCTTCCTTGGAGACCCTGTTAGCACTTCTTCAGGCAGAAGGGGCCAAGATTGAGGAAGACACTGAG
Seq A exon
GTAAAGCCCACCAGCCTTGGTGGAATCCTTGGGGCGCTTTGGGCAGTCCGTGGGCCCGCTGCCTCCAGGGACCGTGAGTGCCACACCGCCACGGCCAGGAGTGGTGCCTCCCAGGTGTACGGGCTGTATACCAGCAGGCAGCCTGGCCTGTGTGCTGGGGAAAGTGCCAGGCAGGGGTCCAGGGAGCAGCGGGGTGAGTGAGGGCAGGTCCGAGCGAGGGCCAAGAGAGGGCATGCGTGCCACCCTGTGAACGCCGGCCCCTGGGGCCAGTGGCGGATTACCACGTGCCGTCGTTCAAGGGCCAGCTGGGAGGAGGCTACAGAGCTTCTGGGACACGTCCAGCTGCGCATTAGAGCCTTGAGCCTCGCCAGGCGATAAGGAAATGAGTCAAGGTCGAATGTTGTGCAGTTGTTGCAGGCTGGGGCCGGCAGGGTCTTGCCAAGATAGGGCTGGGCTCGATGAACTCTGAAGCCCTGGGGGCACAGGTGTTTCTGTCTTGCTTACCCACCCAGGGCGAGTCTGTCAGTCAGGGTGCAGCCGGGTGGAAGCAAGGAGGTGTTGGACTCCAGCGGGCTCGAGAGAGGCCTGGGACCCAGGAGTCGGAGCCCTCACCCAAAGGCCAGCTCCTCTGCCTGTCACGCTGGTGGTGGGGTGCGCAGCAGGGCTGTCGTCCTCTCCACCTAGTGGCAGCTCATGCTGAAGCCTGAGCCCATGACCTCTGGGATCTGGAGCAGGAGCGAGGCCCTCTGGGTGGTTACAGGGAGGGGGCAGTGTTGGAAGCAGCTGGGCGTTGCCTCTCCTTGTGCCTAGACCACGAAGGGAGCATCCTCCCCATCTGGCTGTCCCTGTAACCAGGTTTCTGCCTCTTTCAG
Seq C2 exon
AACATGGCAGAGAAGTTTCTGGATGGAGAACTTCCTCTGGATTCCTTCATTGATGTCTATCAGAGCAAACGGAAACTGGCCCACATGCGACGGGTGAAAATCGAGAAGCTCCAGGAGATGGTCCTAAAGGGGCAGAGACTCCCACAGGCCCTGGCCCCGCTGCCCCCCAGGCTGCCCGAACTGGCACCTACCGCCCCCCTTCCCTACCCTGCCCCAGAGGCCAGTGGGCCTCCTGCCGTTGCACCTCGGCGCATCCCCCCCCCACCACCCCCGGTGCCTGCGGGACGCTTAGCCACCCCGTTTACTGCGGCCATGAGTTCGGGACAGGCCGTGCCGTACCCAGGATTACAGTGCCCGCCCCTGCCCCCCCGCGTGGGCCTCCCCACTCAGCAAGGATTCTCTTCGCAGTTCGTGTCCCCATATCCGCCACCTCTCCCTCAGAGACCCCCGCCCCGGCTCCCTCCACACCAGCCGGGTTTCATCCTCCAGTGAGCGCCGGCGCGGTCCTTCCCGGGAGACTTCTTCCACCTGGCGTGTTGTGCTCTGCTCACGGGAAGGAGGCTGGAGGTCCGCTCTGTGCCAAGGGCTCTGGGGCCCTGGGCCAGCGTGTCTGTCTGATTTTAGAACTGTAGGTCAGTGGTGAGTAGTAGGAGCCCAGGCTTTGGGCATCAAGGCAGTTGTGTGTGCCGGGTTACAGCCTGACACCTGTGCGTTGCATCGGTTTGCATTATCCGTGTGATTTCTAAGTATCTTAGCGTTGATGAACTCATGTTTGGGAAGAAATAGGCCTCTCCCCCAGTCCCATTTAGAATCGTGGTCCTTCTGTTGCAGCTTTATTTAATGAGCATGGTTCATGATACTTATTTTATTTTCGAAAGACAGTCCTATGTGTCTCACCCACCGGCCACTGCAGCCCTGGTGAGGGCGGGTGGGCGCCGGCCGGCCTGGAAGAGCGCCGTGGCTGGGCCACCACCTGTGGCTGCGTTGTTGCTCACTGAATCTGTTGGGGAGAGGTCACCATAGTCACCGCCTGACCTGGCTGCTGCTCTTGCTTCAGAGCCACAAGCAAAGTTTGCACTGGGCCCACTGCCGAGTCCAGAGGCCGGAGAACGGCCACTGGTGTGGGAGGGGAGCGCACGAGTGGGACTTTGCACAGCAAATTGTGTCCCCAGCTCCTCCTCTCCCGCCTGCCTGGAGCCGGCCCTGAAGGTTTCTATGAAGAAATAATCCCCCAATATTTTTACTACGTGTGTGATTTTCCTGTTTTATATTGAAAAAACTTTTTTGACACTCCCAAGACCATTCAGGGAAATTTTATAAAAAATGCAGATACTGTCTTGAGCAGATCGAAATGCCGATGAAGTGGATGCAATTTCCTTTTGTGCAAGCAGTGCACGGTGCCCCCCCCTCGGGTGTCCGTGCTGTGCCTTAGCTTCCCCAGGTGCCGGGACTCACACCTGCTAGGGGCTGGGCAAGGCCCCGGCTCTGCTTTCTCTGAAGGGCTTGTCCAAGTTCATTGCCCTGTTACAGGTGGTCAAGACGTCCGGCCGCCTTGACCCAGGCTACCCTTAGCCAATATCCTCTGCCCCTGGGTGGCTGGTGGCTGGGCCTCAGGGTGGGCAACGTTAGGGGTTTGGCGAAAGCCCGCCCCATGGGATTGAGGGACGGGGCTGCACTCCAACCGTCTGCACCTGCTCTTCCCCCACCCCTGTGGGACCTCATCTTCACGTGCCATGTGTGCTGAAGGCCCAGGGCCCAGCAGGGGGCAGTGGCACCTGTTGACGGAAAAGGCCGAGGTGCTTACCAGTGGACCTTCTGGCCCGCCCCTCCCCTGTCACTTGTCGGGCATCCAGGGCCCCGACCTGTGCCTAGCCGCCAGGGTGACAGAAGGCAGAACTGAAGCGGGGTCTGGGCCACGGGCCAGGCCACTGCCTTTTGTCCTCAGTGACCGTACATTCCTGCTCTCGGACTTGAACTCTACTGTAACTGTTTTCTTAAAGGAAATGAAGCTGTACAGGACGATTCACTGCCATGCCAGTCAGGCGGGCTTGCCATGTTCTGTGAATCTCGAGTGAGCGGTGCCACCCGCCCCCATACCTCCGCCACCGGCCGCTGTCGGGGATGCCACAGCCTGCCACGGTCGCAGCCAGACGTGAGCTTGGCATTGAAGTTGCAAAGCGGCCCCTGGCCGGGCTCGCCGTCGCTGTCCAGGGCCGTGTCCGGTGCTGTGGCTGTAAAGCTGTAGGACCCTTTTTAATAAATAGAGAATTATTAATAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139722-VPS37B:NM_024667:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.727
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.2=100),PF142471=DUF4344=PD(18.2=64.3)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=22.0)
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:
AGGGGCCAAGATTGAGGAAGA
R:
CGAACTCATGGCCGCAGTAAA
Band lengths:
349-1221
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)