HsaINT0169785 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2424087-2425265:+
Coord C1 exon
chr19:2424087-2424255
Coord A exon
chr19:2424256-2424999
Coord C2 exon
chr19:2425000-2425265
Length
744 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
TGTCCTCGCGCGCCCCGCAGCTA
3' ss Score
9.33
Exon sequences
Seq C1 exon
ACTGTGGCCTGGCGCCGGCCGCGCTCACCAGGATTGTGGGCGGCAGCGCAGCGGGCCGTGGGGAGTGGCCGTGGCAGGTGAGCCTGTGGCTGCGGCGCCGGGAACACCGTTGCGGGGCCGTGCTGGTGGCAGAGAGGTGGCTGCTGTCGGCGGCGCACTGCTTCGACGT
Seq A exon
GTGAGTTCCAAACGCTCCAAATGCCCCTACATGTCTCTGTAGCTCACCCGGAACCGAACTGTTGCCCGAAAACGCACCCTGACCCCCTCCTTTGCCGGGAGTGCCCTCCCCAACCCCGGCTCCCACTGCCCCAGGCCACTCCTCCCACCCCCCATCTCCCCATCCTCGCTCCCTGCAGCCCTCCCCTGACCACCCACCCCCTAGCCTGACCACACGGGGCTGGGGCTGCGAAGGCCGAGTCCTACCCCGCGGTCCCCACCTAACCCGGAAGCTGCGGCCCCCCCCCTCCAGCTCCAGGCTAAGCCCACGGGAACATTGGGGTCACTTCTTTCCCCAGCCCTCGCCCCTGGGACTTGGCTCCAGCCCCCCAAAGCCCACCCAGTAGAAAGCTGCCCTCCCCAGGGCCCAAGCCCTGGCAGTCGAGGGGTCCGGTTTTCCAGAGGGGACACCCAGCTCTGGGCTCTGCAGGGCTGGAGGTCAGAAGGGGAGGGCAGGCGGGGGGCGGGACTCGCACGGCCACTAGACCCCTTTTCAGAGCGCTCATATTAGGTGGTGACGGCTGCAGTTCCCGGTGCCGCCTCGGTGCCTGATGGGGGAGACTGAGCCCATTCCCAGACCGACAGCCAGAGACCAAGAGGCCAATAACCCTGCCCAGGGTGCCAGCCGGCCGCTGGGGGACACCACAGGGGCGGGGGCCGGGGGCGTGGGGGCTCGGGCCGACGCCTGTCCTCGCGCGCCCCGCAG
Seq C2 exon
CTACGGGGACCCCAAGCAGTGGGCGGCCTTCCTAGGCACGCCGTTCCTGAGCGGCGCGGAGGGGCAGCTGGAGCGCGTGGCGCGCATCTACAAGCACCCGTTCTACAATCTCTACACGCTCGACTACGACGTGGCGCTGCTGGAGCTGGCGGGGCCGGTGCGTCGCAGCCGCCTGGTGCGTCCCATCTGCCTGCCCGAGCCCGCGCCGCGACCCCCGGACGGCACGCGCTGCGTCATCACCGGCTGGGGCTCGGTGCGCGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.060 A=NA C2=0.109
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.8=78.9)
A:
NA
C2:
PF0008921=Trypsin=FE(39.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GCGCTCACCAGGATTGTGG
R:
CAGGCAGATGGGACGCAC
Band lengths:
342-1086
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)