HsaINT0169732 @ hg38
Intron Retention
Gene
ENSG00000137648 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:HGNC:11878]
Coordinates
chr11:118113269-118114927:+
Coord C1 exon
chr11:118113269-118113435
Coord A exon
chr11:118113436-118114828
Coord C2 exon
chr11:118114829-118114927
Length
1393 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTCCTCTGTGCTCCTGGCAGGCA
3' ss Score
9.18
Exon sequences
Seq C1 exon
GAAACATACCGATGTGTTCAACTGGAAGGTGCGGGCAGGCTCAGACAAACTGGGCAGCTTCCCATCCCTGGCTGTGGCCAAGATCATCATCATTGAATTCAACCCCATGTACCCCAAAGACAATGACATCGCCCTCATGAAGCTGCAGTTCCCACTCACTTTCTCAG
Seq A exon
GTGAGAAGCAGGGCCCAAGGCCACTCAAGCCTCTTACATCAGTTTTCACGCCCACTCTGCTATTAGCTCACTGACCGCCCTTGGCACATAATGTCTCCTCTCAAGTCCTCAGCTTGCCCATTTGTCTCTAATACGTCAGCCTAACATCACTGATGCCATGAGGCCTCCTCAAGCTGTCAGCTAACACCTCCACTCCATTCCCTGCCAGAGATTCTTCCAAGGCCTGTCTTCCCTATGTGGAGCCCCTCGAGTGAGAACTGGAGTTTCATCCAATCTTGGAGTTTTAGGAGACCTTTTAAAAAGATTATCGAGCTAATTCCCCACCACTGACCAACACGCAAGAGCCTGCTCAGTATCCCTGCCAAGGAGTCATTGTGCCCCTGTTTGCTCTCCTCCAGGGGCAGGGAACCCATTACCTGTGAGGCAGCCCACAGAGTCTTTGAACAGCTCTGTTGGATGCCTTGTGCTTATACTGAAATGTATTTAGATCAGGATTCCCAACTGTGGGGTCCACAAGACACTGGCCCCTTGGAGAAGAGAGGATTCCATTGTCAAATAAGTTTGGGGAACATTTTCATACTACAGCTCCCTTCTTGGAACACATTAGTTTATTAAAGGTAGGAGAAGTTTTTAAAATAATCTGTTTTATTGCGTTTAACCTACATTTTTTAAATTTATTTGACCACAGAATCCTTTTTTCATGCTACTTCTATTAGCATCCCATAGAACAAGTGTTCTAGAGACCCTGGTGTGACCCCTTTCAGAGAGCTTAACTGCCAGGCTCTCCTGAGCCCTGGTGTGTGTTTCAAGATTTGTGCCTGGGAATTGTTTTAATCAGGTATGGCAAGGTGACAGATACAGACACAGCTATCTTTGAAAGAAGAGTTTATTATTTATAATTCCTGAGAGAAAGGGACATACCCCACCCCCCAACACAGGGACACCCGGGGAAGCAGCTGGGTCCACCAGGAGGCAGGAGTGAGGGGAAGGCATGGCCCAGAGCCACCTGTGGCTTCCATGGGCAGGTCTGGCCAAGGTAGGGTAGGCAAGATTGAGCATGCTCAGGATTGGATAGTGTGGACAATTCTCTAGGCTATAGATGTCAGCCTCTGGTTGTCTAGTATCTGTCCCTGGGGTGATTTAGGGCAGGGAAAATATTGGCTTGGTGTCTGAGAGTCAGATAAAGGAAGTGGTTGGGGATATGGGCTTTGGGTTGGCTGGTTTGCCTATTAAAGGCGTGCCCAAAGCCAAGTTGTTTACTATCTGCAGGAATTAGCTAACCCAGTCTCTCCCAGACCAGCAAGATCCCCATAATCATAAAGCATCATAATTTACAGAAAATTAACACTTATGATGAATAAAAGATCTCCTTCTTCCTCTGTGCTCCTGGCAG
Seq C2 exon
GCACAGTCAGGCCCATCTGTCTGCCCTTCTTTGATGAGGAGCTCACTCCAGCCACCCCACTCTGGATCATTGGATGGGGCTTTACGAAGCAGAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137648:ENST00000534111:9
Average complexity
IR
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:
PF0008921=Trypsin=FE(24.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(24.2=94.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATACCGATGTGTTCAACTGGA
R:
CTTCGTAAAGCCCCATCCAATGA
Band lengths:
254-1647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains