HsaINT0169737 @ hg19
Intron Retention
Gene
ENSG00000166682 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:14908]
Coordinates
chr11:113558268-113560639:-
Coord C1 exon
chr11:113560487-113560639
Coord A exon
chr11:113558997-113560486
Coord C2 exon
chr11:113558268-113558996
Length
1490 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TCCTTTCCCTTTTGGTCTAGGAC
3' ss Score
10.66
Exon sequences
Seq C1 exon
GGAGATAGCGGGGGCCCCCTAGTGTGCCCAGATGGGGACACATGGCGCCTAGTGGGGGTGGTCAGCTGGGGGCGTGGCTGCGCAGAGCCCAATCACCCAGGTGTCTACGCCAAGGTAGCTGAGTTTCTGGACTGGATCCATGACACTGCTCAG
Seq A exon
GTGAGTGTGGGGGCAGGAGTAGGGCAGGGAGATTTCTAAAGGACCTGCCCTCGAATGCAAGGAACCTTACCCCTTAGGCCCGGGCCCTGCTGGGGACTGGGGAGGGTGCTAGGACATATTCCCCAGAGTGAGTGGAGGAAGAAGTGAAGCTTAAACATGGAATCCATTGGATTTCTATCAGTTTAAGGATGAACTGGGTAAGAGTATGCCTGAGTTTGTATCCCAGATCTACCATTTCCTGTGTCGACCTTTGGCAAATTTCTAACTTTGTTAAACCTTAATTTCCTGATAATAACCATGATGGCTACTTATATGCTATTGTTATATGCTATTAAATAAGACCCGTACAATGCCTAGCACAGTGCTAGGCTTAGAGTGAGTGATCTGCAGTGTTTTTTGTTTTTTTTTGAGATGGAGTTTTGCTCTTGTTGCCCAGGCAGGAGTACAATGGTGCAATCTCAGCTCACTGCAACCTCTATCTCCCGGGTTCAAGCGATTTTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCATGCACCACCACGCCTGGCTAATTTTTTGTATTTAGTAGAGATGGGTTTCACCATGTTGGTCAGGCTGGTCTTGAACTCCTGAGCTCAGGTGATCCACCAGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATGCACCACTGTGCCCGGCCTATCGTGTTATTTATGTGTATATCTGTTACCATCATTCATCCCTGGTCTCTAAGGCAGTTACTAGTGGCCACATTCCCTGCACTGTGGAGAGAGCTCAGCATTTAGCAGTTCGGGTTCTGCACCTACGTAAATTGTGTGACTCCGGGCAAGCCACTCTCCTTCATCTGTTCAATGGGAAGGCCAAGTGAGATAATGTGTATAAAAACACATTACTGGTCGGGTGGGGTGGCTCACGCCTGTAATCCTAGCACTTTGGGCGGCCGAGGTGGGCGGATCACGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGTGAAACCCTGTCTATACTAAAAATACAAAAGTTAGCTGGGCATGGTGGCACGCACCCAGCTACTTGGGAGGTTGAGGCAGGAGAATCGCTTAAACCTGGGAGGCGGAGGTTCCAGTGAGCTGAGATCGTGCCACTGCACTCCAGGCTGGGCGACAGAGCAGGACTCTGTCTCAAAAACAAAACAAAACAAAAACATTATTTACCTAAAGTATTTTACAAATTTAGGGCATGATCATGAAAAGCATCTTCCTCTAAGGTTGGGCAGGGGTGGGGGTTGGTAGATAATACATTCGGAGTTTACAGGGAATGTATGTATTGATCTTCTCAAAGAAATCTTACAAAAAATCTTGAGCAGCAGATATTTTTAGCCTCATTTGATAGAAGTGAAAATCAAGGCCCTGCATGGTTAAGTGATTTACTAAAATAAAAGTCGCTTGGCTAGTGTAGAGCCATGCTGTGAATCAGTTCCTTTCCCTTTTGGTCTAG
Seq C2 exon
GACTCCCTCCTCTGAGTCCTGCTGTTTCCTCCAGTCTCACTGCACACCACTGCCTCATGCTTCCTGGGGCCTCCAGCAGCTCCACTAATGGAGGAGAGGCAGTAGCCTCCGACACAGAACGCATGGACCTCCTACTACTGTGTGTGAGGAACAGTCACTACCCACTGGCCAGCCACCCAGCCAACAGGTCTCTCCTCTTGGGCCCTGATTTCAGAGTCCTCTTTCTCACTAGAGACTCAATGACAGAAGAGAGGCTGGGACTTGGTTGGGCATGCTGTGGTTGCTGAGGGATGAGGGGGAGGAGAGAGGTAGGAGCTGGAGATGAAGAGGCTGCTAGAAGCAGCAGGAAGCCTGCCCTTCTGCCCTCTCCCCTCCCTGCCCCTGTGTGAGTCTTTTGGGAGGGTGCTGGGAGGTGCCCCCCGTCCCACCTTTTTCCTGTGCTCTAGGTGGGCTAAGTGCCTCCCTAGAGGACTCCATGGCTGAGAGGCTCCTGGGCAGATGGGGTCAAGGCTGGGCCAGCCCAGATGAAGCCTATGGGAGTCAGGACCCTCTCCACTCTCCCTCTCCACTCCCCTTCCTGTTCTCACCTGGCTGTGGCTGGCCCTGTGTGGGGTGGGTACACTGGAAAACAAGAAGGTTGGAGTTGGTCTAGGACATTGGTTTTAAATGACAGTTCTGTGAACTGGTCCAAGGAGTTCTGTTATTAAAGTGATATATGGTCTTGGTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166682-TMPRSS5:NM_030770:12
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=PD(19.5=88.2)
A:
NA
C2:
PF0008921=Trypsin=PD(0.7=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTACGCCAAGGTAGCTGA
R:
CTCATCCCTCAGCAACCACAG
Band lengths:
347-1837
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)