HsaINT0169792 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2408354-2410392:+
Coord C1 exon
chr19:2408354-2408628
Coord A exon
chr19:2408629-2410255
Coord C2 exon
chr19:2410256-2410392
Length
1627 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGC
5' ss Score
5.75
3' ss Seq
TTCTCTCCCCATTCGGCCAGTGG
3' ss Score
5.17
Exon sequences
Seq C1 exon
GTTCCAAGACCCGACGAAGTGGGTGGCCTACGTGGGTGCGACCTACCTCAGCGGCTCGGAGGCCAGCACCGTGCGGGCCCAGGTGGTCCAGATCGTCAAGCACCCCCTGTACAACGCGGACACGGCCGACTTTGACGTGGCTGTGCTGGAGCTGACCAGCCCTCTGCCTTTCGGCCGGCACATCCAGCCCGTGTGCCTCCCGGCTGCCACACACATCTTCCCACCCAGCAAGAAGTGCCTGATCTCAGGCTGGGGCTACCTCAAGGAGGACTTCC
Seq A exon
GTAAGCATCTTCCTCGGCCTGCAAGTGAGCTCAGGCAGGCAGGCGGGCAAATAACGCAGAAAAGGGCCAGGTGAGGTGGCTCACGCCTGTCATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCACGAGGTCAGGCGTTTGAGACCAGCCTGGCCAACATAGTGAAAACCCGTCTCTACTAAAAAATACACACACACACACACAAAATTAGCCAGGCATGGTGGTGCGTGCCTATAATTCCAGCTACTCAGGAGGCTAAGGCAGGAGAATTGCTTGAACCCAGGAGATGGAGGTTGCACTGAGCCAAGATCGCACCACTGGACTCCAGCCTGGGTGACAGTGGGAGGCTCCATCTCAAAATAATAATAATAATAATAATAATAATAATAATAATAATAATGATGATGCAGAAAAACACAGTGGGTCTGCATTATTCTCTGATTCTGTATTCACGAATTCCACTGCTTGCTAAGATATATTTATAACCCATCATCGATGCTACTGCGATTTTTTTTTTTTTTTTTTGAGATGGAGTTTTGCTCTTGTTGCCCAGGCTGGAGTGCAGTGGTGCGATCTCTGCTCACTGCAGCCTCCGCCTCCGGGTTCAAGCGATTCTCTTGCCTCAGCCTCTGAGTAGCTGGGACTATAGGCATGCACCACCACACCCGGCAACTTTATTTTTGTATTTTTTAGTAGAGACAAAGTTTCACCGTGTTGGCCGGGCTGGTCTTGATCTCCTGACCTCGTGATCTTCCTGCCTCAGCTTCCCAAAGTGTTGGGATTACAGGTGTGAGCCACCTCACCCGGCCAAAAAAATTGATCTTAATGTACTAAAATGCACATCTAAATAGTCACCTGTGGCCAGTGGCTACTATATTGGGTGGTGTAGTTCCAGGGGGTTGTCAATCAGCCACAAGATGACTGACAGAGGGAAATGAATCCAGTGGAGAAAAATAAGGTGGGGGTGGCAGCTGCAGCTTTAAATAGGGAGGTCAGGAGATGCCTCCTGGAGAGAGGAGATGAAGGAGCAAGTCAGGCAAATTCTGCAGGGACAAGCATTTCAGACAGCGGGAACAGCATGTGCAAAGGCCCTGGGGTGGGAGGACAGCAGGGCAGGGGTTGATGTGACTGATTTAATATTTAGCAAGGGTGGTGCTGGCTGCCGGGTTGGGAATGGATTTCAGTGGGGTGGGACCAGAGTAAGAGAAGTGAGTGGGGAACAGCTATAATGACCCGGGCAAGGATGGGCGTGAGACAGGGGCTGATTCTGTGTATATTTGGGGGCTGACCTGAGGCCAACTTGGAATTTGAGGACTGTGGACCTGGAATGAGGGGCCTGAGATCCCTGAGATGGGGAATGCTGAGGGGTGGAGCTTGCGGAAGGGAGATGAGGACCTCGGGCTGGGGGTGTTAAGTCTGATGCCTCTTCCTTGTCCAGGCAGAGAGTGTTACCAGGTGGGGTGTTTACCTTTTGTAGTTTCAGAGCCATGTGTTGTAGGTGGCCATGCTTGGAGCTGGGGAAACTGAGGGAGGCTTGGAGAGGAGCTGTCCTTCAGCCTCCCAGCTCAAAGTGGCTGCCAGGGCTCCGGCACTCTCACCCTGCTTTTCTCTCCCCATTCGGCCAG
Seq C2 exon
TGGTCAAGCCAGAGGTGCTGCAGAAAGCCACTGTGGAGCTGCTGGACCAGGCACTGTGTGCCAGCTTGTACGGCCATTCACTCACTGACAGGATGGTGTGCGCTGGCTACCTGGACGGGAAGGTGGACTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:7
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(40.2=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:
TGGGTGCGACCTACCTCAG
R:
GCACACCATCCTGTCAGTGAG
Band lengths:
344-1971
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)