HsaINT0171526 @ hg19
Intron Retention
Gene
ENSG00000197253 | TPSB2
Description
tryptase beta 2 (gene/pseudogene) [Source:HGNC Symbol;Acc:14120]
Coordinates
chr16:1279191-1279738:-
Coord C1 exon
chr16:1279567-1279738
Coord A exon
chr16:1279458-1279566
Coord C2 exon
chr16:1279191-1279457
Length
109 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TGGGATCCTCCGCTGCCCAGGGA
3' ss Score
4.4
Exon sequences
Seq C1 exon
CCCCAGGCCAGGCCCTGCAGCGAGTGGGCATCGTTGGGGGTCAGGAGGCCCCCAGGAGCAAGTGGCCCTGGCAGGTGAGCCTGAGAGTCCGCGACCGATACTGGATGCACTTCTGCGGGGGCTCCCTCATCCACCCCCAGTGGGTGCTGACCGCAGCGCACTGCGTGGGACC
Seq A exon
GTGAGTCTCCCGGGGCCTGGAAGGGTGGGGAAGGGCTGGATGTGAGCCCTGGCTCCCGGGTGCTCCTGGGGGCTGCCCAGGGCCCTGAGTGGGATCCTCCGCTGCCCAG
Seq C2 exon
GGACGTCAAGGATCTGGCCGCCCTCAGGGTGCAACTGCGGGAGCAGCACCTCTACTACCAGGACCAGCTGCTGCCGGTCAGCAGGATCATCGTGCACCCACAGTTCTACACCGCCCAGATCGGAGCGGACATCGCCCTGCTGGAGCTGGAGGAGCCGGTGAACGTCTCCAGCCACGTCCACACGGTCACCCTGCCCCCTGCCTCAGAGACCTTCCCCCCCGGGGATGCCGTGCTGGGTCACTGGCTGGGGCGATGTGGACAATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197253-TPSB2:NM_024164:3
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=0.114
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.9=81.0)
A:
NA
C2:
PF0008921=Trypsin=PD(63.6=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGTTGGGGGTCAGGAGG
R:
AACTGTGGGTGCACGATGATC
Band lengths:
248-357
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)