HsaINT0169767 @ hg19
Intron Retention
Gene
ENSG00000176040 | TMPRSS7
Description
transmembrane protease, serine 7 [Source:HGNC Symbol;Acc:30846]
Coordinates
chr3:111794168-111795991:+
Coord C1 exon
chr3:111794168-111794339
Coord A exon
chr3:111794340-111795722
Coord C2 exon
chr3:111795723-111795991
Length
1383 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TTTCATTACTGTTCTATCAGGCT
3' ss Score
6.28
Exon sequences
Seq C1 exon
CCTGCAGCAGGAGTTCCTCCGCCCTTCACCGCATCATCGGAGGCACAGACACCCTGGAGGGGGGTTGGCCGTGGCAGGTCAGCCTCCACTTTGTTGGATCTGCCTACTGTGGTGCCTCAGTCATCTCCAGGGAGTGGCTTCTTTCTGCAGCCCACTGTTTTCATGGAAACAG
Seq A exon
GTAGGGCCTCACGGTCCTTACTTTCAAGTGGCACTCTGTGGCCATAGACAATATATCTGCCCTCAAATTGTGGGAAGCAGATCCCTGTTGGGGACATTCAATCAATTCAATTGCACTTTCATTTTTTGGATCCCACGTGTGTGACAAACATTTTTTTTTAAGGTATTATTGGTATAAAAAAAGCACAAAGGAAACATCAAGAATGAATAGGCTTTTACTAAGGCTGGGAAAATAAGATAGGGCTTTTAACTCAGAGGGAGCAAACTTAAGAGAATGTGTGGAGAATGTGGAGAAAAATGGGCACTGGAGAGTGACTGGAGAATGGAGGTCCCCAATGGGATTATGATGGGATAGATGCTCTTCCAGCCAAGGGTAAGAGGACATCTTAGAAAATAACCTCACTTAAAATTTAAACTTACTATTGGAATCTACTGAATCTTAGGTTAAAAAAATCATTCACTTCTCATTCTGCATTTTTTTTTTAGTATTTCAATGAAGTTACACAGTTTGGATATTTGTTTCCCTGAAAATTATAGGATTTGTGTTAATTATTAAGATAGCTTCACATCTGTTTGATCATGAGTCTCTAATGCTGTGAAACTGCTCCAAATAATGTATTAACCCTAATATTTCTTTGGGTGTCCATTGACACTCATGAGACATCAGCTAAGCAAATTAGTGACCAAAATTTTGGGGCTTCCTCATTTTTTTCACTCCCACTCTTTACCCCACTGCTATGCTGATGGAGATGGACGCTTCACATGGAGATTACAAGTTCTTCTGTGACTTGTGCAAGGTCATGGAGGTCAAGATTGGGATTCTGGAAGGACTGATGGGAATGGCAGTTGGTGACCCTATGAATGGGCATTGTTGAGCAGTAAGAGTAGTGATCATTAAGGCTTCCAGTAGTTTGCCAGAAGGAATTTCATTAAATTCCTGCTTATAGCACTTTGATTTCTAATCTATCTTGGTATTCATATCATTTGAATTTGGTAGTAGGATTCTCCATCAAATGCCATTGTCAGCATGAATAGGAAGAATGTAACAAATTAATTCTAGTTACCAACATTCTTGACCTGTGTGTGGTTCATGAAATACTAGTGGAAAGAAAATGTCCAGGCATTTGCTTAGGACACTGTTGAGTGAATTTTCTATTACTTGCCACTCCTAATACAGCTTACGTCATTTCTGACTTTTTGAGGGAGACAAGGGAGGCTCACAGTTACGCTTTCTGCCATGGTCCCCGGACAAAGCCAGTGACTATAATAACACCCTGGAAGTCAGGCCCTTCTTTTTCAGCCCTCAACTCTTTAGAGTGCTTGTTTGCAAACTGTATGTGGTTCTTTAAGCTGCTAACTTTATGTTTCATTACTGTTCTATCAG
Seq C2 exon
GCTGTCAGATCCCACACCATGGACTGCACACCTCGGGATGTATGTTCAGGGGAATGCCAAGTTTGTCTCCCCGGTGAGAAGAATTGTGGTCCACGAGTACTATAACAGTCAGACTTTTGATTATGATATTGCTTTGCTACAGCTCAGTATTGCCTGGCCTGAGACCCTGAAACAGCTCATTCAGCCAATATGCATTCCTCCCACTGGTCAGAGAGTTCGCAGTGGGGAGAAGTGCTGGGTAACTGGCTGGGGGCGAAGACACGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176040-TMPRSS7:NM_001042575:13
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=PU(20.0=79.3)
A:
NA
C2:
PF0008921=Trypsin=FE(39.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCATCGGAGGCACAGACAC
R:
AACTCTCTGACCAGTGGGAGG
Band lengths:
358-1741
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)