HsaINT0169722 @ hg19
Intron Retention
Gene
ENSG00000160183 | TMPRSS3
Description
transmembrane protease, serine 3 [Source:HGNC Symbol;Acc:11877]
Coordinates
chr21:43802174-43803307:-
Coord C1 exon
chr21:43803142-43803307
Coord A exon
chr21:43802344-43803141
Coord C2 exon
chr21:43802174-43802343
Length
798 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TCTTGCTCTTCTCATTTCAGCTT
3' ss Score
10.23
Exon sequences
Seq C1 exon
CCTGTGGTCATAGAAGGGGCTACAGCTCACGCATCGTGGGTGGAAACATGTCCTTGCTCTCGCAGTGGCCCTGGCAGGCCAGCCTTCAGTTCCAGGGCTACCACCTGTGCGGGGGCTCTGTCATCACGCCCCTGTGGATCATCACTGCTGCACACTGTGTTTATGA
Seq A exon
GTGAGTGCTGCTGACCATCTTCCCAGACCCCTGTTCACTCCTGGGTCATGTCAGGGTGGGGCTGCTTTGGGTGGTGAGAAGCGGGTCCAGAGGGAAGACAGAGAGACTAACCTCCAAGTAATGTACAGTTGGAGAGGAGTCTCCAGCCTCACTGTGGACCCATCATCATCAGCTGGGGGTAACTTGTGACCCTGAGCTTGTTTTAAGGATTGTAGCTCCTAGAGAAAGGGCAGACAGAAGAGGAAGGAAGCTCCTGTGCTGGAGGAAACCCACAAAAATGAAAGGACCTAGACCTTCCCATAGCTAATTCCAGTGGACCATGTTATGGCAGAGACAGGGTGAGACGGTGGTGCGGGAGGCTAGAGGGAATATGTTGGGGGCCAGGTACTGGGTCTCTTCTTAAAATCTCAGGAGTTTAGAGTGCAAGAAAACTACAGAAAAGACTTCCAAACACAATGGTTCTCCCTGATATTTTTACCCCCTATTTTGTTGCTGTTTGATGAACAGTAGTGCCTGATAGACTCCTTGCAGTGACCAATGTTGAGTTCAGCCCTCAAATGCCAAGACGACCTCAGAGGTGCTGAGAGTGAGGTCTGGGAAACACATGGGGTGTGGGTCTGTGTTTCTGTAGGGCGTGGCAGTGCAGTTGCATATACAGCATAAACAAGCAGGGTGATGGGACCACATCTTGCCTGATAACCTCTCCCACCATCTTCCTAGGTTTTCAGGATACCTGAGGTCAATGAGTTCAGTGGTTGGACTTTTCCTGTGCTTCACCTCTTGCTCTTCTCATTTCAG
Seq C2 exon
CTTGTACCTCCCCAAGTCATGGACCATCCAGGTGGGTCTAGTTTCCCTGTTGGACAATCCAGCCCCATCCCACTTGGTGGAGAAGATTGTCTACCACAGCAAGTACAAGCCAAAGAGGCTGGGCAATGACATCGCCCTTATGAAGCTGGCCGGGCCACTCACGTTCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160183-TMPRSS3:NM_024022:8
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:
PF154941=SRCR_2=PD(5.0=8.9),PF0008921=Trypsin=PU(19.3=78.6)
A:
NA
C2:
PF0008921=Trypsin=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGGTCATAGAAGGGGCT
R:
CGGCCAGCTTCATAAGGGC
Band lengths:
318-1116
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)