HsaINT0169703 @ hg19
Intron Retention
Gene
ENSG00000184012 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:11876]
Coordinates
chr21:42836478-42839813:-
Coord C1 exon
chr21:42839661-42839813
Coord A exon
chr21:42838081-42839660
Coord C2 exon
chr21:42836478-42838080
Length
1580 bp
Sequences
Splice sites
5' ss Seq
AGGGTAACT
5' ss Score
5.8
3' ss Seq
TTTTTTTCCTATTTGAACAGGCA
3' ss Score
9.09
Exon sequences
Seq C1 exon
GGTGACAGTGGAGGGCCTCTGGTCACTTCGAAGAACAATATCTGGTGGCTGATAGGGGATACAAGCTGGGGTTCTGGCTGTGCCAAAGCTTACAGACCAGGAGTGTACGGGAATGTGATGGTATTCACGGACTGGATTTATCGACAAATGAGG
Seq A exon
GTAACTATCCTGTCCTCCTTCTGACTGTGTTCTCCGATTCCTCGAGCCAAAGCCAGACATCTGTTAGGCGTGGTTCTGCTGCTGGAAGCTGACTGGTGACCACTGGTCAGCATGAAGCAAACTCTGCTTCCTCCAGCCACAGCCCCATCCCCCCAGTGTCCACCCATTGCCCATTGCCTCTCACTGGCTTCACTTGCATATTTCCCCTGGTGTTTGGATGAAAAGCGCTGGGGCTCAGCTTGTGTGAAATTCCTTGGTGCTCTGCCAACCACACTTCGTTCTGGCTCAGCTGACTCAGCTGTTCCACCCAGGCCACCTCACATCAAACTTTTTTTTTTTTTTTTTGAGATGGAGTCTCACTGTGTCGCCCAGGCTGGAGTGCAGTGGCACAATCTCGACTCACTGCAACCTTTGCCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCATGCGCCACCACGCCCAGCTACTTTTTGTATTTTTAGTAGAGATGGGGTTTCTCCATGTTGGCCAGGCTGGTCTCGAAGCCCTGACCTCAGGTGATTCACCCACCTCAGCCTCCCACAGTGCTGGGATTACAAGTGTGAACCACGGTGCCCGGCCTCACATGAAACTTTTGATTTATAGAGAGCAGAGGGAAGAGCCGGCTGTGCCCATCCTTTTCTGGGGCCATCGAGTGGCTCCTGGGCAGCCCCCAAGGTTAGGAAGGGCAGGAGCAGCCAGGGTTCTCTGATGCCCCAGACTCAAGCACGAGGGAAGGTCTCAGGGGTTCCATGTGAGCCTCATGGATGTCTCTGCTTAGCAGAGCCCTGGCTTTGGGCATTGTCCAGATAGGGGGTGAGAACCAGATCTTCTCATCTCCAGGACCTCAGACGTATAGTTTTCTCAGATTTCTGTGCTTTCTGGGGCTGGGCTACTAGTGGAAGAAAGCAGTCTATTCTGTCTTCTCCCAAATCTCCCAGATGCCCAGTCTGTTGAAGGAGGAGCAGAACCAGGGGGCCTTTCCCGCTGAGGCCCGACCTGTGTCTCCTTCAAATGACACGCGGGACTCAGGGCCTTCCCATGACCATGGGGCCCAGGGGGCGTCACCTGGCCCAGGGCCCAGTGCTAGAAACAGATGACCCCAGGAGGAGGAGGCAGGGCAGGAGGGAAGCTGGCAGGGCTGGGATGGTCAGCCAGGCTGAGGGGCGGACTCGCACCAGGATGGAGCTAGGAAATGATCCAGGTGTGTTTGGCGGCTGCAGGTGGGTCCGCATGGCTGTGCAGGGAGGGAAGGGCTGCGTGGCAGGAGAGCAGCCGGGGGAGGCCCAGACTCTGCTGAAGAGATGCCTGTTGTGCCGGCCTCCACATCCGCTGCCCGCTCCTTCCGGAGCTCCTGCCCCGCCATGCTCAGCCTGACTCTGACCAACACGTTGGAGAGAAGAATGATCCCTTTGTGCTATTAAGCTTGCTTATTTGGTTTCTAAGTGCTTCATGCGAACCTAGAGGAAAAAATTATTTTCCACCTTTGTTTGTCTTAAGAAAATAACACACTTTTTTTTTTCCTATTTGAACAG
Seq C2 exon
GCAGACGGCTAATCCACATGGTCTTCGTCCTTGACGTCGTTTTACAAGAAAACAATGGGGCTGGTTTTGCTTCCCCGTGCATGATTTACTCTTAGAGATGATTCAGAGGTCACTTCATTTTTATTAAACAGTGAACTTGTCTGGCTTTGGCACTCTCTGCCATTCTGTGCAGGCTGCAGTGGCTCCCCTGCCCAGCCTGCTCTCCCTAACCCCTTGTCCGCAAGGGGTGATGGCCGGCTGGTTGTGGGCACTGGCGGTCAAGTGTGGAGGAGAGGGGTGGAGGCTGCCCCATTGAGATCTTCCTGCTGAGTCCTTTCCAGGGGCCAATTTTGGATGAGCATGGAGCTGTCACCTCTCAGCTGCTGGATGACTTGAGATGAAAAAGGAGAGACATGGAAAGGGAGACAGCCAGGTGGCACCTGCAGCGGCTGCCCTCTGGGGCCACTTGGTAGTGTCCCCAGCCTACCTCTCCACAAGGGGATTTTGCTGATGGGTTCTTAGAGCCTTAGCAGCCCTGGATGGTGGCCAGAAATAAAGGGACCAGCCCTTCATGGGTGGTGACGTGGTAGTCACTTGTAAGGGGAACAGAAACATTTTTGTTCTTATGGGGTGAGAATATAGACAGTGCCCTTGGTGCGAGGGAAGCAATTGAAAAGGAACTTGCCCTGAGCACTCCTGGTGCAGGTCTCCACCTGCACATTGGGTGGGGCTCCTGGGAGGGAGACTCAGCCTTCCTCCTCATCCTCCCTGACCCTGCTCCTAGCACCCTGGAGAGTGCACATGCCCCTTGGTCCTGGCAGGGCGCCAAGTCTGGCACCATGTTGGCCTCTTCAGGCCTGCTAGTCACTGGAAATTGAGGTCCATGGGGGAAATCAAGGATGCTCAGTTTAAGGTACACTGTTTCCATGTTATGTTTCTACACATTGCTACCTCAGTGCTCCTGGAAACTTAGCTTTTGATGTCTCCAAGTAGTCCACCTTCATTTAACTCTTTGAAACTGTATCATCTTTGCCAAGTAAGAGTGGTGGCCTATTTCAGCTGCTTTGACAAAATGACTGGCTCCTGACTTAACGTTCTATAAATGAATGTGCTGAAGCAAAGTGCCCATGGTGGCGGCGAAGAAGAGAAAGATGTGTTTTGTTTTGGACTCTCTGTGGTCCCTTCCAATGCTGTGGGTTTCCAACCAGGGGAAGGGTCCCTTTTGCATTGCCAAGTGCCATAACCATGAGCACTACTCTACCATGGTTCTGCCTCCTGGCCAAGCAGGCTGGTTTGCAAGAATGAAATGAATGATTCTACAGCTAGGACTTAACCTTGAAATGGAAAGTCATGCAATCCCATTTGCAGGATCTGTCTGTGCACATGCCTCTGTAGAGAGCAGCATTCCCAGGGACCTTGGAAACAGTTGGCACTGTAAGGTGCTTGCTCCCCAAGACACATCCTAAAAGGTGTTGTAATGGTGAAAACGTCTTCCTTCTTTATTGCCCCTTCTTATTTATGTGAACAACTGTTTGTCTTTTTTTGTATCTTTTTTAAACTGTAAAGTTCAATTGTGAAAATGAATATCATGCAAATAAATTATGCAATTTTTTTTTCAAAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184012-TMPRSS2:NM_001135099:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(19.7=88.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTCTGGTCACTTCGAAGA
R:
GACAAGGGGTTAGGGAGAGCA
Band lengths:
358-1938
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)