HsaINT0180369 @ hg19
Intron Retention
Gene
ENSG00000128218 | VPREB3
Description
pre-B lymphocyte 3 [Source:HGNC Symbol;Acc:12710]
Coordinates
chr22:24094930-24096630:-
Coord C1 exon
chr22:24096502-24096630
Coord A exon
chr22:24095386-24096501
Coord C2 exon
chr22:24094930-24095385
Length
1116 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
3' ss Seq
AGTGGGTTTGTGTCTCGCAGTTT
3' ss Score
6.72
Exon sequences
Seq C1 exon
CTTCCCAGCCCTGTGCCCCAAAGCACCTGGAGCATATAGCCTTGCAGAACTTCTACTTGCCTGCCTCCCTGCCTCTGGCCATGGCCTGCCGGTGCCTCAGCTTCCTTCTGATGGGGACCTTCCTGTCAG
Seq A exon
GTGAATCTTTCCTGGGCCTCAGTCACCTGGGTGTGGGGTGGGGAACAGTACTGGCCCCAGAAGGCCCCTGCAAGGAGGCAAATCGATGGGGACAGTAGGGCAGGTCCTGGGAGGGGTATTTTTTTTTTTTTTGAGACGGAGTTTTGCTCTTGTTGCCCAGGCTGGAGTGCAACGGTGCAATCTCGGCTCACTGCACCTCTGCCTCCCAGGTTCAAGCGATTCTTCTGCCTCAGCGTCCTGAGTAGCTGGGATTACAGGCATGCGCCACCACGCCTGGCTAATTTTGTATTTTTAGTAGAGACAAGGTTTCTTCATGTTGGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCCGCCCACCTCAGCTTCCCAAAGTGCTAGGATTACAGGCTTGAGCCACTGCACCTGGCTGGGAGGCGTATTCAGGTAGAGGGGTGACCTGGCTTCAGACAGCTCTGCCCTTGACCTGGGGCAAATCACTTCCCTGTGTGGGCCTTGGTTTTCTCATTCGTGAATGACCAGATCACTAGAGCCCTGGACTCTGACTTTGGGTCTCCTTCTTAGTTTTTCACAGGGGAAGCTATTGTGGGTTGGTCCCTACCCCACAGGGCCTGAGGCAATCTAACCTCCCTGAGAGGGTCCCTGCAGCCAGTTGCCTGAGGCTGAGTTGATGTGTGGGACAGCCCAGGAGGTTCCTGGGGGTGGTTAGTCTGTATTCAGGGTTTGGAAGAGCTGAAGTGAAGTGGGCGGGGAAGTGGGGGAGAGGGGTGCAGTTCTGCAGAGAAACGTGGGTGGGTAGCAGAGGGACCTAGAGGCTGCTAGTCCAACCTTCTGAGCTCTGGGCCTTTAACTGAACACAGATCCTTGAGGATATGGCACTAATGGAGATTTGGGGGCTAACTCCAAACCCCTCACTCACAAAGGGAGATGGAGGTCCAGATAGGGCACCCTAAGTCACACAGAACCAGGCCTCCTGCACCCCGTTCATTGCTAATCCCATAGCACTGGGCTATGAGCCCTTTGGGACTGGGAGTCTCCATGGAGTCCAACCAAGCCTTCACAGGGCAGGGGTGGGAGGGAAGGGGCTCAGGCTGAGTGGGTTTGTGTCTCGCAG
Seq C2 exon
TTTCCCAGACAGTCCTGGCCCAGCTGGATGCACTGCTGGTCTTCCCAGGCCAAGTGGCTCAACTCTCCTGCACGCTCAGCCCCCAGCACGTCACCATCAGGGACTACGGTGTGTCCTGGTACCAGCAGCGGGCAGGCAGTGCCCCTCGATATCTCCTCTACTACCGCTCGGAGGAGGATCACCACCGGCCTGCTGACATCCCCGATCGATTCTCGGCAGCCAAGGATGAGGCCCACAATGCCTGTGTCCTCACCATTAGTCCCGTGCAGCCTGAAGACGACGCGGATTACTACTGCTCTGTTGGCTACGGCTTTAGTCCCTAGGGGTGGGGTGTGAGATGGGTGCCTCCCCTCTGCCTCCCATTTCTGCCCCTGACCTTGGGTCCCTTTTAAACTTTCTCTGAGCCTTGCTTCCCCTCTGTAAAATGGGTTAATAATATTCAACATGTCAACAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128218-VPREB3:NM_013378:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0768612=V-set=PU(6.2=35.3)
A:
NA
C2:
PF0768612=V-set=PD(92.7=96.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTCAGCTTCCTTCTGATGG
R:
GGGACTAAAGCCGTAGCCAAC
Band lengths:
356-1472
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)