HsaINT0169782 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2416536-2418136:+
Coord C1 exon
chr19:2416536-2416807
Coord A exon
chr19:2416808-2417999
Coord C2 exon
chr19:2418000-2418136
Length
1192 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
TCTGGCTCTTTCCCTGGTAGCCA
3' ss Score
7.51
Exon sequences
Seq C1 exon
CACGAAGGTGGAGCAGGTTCGGGCCCACCTGGGCACTGCGTCCCTCCTGGGCCTGGGCGGGAGCCCGGTGAAGATCGGGCTGCGGCGGGTAGTGCTGCACCCCCTCTACAACCCTGGCATCCTGGACTTCGACCTGGCTGTCCTGGAGCTGGCCAGCCCCCTGGCCTTCAACAAATACATCCAGCCTGTCTGCCTGCCCCTGGCCATCCAGAAGTTCCCTGTGGGCCGGAAGTGCATGATCTCCGGATGGGGAAATACGCAGGAAGGAAATG
Seq A exon
GTGAGCGCTGCCCCATCGAGGGGAACGGTGGATTTATTCTCCAGGGCCTGGCCTGGGGAGGGTCAGGATGGGCATCTCTTACCTGGACCCTAAACCAATTCCACTGCACAGGGACCTCTGTGGCTGATCCCTTTGTCTTTGGTCCCGCTGCCCACACACCTCTCACTTCCCCATTCCATCTGGGGGCAAAATCTGGCTGTTGCCTGTTTGTATAAACAAAGTTTTATTGGAACAGGGGCCATGTTCACACATCAACAGATTGTCTATGGCTGCTTTCCTGCAATAGCAGCAGAGTTAAATACTTGTGACAGAGACTGGCCCTTAAAGCTGAAAATATTTAATTCTCTGACCATTTATAGAAAATGTTTGCCGGCGGCCACATGTGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCCAGGAGGGTGGATCATTTGAGGTCAGGAGTTTGAGATCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAGAAATACAAAAATTAGCCGGGTGTGGTGATGCATGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATTGCTTGAATCTGGGAGGCAGAGGCTGCAGTGAGCTGAGATTGTGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCCATCTCAAAAAAAAAAAAAAAAATAGAAAAATAAAAAATTAGCCGAGTATGGTGGCACATGCCTGTAGTCCCAGCTACTTAGGAGGCTGAGGCAGGAGAATCACTTGAGCCTGGGAGTTCAAGGCCGCAGTGAGCCATGATCATGCCACTGCACTCCAGCCTGGGCAACAGAGCAAGACCCTGTCTCAAAAAACAAAAAAAGCAAATGCTCACTGGTGCTTGCTTGCGCTAGTCTATCCCGAGACCCCTCCCACTCCAACAGTTAATGCTTCCCTTGACCTCAGAATGGCCTCCTACACCTTACCCAGGTGCTAGGGCGGCAGCCCCATGGGGACAGTGGGGAGACTCTTGCGCTCTGAGCGGGCCATCAGGCCCACCTCCTCCTCACTCTGTGGCTTTGTGAGATTCCTGCAACTCTGTGAGCCCTGGTTTCTTCGTCTGTGGGGTGGGGATGCTGCATCTCGGGGCTGTTATCGGAGCGGAACTGGAGCTGCTCTGATGATCACTGTGCACGTGGCCTTTCTGGCTCTTTCCCTGGTAG
Seq C2 exon
CCACCAAGCCCGAGCTCCTGCAGAAGGCGTCCGTGGGCATCATAGACCAGAAAACCTGTAGTGTGCTCTACAACTTCTCCCTCACAGACCGCATGATCTGCGCAGGCTTCCTGGAAGGCAAAGTCGACTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:11
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=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.7=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:
CACGAAGGTGGAGCAGGTTC
R:
TGAGGGAGAAGTTGTAGAGCACA
Band lengths:
356-1548
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)