HsaINT0171523 @ hg19
Intron Retention
Gene
ENSG00000172236 | TPSAB1
Description
tryptase alpha/beta 1 [Source:HGNC Symbol;Acc:12019]
Coordinates
chr16:1291154-1291700:+
Coord C1 exon
chr16:1291154-1291325
Coord A exon
chr16:1291326-1291434
Coord C2 exon
chr16:1291435-1291700
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
CCCCAGGCCAGGCCCTGCAGCGAGTGGGCATCGTCGGGGGTCAGGAGGCCCCCAGGAGCAAGTGGCCCTGGCAGGTGAGCCTGAGAGTCCACGGCCCATACTGGATGCACTTCTGCGGGGGCTCCCTCATCCACCCCCAGTGGGTGCTGACCGCAGCGCACTGCGTGGGACC
Seq A exon
GTGAGTCTCCCGGGGCCTGGAGGGGTGGGGAAGGGCTGGATGTGAGCCCTGGCTCCCGGGTGCTCCTGGGGGCTGCCCAGGGCCCTGAGTGGGATCCTCCGCTGCCCAG
Seq C2 exon
GGACGTCAAGGATCTGGCCGCCCTCAGGGTGCAACTGCGGGAGCAGCACCTCTACTACCAGGACCAGCTGCTGCCGGTCAGCAGGATCATCGTGCACCCACAGTTCTACACCGCCCAGATCGGAGCGGACATCGCCCTGCTGGAGCTGGAGGAGCCGGTGAACGTCTCCAGCCACGTCCACACGGTCACCCTGCCCCCTGCCTCAGAGACCTTCCCCCCGGGGATGCCGTGCTGGGTCACTGGCTGGGGCGATGTGGACAATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172236-TPSAB1:NM_003294:3
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=0.022
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.8=81.0)
A:
NA
C2:
PF0008921=Trypsin=FE(37.6=100)
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:
GGCCCATACTGGATGCACTTC
R:
CGTGGCTGGAGACGTTCAC
Band lengths:
256-365
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)