HsaINT0169786 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2425000-2425491:+
Coord C1 exon
chr19:2425000-2425265
Coord A exon
chr19:2425266-2425354
Coord C2 exon
chr19:2425355-2425491
Length
89 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
TCTCGCTCGCCCGCCCGCAGGCT
3' ss Score
9.67
Exon sequences
Seq C1 exon
CTACGGGGACCCCAAGCAGTGGGCGGCCTTCCTAGGCACGCCGTTCCTGAGCGGCGCGGAGGGGCAGCTGGAGCGCGTGGCGCGCATCTACAAGCACCCGTTCTACAATCTCTACACGCTCGACTACGACGTGGCGCTGCTGGAGCTGGCGGGGCCGGTGCGTCGCAGCCGCCTGGTGCGTCCCATCTGCCTGCCCGAGCCCGCGCCGCGACCCCCGGACGGCACGCGCTGCGTCATCACCGGCTGGGGCTCGGTGCGCGAAGGAG
Seq A exon
GTAGGCGCGCCCGGGGCCGCGGTGGTGCGGGGCTCGGGGGGCGGCCGGACGCGGTCCCCACCCGCCCCGTCTCGCTCGCCCGCCCGCAG
Seq C2 exon
GCTCCATGGCGCGGCAGCTGCAGAAGGCGGCCGTGCGCCTCCTCAGCGAGCAGACCTGCCGCCGCTTCTACCCAGTGCAGATCAGCAGCCGCATGCTGTGTGCCGGCTTCCCGCAGGGTGGCGTGGACAGCTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCGTCCCATCTGCCTG
R:
TGCTGATCTGCACTGGGTAGA
Band lengths:
178-267
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)