HsaINT0180368 @ hg19
Intron Retention
Gene
ENSG00000169575 | VPREB1
Description
pre-B lymphocyte 1 [Source:HGNC Symbol;Acc:12709]
Coordinates
chr22:22599200-22599926:+
Coord C1 exon
chr22:22599200-22599271
Coord A exon
chr22:22599272-22599357
Coord C2 exon
chr22:22599358-22599926
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACATGCATCTGTGTCACCAGGTT
3' ss Score
7.68
Exon sequences
Seq C1 exon
GAGTCAGAGCTCTGCATGTCTGCACCATGTCCTGGGCTCCTGTCCTGCTCATGCTGTTTGTCTACTGCACAG
Seq A exon
GTGAGGGAACCCCCAGATCCCAAAGACTCCTGCCCCTTCCTTCATCCTGCCCTGCCCCCACGGCCCACATGCATCTGTGTCACCAG
Seq C2 exon
GTTGTGGTCCTCAGCCGGTGCTGCATCAGCCGCCGGCCATGTCCTCGGCCCTTGGAACCACAATCCGCCTCACCTGCACCCTGAGGAACGACCATGACATCGGTGTGTACAGCGTCTACTGGTACCAGCAGAGGCCGGGCCACCCTCCCAGGTTCCTGCTGAGATATTTCTCACAATCAGACAAGAGCCAGGGCCCCCAGGTCCCCCCTCGCTTCTCTGGATCCAAAGATGTGGCCAGGAACAGGGGGTATTTGAGCATCTCTGAGCTGCAGCCTGAGGACGAGGCTATGTATTACTGTGCTATGGGGGCCCGCAGCTCGGAGAAGGAGGAGAGGGAGAGGGAGTGGGAGGAAGAAATGGAACCCACTGCAGCCAGGACACGTGTCCCTTGAACTGAAGACAGCAGAGGCACGCATCCCCTTGGAGAGACTGTCATGGAAGAGGGTGGAGCCGCCGCCCGAAGCGCCGAGGAGGCTGAGCCACTCAGCATCTCCTGGTCCTGCAGTGTTGCTGTAAATCCCCATTGGAGACTGCATTAGGGAATTAAAGCTGCTTGTCACTTTTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169575-VPREB1:NM_007128:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF0768612=V-set=PU(0.8=5.3)
A:
NA
C2:
PF0768612=V-set=WD(100=89.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTCCTGCTCATGCTGTTT
R:
GGCCTCTGCTGGTACCAGTA
Band lengths:
170-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)