HsaINT0169636 @ hg19
Intron Retention
Gene
ENSG00000185873 | TMPRSS11B
Description
transmembrane protease, serine 11B [Source:HGNC Symbol;Acc:25398]
Coordinates
chr4:69094975-69097098:-
Coord C1 exon
chr4:69096921-69097098
Coord A exon
chr4:69095235-69096920
Coord C2 exon
chr4:69094975-69095234
Length
1686 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
AATTACATTGTGTCCTCTAGGAA
3' ss Score
9.13
Exon sequences
Seq C1 exon
GTTGTGGGAGACAAGTAGCCAACAGTATCATAACTGGCAACAAAATTGTGAATGGAAAAAGCTCCCTGGAGGGGGCATGGCCATGGCAGGCCAGCATGCAATGGAAAGGCCGTCACTACTGTGGAGCCTCTCTGATCAGCAGCAGGTGGCTATTATCTGCAGCTCACTGCTTTGCTAA
Seq A exon
GTAAGTTTGAAAATTTGACTAAATGAAGGATGCTAGGTGCAAAACTATTTTGGATAGTTTGTAGGGGTTAACTTAATGTGTCAAGGTTCACCAAGGCCATATGAAATTTACAATCACATAGAACATTTACAATCACCTGCGTAATTAAAGAGCAGGAAAGGAAATGCATTTAAATTAGAGAAAGGAGAGAAAAGCAAATAGAAGTATTAATTAACATTTTCCAAATAGGTACCTTGGCCTGACATTAAGTGCTTTACTTAACATCATTTCATTTAATCACAACATTCAATTCTGTATGGAAGGTATAGTTAAAACCATTTGAAGATGAGGAAACTAAGTCTCACTCAGGAAAGGTGACAAAACTTGGCTAAGATCACTCAGCTCTTTTTTTTTTTTTTTGAGATGGAGTCTCAATCTGTTGCCCAGGTTGGAGTGCAATGGTGCGATCTCAGCTCACTGCAAACTCTGCCTCCTGGGTTTAAGCGATTCTCCTGTCTCAGCCTCCTGAGTAGCTGGGATTACAGGCACGCACCACTATGTCCAGCTAATTCTTGTATTTTTAGTAGAGACGGGGTTTTACCATGTTAGTCAGGCTGGTCTCGAACTCCTGACCTTAAGTGATCCGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTACAGGTGCGAGCCACCATGCCCAGCCTAGTTCTTAAATAATAGAAACTGAATGTGAATTCAAGTGTGTCTGACTCCAGTTACTAGGTGCTTCCTTGTCTTGCCATCCAGAAGTTTATAATCTAGTTGAGAAAATTTAAATGTCATATATTAAAAGTACGAGGCTGTATAGTATTGTAAACATGACACGTATTACAAAGATAGTAAGTACGATGGAAATTTGAAGAAAGACAGCATATCCATCTGACGTAAAATTTAATCTGGACCCAAAAATTGAGTATATCCAAAGGAAGATAAATTGTTCTACCAAAAAGCCATATGCACTTGTATGTACACCACAGCTCACAATAGCAAAAACATGAAATCAACCTAGATGCCCAGCAACGGTGAACTGGATAAAGAAAATATGGGTCATATACACCATGGAATACTATCCAGTCATAAAAAAGAATAAAATCATGGCCTTTGCAGGAACATGGATGCAGTTGCAGGCTATTATCCAAACTAAATGAATTAATGCTGGAACAGAAAACTAAATACCACATCTTCTTGCTTATAAGTGGGAGCTAAACACTGAGTACATATGGATACAAGGAGGGGAACAATAGACATTAGGGCCTACTTGAGGGTGGTAGAAGGGTGAGGGTAAAAAAAGTAGCTATTGAAACCAAGGGTATGTGGCAATAAGACTAATCCTGGACCCCATCCACTTACGGAATTGAGGACGCTCATGTGATTCCTGACCAAATTAAATGTTCAGAAACTGGATGGAACTGAATAAGCAGGGGAAAACATCAGTGACTCTACTTGAAAAGATCTTCAGAAAGCTGACAAATCTGAGTCCTTAGCATTATTTTTAAGTGACTGCAACATTTACAACAGCTCCATGTCAAAGATAGTTTTCAAAATAGAATTTCAGTGGTTTATAGTTTTGTTTGGGAACCTCATGCCTTAAAATTATGAGATAATCACCACTAAGAACAGTGTTGTGACCCAGCAACTGAGTGTATTCTAATTACATTGTGTCCTCTAG
Seq C2 exon
GAAAAATAATTCAAAAGATTGGACTGTCAACTTTGGAATTGTAGTAAATAAACCATATATGACACGGAAAGTCCAAAACATTATTTTTCATGAAAATTATAGCAGTCCTGGGCTTCATGATGATATTGCCCTTGTGCAGCTTGCTGAAGAAGTTTCTTTTACAGAGTACATTCGTAAGATTTGTCTTCCTGAAGCCAAAATGAAGCTCTCAGAAAATGACAATGTTGTAGTTACAGGTTGGGGAACACTTTATATGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185873-TMPRSS11B:NM_182502:7
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(19.5=73.3)
A:
NA
C2:
PF0008921=Trypsin=FE(38.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCCAGCATGCAATGGAAA
R:
AAGTGTTCCCCAACCTGTAACT
Band lengths:
342-2028
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)