HsaINT0169789 @ hg19
Intron Retention
Gene
ENSG00000178297 | TMPRSS9
Description
transmembrane protease, serine 9 [Source:HGNC Symbol;Acc:30079]
Coordinates
chr19:2401973-2403193:+
Coord C1 exon
chr19:2401973-2402014
Coord A exon
chr19:2402015-2403079
Coord C2 exon
chr19:2403080-2403193
Length
1065 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CGGTTCTTTTCTGTCCTCAGGCC
3' ss Score
11.27
Exon sequences
Seq C1 exon
GGAGACATAAGGGACCCTTGGCAGAAAGAGACTTCAAATCAG
Seq A exon
GTATGTTTTTCTCTCTGGCCTTTTCTCTGATTGCAGTTACTGACAGAGGTTTCCTAAGACTCATTTCAAGGAAGTGAAGGAATCCCTGGAACGAGGCTGGGCGCGGTGGCTCACATCTGTCGTCCCAGCACTTCAGGAGGCTGAGGCAGGAGGATCACTTGAGGCCAGGAGTTTGAGACCAGGCTGGACAACAGAGCGAGACCCTATCTCTACAAAAATAATAATAAAAAAAGGCCAAAAATAATTTTTAAAATTATTATAAAAAATAATAAAAATTAGCCGGGCATAGTGGCGTATTGCCTGTACTCTCAGCTACTTGGGAGGCTGAGGAAGGAGGATCGCTTGAACCCAGGAGGCAGAGGCTGCGGTGAGCTGAGATCACGCCACTGCACTCCAGCCTGGGTGACAGAGTGAAACTGTGTCTCAAAAAATAATACATAAGGCCGGGCGCACTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGAGAAACCCCATCTCACTAAAAATACAAAATTAGCCAGGCGTGGTGGGGCGTGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGCATGAGAATCACTTCAACCAGGGAGGCGGAGGTTGCGGTGAGCCGCGATTGTGCCATTGCACTCCAGGCTGGGCAACAAGAGTGAAACTCTGTCTCAAAAAAATAAATAAATAAAATAAAATAAAAATAAATAAAATAAATAGCCTGGGTTGGTGGTGTGCACCTGTGGTCCCAACTACTCAGGAGGCTGAGGCAGGAGGATTGCTTGAACCTGGAGTTAGAGGCTGCGGTGAGCTGTGATTGCACCACTGCACTCCCGTTTGGGTAACAGAGCTAGACCCTGTCTCAAAAACAAAAATAAAAACAAGGAAAAGGAAAGAAAAGGAGAGAGAGAGTTTCCACATTTCCGTACCCTGGTGGTACTAAGTATAGCATGGTGCCTTACTCCAACCAGGAGATGTAGCATGAGGTCAGAAAGTCGGTTCTTTTCTGTCCTCAG
Seq C2 exon
GCCGCTGTCCAGGGAACTCCTTTTCCTGCGGGAACAGCCAGTGTGTGACCAAGGTGAACCCGGAGTGTGACGACCAGGAGGACTGCTCCGATGGGTCCGACGAGGCGCACTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178297-TMPRSS9:NM_182973:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.051
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=97.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)