HsaINT0169706 @ hg19
Intron Retention
Gene
ENSG00000184012 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:11876]
Coordinates
chr21:42860321-42861520:-
Coord C1 exon
chr21:42861434-42861520
Coord A exon
chr21:42860441-42861433
Coord C2 exon
chr21:42860321-42860440
Length
993 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
TCTTCTGTTTTCTCTGCAAGTGG
3' ss Score
5.37
Exon sequences
Seq C1 exon
AGACTAAGAAAGCACTGTGCATCACCTTGACCCTGGGGACCTTCCTCGTGGGAGCTGCGCTGGCCGCTGGCCTACTCTGGAAGTTCA
Seq A exon
GTAAGTGCAGGGAGCCTCGATCCCACCATGTGCTCCTGCAGTCCCCAGTGCTCTGAGCCAGACCCTGCTCTCTGGGCTATTGAGACCTCTGGAGGCCCTCCGTGAGGTTCCTCTCTTACATAACGAGGCTGTCTCTCTTCCCTTCTCTTGTTTAGCTATGAGATTGACACATCATGGGGAAAGCATTTAGAATGTACCCAGTGCTTTGGGGTGCTTGGTGCCACCCAGCACTGTGAGCACAGGTTCTTCTACCTTGGGGCCACACCCAGTTACCTGTATCTCACTGCACAGCAGTGGCTGTTGGGGACCAGGCCCACCCCTCCATGTCCCACCTCCTGCAACTGCAGCCTGAGCCTTCCCATCAGCCTGGGGTGGTGCAGACCCATGTGCCATTGTGGATCCTTCAAGTTACCTGTGTGGCAGAGAGGACGTGTGAGTGCCGTCCAAACCCAAACACTGAGAGGGTCCTTCCCATTGCCCCCACGGAAGTAAGGTGCCCCAGTGCTAATTCCACTTATACTTGCTGGTGGCAAGGACACTTCTCCTCCTTATTAAAGTGGGGGATTGGCTGGGTGAGGTGGCTCACGCCTGTTATCCCAGCACTTTAAGAGGCCAAGGCAGGTGGACCACCTGAGGTCAGGAGTTTGAGACCACAAGCCTGGCCAACATGTTGAAACTCCATCTCTACTAAAAATACAAAAATTAGTCAGGCGTGGTGGCGTGCACCTGTAATCCCAGCTACTTAGGAGGCTGGGGCAGGAGGATCACTTGAACCCAGGAGTTGGAGGTTGCAGTGAGCCAAGATTGTGCCCCTGCACTCCAGCCTGGGTGACAGAATGAGACTTCATCTCAAAAACAAAACAAAACAAAACACAGTGGGGCCAGGAGTTGGAGGCTGCAGCGAGCTACAGTAATGCCACGGTGTTCCTCACTCCATGAGGCTCATTGCGTTTCTCAGCCTGAAGGGCACCTCTCTTCTGTTTTCTCTGCAAG
Seq C2 exon
TGGGCAGCAAGTGCTCCAACTCTGGGATAGAGTGCGACTCCTCAGGTACCTGCATCAACCCCTCTAACTGGTGTGATGGCGTGTCACACTGCCCCGGCGGGGAGGACGAGAATCGGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184012-TMPRSS2:NM_001135099:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126692=P12=PU(21.4=70.0)
A:
NA
C2:
PF126692=P12=FE(40.8=100),PF0005713=Ldl_recept_a=WD(100=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCATCACCTTGACCCTG
R:
ACACCGATTCTCGTCCTCCC
Band lengths:
192-1185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)