HsaINT0169794 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2413698-2415839:+
Coord C1 exon
chr19:2413698-2414016
Coord A exon
chr19:2414017-2415667
Coord C2 exon
chr19:2415668-2415839
Length
1651 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
GTCTTGTGTCCTCCTTCCAGAAT
3' ss Score
10.8
Exon sequences
Seq C1 exon
GGTGACTCAGGAGGACCCCTGGTCTGCGAGGAGCCCTCTGGCCGGTTCTTTCTGGCTGGCATCGTGAGCTGGGGAATCGGGTGTGCGGAAGCCCGGCGTCCAGGGGTCTATGCCCGAGTCACCAGGCTACGTGACTGGATCCTGGAGGCCACCACCAAAGCCAGCATGCCTCTGGCCCCCACCATGGCTCCTGCCCCTGCCGCCCCCAGCACAGCCTGGCCCACCAGTCCTGAGAGCCCTGTGGTCAGCACCCCCACCAAATCGATGCAGGCCCTCAGTACCGTGCCTCTTGACTGGGTCACCGTTCCTAAGCTACAAG
Seq A exon
GTATTTTCGGGGCAGAAAGGTAGAAGATGATGTACGTGCCTATCTTGATTTAGGGAGAACGGATATCGTCATAGTATCTTCATAATTTTGGATCTTCCTGTTCAAGGAAAGGTCACATGTGTATCCGTTTATTCCCATCTTACGTTGCGTGTACCCTCATGGTATCTTTCTGTCCACAGGTCTTGCCCATGTCTTGTTAACTATGGCGATCTATCAATGGGATACTTTTTTTTTTTTTTGAGACGCAGTCTTGCTCCGTCGCCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTGCAACCTCCGCCTCCCAGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAACAGCCGGGATTACAGGCACAGGCCACCACACCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCCCCATGTTGGTCAGGCTGGCCTCGAACTCCTGACTTCATCATCTGCCCACCTCAGCCTCCCAAAATGCTGGGATGACAGGTGTGAGCCACCATGCCCGGTCTGGAATACTTTCTATTGTATTTTCAAATAGTTTGTACCCAGACAACTTGTAGGACTGGCAGGGTGCGGTGGCTCGTGCCTGTCATCGCACACTTTGGGAGGCAGAGGTGGGCAGATCGCTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGCAAAACCCCATCTATACTAAAAATTAGCTGGGCATGGTGGAGGGCACCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGAAGCGGAGGTTGCAGTGAGCTGATACGGTGACATGGTGCCACTGCACTCCAGCCCGGGCAACAAGAGCACAACTCCATCTCGAAAAAGAAAAAAGAAAACTTGTAGGACTATATCTCTGTTTCCAAAAACTGTTAGTTGCATTCCTATTTTTTTTTTTTTTTTTTTCTGAGACGGAGTTTCACTCTTGTCGCCCAGGCTGGAGTGCAGTGGTGTGATCTCGGCTCACTGCAACCTCCACCTCCCGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAATAGCTGGGATTACAGGTGCCCATCACCATGCTTGGCTAATTTTTGTATTTTTAGTAGAGTTGGGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTGCCCGCCTTGGCCTCCCAAAGTGCTGGGATAACAGGCATGAGCCACCGCGCCCGGCCATGCTTCATTTCAGTTCACCTACACCCCACACTCTGTTCCGAAACCCCCTAACAATCGTACCCTTCCTTTTCTCAGCCGCCCCATGGGTCTCCTGGAGTGCAGCCCCGTCTTTGCAAGGAGGCCATAAACCTGGCTTTGTGGGCTGCGGGTCTGTGGTGGGGTCTGTTGCGGGGGGTCCTCGGGCTGACTGGGCCGCTGTATGTTTCTTTCTTAACTTCTGTCCCCGAAGCGAGGCCACGAACTTGCTGCAGGACCTTGGGCAAACTACGGACACCTTGAAGCCTCCACGGCTTCTTGTGTGGAACGGGAGGGATTGCGGCATCTTCAGGGCCTGGCTGCAACCGGTGTCCTGGGACCACCCCACCGGATGCTCCCACCCGAGCAGGCCAAGATCCCCAGACCTGGTCTTGTGTCCTCCTTCCAG
Seq C2 exon
AATGTGGGGCCAGGCCTGCAATGGAGAAGCCCACCCGGGTCGTGGGCGGGTTCGGAGCTGCCTCCGGGGAGGTGCCCTGGCAGGTCAGCCTGAAGGAAGGGTCCCGGCACTTCTGCGGAGCAACTGTGGTGGGGGACCGCTGGCTGCTGTCTGCCGCCCACTGCTTCAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:9
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.1=43.0)
A:
NA
C2:
PF0008921=Trypsin=PU(19.3=75.9)
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:
GTCTATGCCCGAGTCACCAGG
R:
CACAGTTGCTCCGCAGAAGTG
Band lengths:
342-1993
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)