HsaINT0169638 @ hg19
Intron Retention
Gene
ENSG00000185873 | TMPRSS11B
Description
transmembrane protease, serine 11B [Source:HGNC Symbol;Acc:25398]
Coordinates
chr4:69092371-69094602:-
Coord C1 exon
chr4:69094460-69094602
Coord A exon
chr4:69093791-69094459
Coord C2 exon
chr4:69092371-69093790
Length
669 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTTTTCTTTTCTTCTTCTAGAAT
3' ss Score
11.9
Exon sequences
Seq C1 exon
GTTCATTTCCAGTGATACTTCAAGAAGACTTTTTGAAGATTATTGACAACAAAATTTGCAATGCCTCATATGCATACTCTGGCTTTGTGACTGATACAATGTTATGTGCTGGATTTATGTCAGGAGAAGCTGATGCATGTCAG
Seq A exon
GTATGTCTAGTTACATTATCCAGTTGTTTTCTCCCAGTTAATCAAATGGAAGTTTTTATCCACATAAAATTTTTTTTGTGTTAATAATACTGACATAGTAGCTTTGTATTTCAATACACTAAAAATGTATTAATTCCATTTATGTACCAGACACTAGCCTACATGCTAGGGACGTGGAGGTGAACACAATCCTGCCCTCACGAAGTTTTCAATCTGGGAATTCATACAAAGAATAACACTTAGAAGAAGTTTACAAGATGAATTTTGTCCTATTTTCTGGGCAACCTGCAGACCTAGAATGTTGTCTTCTCTTTATCCAGAGATGCATCAGGAGTCTGGGCACATGCCTATGCCACTTGTTCCTCAGAGGCTTCATCATAGAGACTTAAGCTCAGTGCAAGCAGCTAAGTCACCTTCTCCATATTCAAGCTGCACTCATTATATAAGTCAAACTCTGGTTTGCTCAAGTCAACATTTGGCAGTTTTAGGCCATATATTCTGGTTTGTAGCTGTCTTGTGTTTTAAAAAAAAGTCCTAAGGGTTTCAGAGTTCTAAGCCCAAAGAGAGTGAATTGGTTTCAGTGCCCAGGAGGTACAGATAACTCCACAGGAGAGGTAAAAGGAAATTTTTTGTTAAGACAAGAAACATTTTTTTCTTTTCTTCTTCTAG
Seq C2 exon
AATGATTCTGGTGGACCACTAGCTTACCCTGATTCCAGAAATATCTGGCATCTTGTTGGAATAGTAAGCTGGGGTGATGGATGTGGTAAAAAGAATAAGCCAGGTGTCTATACTCGAGTGACTTCTTATCGCAATTGGATTACATCCAAGACTGGACTCTGAAAAAAAAGGAATTATACAAAGGAACATAAAGACCACTGTAGGCTATCCTTATCTGTGGCTTTGGGATCTTTTTATTTTGATTGTTGGTAAACTAATCATTTTATTATATATAAAAATATAAATGTCTTTATTAATATTTTATTATATCTAAAACACTGTCCATGCATTTATTAATCTTTTAAATTAATGTAAGAGATAGGAAGAGGCCAGGTGTAGTGGCTCATGCCTGTAATCCTAGCACTTTGAGAGGCCGAGATAGGCGGATTGCTTGAGCCCAGGAGTTTGAGGGCAGCCTGGGAAACATGGCTAAATCCGTGTTCAAAAAATACAAAAATTAGCTAGGCATGGTGGCGTGCACCTATAGTCCCAGCTATTCAGGAGGCTGAGGTGGGAGGATTGCTTGAGCCCAGCAGGTTGAGGCTGTGGTGATTTGTGATTGCGCCACCACTGCACTCCAGCCTGGGCAACAGAGTGAGACCCTGTCTCAAAAAAAAAAAAAAAAAAAGGAGAGAAGAAAATAAAGAAGGCTAATATATAATTTTTCTTAATAGCTGAGTTGTGATTCATTTTACCATTATATTCAGAATTGACCTTAATTTGTTTTCCAGAATCAAAAGAAAATAAAATATAAATTTTGAAACTATGAGAACATATATAGGGGATTTATCAAATGAGTTACTTTTTATTATATCAATTATAATTTCATTTTATTAACTGGAATAAGTGCGAAAGTGTACATTACTTTTTAACTTATATGTGAAATGATTCATGTACCTCACAAAATCATGCAATCTTGCAGTGAAGAAGGAGTATCAGAGCTCCAGCTACACTGAGTCTTTCAATTTACAGATCAAGAAACTGAAGACCAGAGAAGAGAAATGATTTGGTTAAAGTCACTCTCCATCATCTGTGATAAGTTGACAAATTTATCCTTACACAAATTTGTCCTCATTGAGTTGACATCCAAAATTTGTCAGGAATTAAAGAATGACTTTTGAGTGGCAATTATTTATATAACATTTTCCATTGTCTTCATATTCACCTTTTGTCATTTGTTTGCTTTCTCTTGCAGCAAAAATAATATGAGGTCATCAAGGGCAGAGAACTGTGTGGCATCTCCTTATAGTAAAAGTGCAATCATATGGATGGCTAACTTTGTAATCTCTACAAATAATTTACCTTATGTAATTTTCCAAATGTAAAAGTCACCAAAAACTTAAAGGCATTAAAATAAACTAAAAAAGTACTCATTTCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185873-TMPRSS11B:NM_182502:9
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(20.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.4=85.2)
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:
GTCAGGAGAAGCTGATGCATGT
R:
AAATGCATGGACAGTGTTTTAGAT
Band lengths:
356-1025
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)