HsaINT0169635 @ hg19
Intron Retention
Gene
ENSG00000185873 | TMPRSS11B
Description
transmembrane protease, serine 11B [Source:HGNC Symbol;Acc:25398]
Coordinates
chr4:69096921-69098134:-
Coord C1 exon
chr4:69098096-69098134
Coord A exon
chr4:69097099-69098095
Coord C2 exon
chr4:69096921-69097098
Length
997 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TAAATAAATCCTTTCTCTAGGTT
3' ss Score
8.7
Exon sequences
Seq C1 exon
AAATCAGCAAGGCTGCTTCTGAAATGCTTACCAACAACT
Seq A exon
GTAAGTTAAGGACCTTTTAATTATAAATTTGATGGACTCACAGGTATTTTCTCATTATTTTTCTATTAAAAATACTTGAAATATGTCATGTGGAAATCCCATAACACGCTTTCCGAATTACTAGATATACCAGATATTGACTTAGAATTTCTCTTTGAAAAACACTGGTCTATTAATTTTAACATTTATTAAAAAATATATAAAAAGTTAAATGAAAATTGATTCCAAATAATAAAACTGTGAGTGAAAAATATCATATTTGAATATGTTAAAATGAGAAAGATTGAAGGAAATGACAATTTAGGATAAGAAGAAAATATAAAACCAGGCTATATAAAATATATTTATTAAAGATAAAAACAGTTCTGCATCTTAAAAATTATTATTATTTTTTGCTTTAGAGGTGGGATGTTGCTATGTTGTGTGGGCTGGAGTGCAATTCACAGGTGCAATTACAGTGGACTATAGCCTGGAACTCTTGGGCTCAAGCAGTCCTCCTGCCTCAGCCTCCCAAGTAGCTGGGCCTATAGGAGCATATCGCTGTCCTGTTACATCTTTTAAATAAATTCTCTTTAGAGTATCATGTTTTCCACAAGATACATTTATGCATTCATTCACTCCATGGATATTTATGGAGTATCTTTTGTTCACATGGTGTCTTACAGACAGCAGTGCATATACTATGCAAGATGTAGACACCAATGAGGCAAAGCTCCTCCTTCAAGAATCTGCTTAGAGAGACAAGAGTTATAACACATAGACACAACAAAAAATAGTGGTTGAAAGATGCTTGAGACTGGAAAAGAGGATAAGTAAGAACCACTCAAACCAAGATAGAATACAGAAACATCACAGGAGTATCTTGTAGGAAAGAAACGTCATCAATTAGGAGAAGTTGAATAATCACTGAAAGGTTTCAAGTAATTTTTAATGATATATTTTTTTATAATGCGTAATCAAAGATACCTGCTCTCGTGTAAATAAATCCTTTCTCTAG
Seq C2 exon
GTTGTGGGAGACAAGTAGCCAACAGTATCATAACTGGCAACAAAATTGTGAATGGAAAAAGCTCCCTGGAGGGGGCATGGCCATGGCAGGCCAGCATGCAATGGAAAGGCCGTCACTACTGTGGAGCCTCTCTGATCAGCAGCAGGTGGCTATTATCTGCAGCTCACTGCTTTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185873-TMPRSS11B:NM_182502:6
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:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(19.5=73.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGGCTGCTTCTGAAATGC
R:
TGAGCTGCAGATAATAGCCACC
Band lengths:
199-1196
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)