HsaINT0169655 @ hg19
Intron Retention
Gene
ENSG00000198092 | TMPRSS11F
Description
transmembrane protease, serine 11F [Source:HGNC Symbol;Acc:29994]
Coordinates
chr4:68934336-68935725:-
Coord C1 exon
chr4:68935687-68935725
Coord A exon
chr4:68934538-68935686
Coord C2 exon
chr4:68934336-68934537
Length
1149 bp
Sequences
Splice sites
5' ss Seq
GTCGTAAGT
5' ss Score
9.9
3' ss Seq
ATCATGTATTTCTGTGGCAGGCT
3' ss Score
6.29
Exon sequences
Seq C1 exon
CTATTGACAGCAAAAAGATGAGGAATCTTCTCAACAGTC
Seq A exon
GTAAGTTCCAAAACCCACAATTAACTGTTTATTTCACAGTAAAAGATCATGAAAAAAGTTATAGAAAAGTTGGCAGTAAAGTTTACCAAGCTTTTTAAGACTCATTTTATATTTTTGTAAACCGAACACTTAGTCTTTTTATTATTTTTAGCATTTAAGTATTTAAATTTATAAATTTATACCAAATACAATTCTAAGTTTATATGACCTACGAGATGTGGTTAAAAACACCTTACATAATATTCTAGATATTATATTAATATTCATTATAAATAACTTTTAATATTATCTAACAATTCAAGAGAGTGTTTTAAACTGGTAACATTTAGGCTTTAATTTTTTTTTAATTTGCTTGCATTTTTATTGAAATATCTGTTATGTACATTCTCTTGCTCTTCCTGCCCTGCACCCCACATTCCAGCATTGGTACATAGTTAAGGTCTATTGTGGACAAACATGCCCATTAAAAATGTTGTAACACTTTAAGTTCTCTTTTAAGATTGACTTGAAATCTAGTCAATTGAGGGTTTGAAATCAGGGAAGAAGAATTTTTTTTTAAACTAGCCTTTCAAGTTTTAAAAGACCAAAAAGGTCGATAGTGTTTAAATCTGTTAAAATACAGGGCTTTGCAAACACAATAAATTGATTCTCTTTAGTCATTAGTTAAGGGAAAATCATGACCTACAGTTAGTATTGGGCTCTCTCTCAGTAATAAGGATACTGCTACTAGTTTTGGTGTGGATCCTCCTAATTTTGTATCCCACTCTGTCACTTACCAGCTGGGTGACCGCCAGCAATGTTCCCTCTTCAAGGCTTAATTTTCTCATCTAAAAGGTATGTTTCTATAAATACATCTAAGACACATAGCAGAGGATCTATACATTTTTGGTGCTCAATGAATTATCTATATATGCTTTATAAGGAGAGATAGAAGTTAATTCCTGGACTGAATGCCTTGAAATGTTAGTAAACATTTCTTCTGAACCTCAGTAGGATCAGCAAGACCTGTATCAAATAAGCTCAAAGGCTGAGTGCTATGAATGGTTCACATGGTAGCAGGGACAAAGGATTGTCTATAACCAAAGCAAATCAGAATATACTTTTTTCCTCCTTTTTATGAATATGAATGATCATGTATTTCTGTGGCAG
Seq C2 exon
GCTGTGGAATAAGGATGACATCTTCAAACATGCCATTACCAGCATCCTCTTCTACTCAAAGAATTGTCCAAGGAAGGGAAACAGCTATGGAAGGGGAATGGCCATGGCAGGCCAGCCTCCAGCTCATAGGGTCAGGCCATCAGTGTGGAGCCAGCCTCATCAGTAACACATGGCTGCTCACAGCAGCTCACTGCTTTTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198092-TMPRSS11F:NM_207407:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.206
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(20.3=67.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGACAGCAAAAAGATGAGGAATCT
R:
CAGTGAGCTGCTGTGAGC
Band lengths:
230-1379
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)