HsaINT0169781 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2415668-2416807:+
Coord C1 exon
chr19:2415668-2415839
Coord A exon
chr19:2415840-2416535
Coord C2 exon
chr19:2416536-2416807
Length
696 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGG
5' ss Score
5.74
3' ss Seq
TGAGGGCCCTGTCTCCATAGCAC
3' ss Score
7.23
Exon sequences
Seq C1 exon
AATGTGGGGCCAGGCCTGCAATGGAGAAGCCCACCCGGGTCGTGGGCGGGTTCGGAGCTGCCTCCGGGGAGGTGCCCTGGCAGGTCAGCCTGAAGGAAGGGTCCCGGCACTTCTGCGGAGCAACTGTGGTGGGGGACCGCTGGCTGCTGTCTGCCGCCCACTGCTTCAACCA
Seq A exon
GTAAGGCCCGCCTCCTCCAGGAAGGCTGCCCGGCTTCCCCTCCTCACCAGCCCCTCCCTGTCAGAAACCATCCTGCTGGGGCTGCTGCATGGACCCCACTGGGGAGCAGCCCTTCCTCTCCTGAGGGCAGCTGAGAGACAGGAGGGAGCCGGTGCCAAGGCTTCTAAGGACAAACAGGGCCTAACCAGGGGAGGGGGAGGAGGGTTCCTTCCCCATTGCTTGCTACCCAGGCAGCGTTTATCTTGGAGATTCCCAGGCATGGTGGCCCGCATCTGTGGTCCCAGCTACTCAGGAGCGTGAGGCAGGAGAATTGCTTGAGCCCAGGAGGTCGAGGCTGCAGTGAGCCTGATGGTGCCACTGCACTCCATCTGGGGCAACAGAGCGAGACCCTGTCTCAACAAAAAAGAGACTCATAAAGCTGTAGGGGGTTGGGGGGGGGCATTGGCACAGGTGTAGAAAATGAAGCCTGAGGGTCCCCTGACTTGTCCGAGGTCCCCCAGCTTGGGATCCTTTTCAGGAGGAGCCCAGCAGCCCCTCTTTCCCTGGTCCTCCTCCCTGGAGCCGAAGGTCAGAGGATGGTCCTGGGGCCCAGGCAGCCCTGTGTGGCTTCCTGGGGGTGTGCATCAGCCCTGTCCCTCCCCAAGAAGGCGGGCATGTGCTGGAGGGCAGGCATGTCTGAGGGCCCTGTCTCCATAG
Seq C2 exon
CACGAAGGTGGAGCAGGTTCGGGCCCACCTGGGCACTGCGTCCCTCCTGGGCCTGGGCGGGAGCCCGGTGAAGATCGGGCTGCGGCGGGTAGTGCTGCACCCCCTCTACAACCCTGGCATCCTGGACTTCGACCTGGCTGTCCTGGAGCTGGCCAGCCCCCTGGCCTTCAACAAATACATCCAGCCTGTCTGCCTGCCCCTGGCCATCCAGAAGTTCCCTGTGGGCCGGAAGTGCATGATCTCCGGATGGGGAAATACGCAGGAAGGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.3=75.9)
A:
NA
C2:
PF0008921=Trypsin=FE(39.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCCTGAAGGAAGGGTCC
R:
TCCTTCCTGCGTATTTCCCCA
Band lengths:
356-1052
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)