HsaINT0169729 @ hg19
Intron Retention
Gene
ENSG00000137648 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:11878]
Coordinates
chr11:117975406-117978590:+
Coord C1 exon
chr11:117975406-117975535
Coord A exon
chr11:117975536-117978488
Coord C2 exon
chr11:117978489-117978590
Length
2953 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
CTCCCTCTTGATGTGAGCAGCAA
3' ss Score
3.59
Exon sequences
Seq C1 exon
TCCGCCTCTCCAAGGACCGATCCACACTGCAGGTGCTGGACTCGGCCACAGGGAACTGGTTCTCTGCCTGTTTCGACAACTTCACAGAAGCTCTCGCTGAGACAGCCTGTAGGCAGATGGGCTACAGCAG
Seq A exon
GTAACCAACCTGGGCCTCTCTCCTTTTTCCCTCCTTCCTCCTTCCTCCTCTTCCTCCTTTCCTTCCTCCCTTCTTCTCTCTTTCCTAAAAATTACGGGCATTGGAGCCAGGCAGAATGGCTTTTGAATCCCAGCATTTCACTTATAAGCAACATGAAGTTAAATTTCCTAAGCCTCAGGTTCCTCAGGAGTTAATTGGGGGAACTAATGCCAACCTCATAGGATAGTTTTGCAATGCCAGTGAGAGAATGTGTGCTGCCCTCCAACACACACACACACACTTCTAGCGTCTATGCAGTCCTCTCCTTTCCTTTACTCCTCAACCTTCACTCCTTTGTGCTGGCTTTGCAAGAAACTGTTCCTGCCCAGTAATACAAAAGCTAAGTTAACTTATTCAAAGTTTCGTTAGTTAAGATTTAGCTTAAGTGAGCCTAGTTTCAGTGGGGCCCCATCTTCAGCAATCCCAGCTCTCTCTGCAAATTTCAAAAGCAGTTCCAAATCTGGAGTGGATGAAAAGGTGTAAGATGATAGTAAGAGTAATTTGCATTCTATATATTTATATTCACTTGATTTTGGCAGAAAACCAAAAAGATAGTTATTATATCTTATATATAGATATATATTATATCTATTTCATAAATAGGCTCAAACAAAGTAAGTAACTTGCTAGGGTACTAGCTGGGAGGTAGAGGGCTAGAATTTGAGCCCAAGACCCCTAATTCTTGCGCATTAGGAGTTCCCACATTGTTTCTGTTTCTAGACTGAGTAATTCTTTATTCTCATGTAGGACATCATCTCTAAGGGAAGGGGCTAATGAGATGGTTGATCACTCAGAGAGTTTAGCTGGAGAGGATGGAAAAGAACCCATACATTCAGTTGCAGATTGAGATAGCCTATCTCTGGCAGGCCTCAGATTTCTTCAGGATTCTAACAGACTGGACCCAGAGACTAGGCCAAACAAACAAACAAACAAAAACTCTACTAGGCAGACATCACCAACCAATCACAGAACTCTCTCCCATGGATCCCTAATACAGCCTCAAAGTCCTTTTCAGTAAATGCTCCAGGCAGCCATTACAAATCAATCAGAATTATTTGCCTTTCTCTTCTCTGCTCAACGGGCTTCTGCTGCTCTCTACTTTCCATAGGGGGCAACTTCCATTACCCTCTAGAAAGCACACCCCACCACCTTCATTTCAAGGAGAGTGAGGAACTCATGCCCAGCACCTGCTATTCTCCCCTCTTCCTGCAGCCACGGAGCCCAGCCTCGCTGCAGCCAGCCCTGCCTCCCCACTGTAGTCCAGTCAACTGCTGCATCAGCCGTTCCTGGCACAGCAGGCTGAGCCTTGATTATGAAACCTGGGTGTCTCCAGGGGTTCTTAAGATGATAGGCTCCTGGAATTTCTGTCCTTTTGGAGCTCAGTAAGGCACCAAACCACCTGAGTCTTGTGCTTCACAAAATCAAAGTTCATCAGAATCATTCATTGGGATGGAATTGGTGAACAGAAGTTAACTTTCCTGGGAATGTCCATTTCCACCATATTCCGTCCTTCTAGGTCTCAGACTTCTCTACTTTCTTTCCTCTCTCTAGATCGGAGGCCCTTCTTGTCCTAGAACCATAGGCATTTCAAGATGTGGGAGACCCTAGGGATCATCTAGTCCACGCATCTTTTTTTTTTTTTTTTGACAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAATGGCACCATCTCTGCTTACTGCAACCTCCACCTCCCAGGTTCAAGTGATTCTTTCGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCACGCACCATCATGCCCAGCTAATTTTTATATTTTTGTAGAGACCGAGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCACCCAGCCCCGTGCATCTTTTTATAGAGGGGGAAACTGAGGCTTGGAGAGACCCAGAAAAAGAATATGACCTGCCCAAGGCCACACATCAAACTAGTGCCAGAGCCAGGGACAGAACCTAGATCATGAGGACTCTTAAAATGCACTCTAGTCCTCCCAGGTCTGAGACTTGGGTCCTTCCAGGAAGTGCCAGCATTCCTGCCTGAGAATGTGCCAATCCACCAGTATTGCCAATGACTCAGCCCTCCATGGAGAGCTTCTACTAACATTACTAGCATAGTTAGGGATGGAAGGAAAAGATTTAGAAGAGGCAGATTCAGTAAAGGAACAATCAGAGAGATGGAATTAATCAAGGAAGGCTTCCTGGAGGAGGAAAAACTTCAACCCAAGGTTTGAAAGTAGCAAGCATGGATTAGCAGGGAGAAAGAGGGAGAGTGGTCCAGTTGAGAGAAACGTTTGTCTGGATTCATATGAAGACAGATCTAGTCCTGTTCTATTAAATATCTCTAAGGGGGCCAAAAACATACCCCCGCTATCAAAGTCAGACCAGATGCTTTGTTTGGAGAACGAAATATCCACATTCCAACTCCCTCCCAGGTGAGAAGGGAGCTAACCTGAGCCCCTATGCCTCTTTGTTTCCCTGCTGTGAACCAGAAGACATTGCTGGGATATTTGAAATAGGGACAGAGCTGGGAATATGGAAAGGAGACCCCTAACATTTCTCCAGGGCTCTGGGTTCTGGATTTGGATTCCCCACCCAAGAAAGCAAGTTACATCAGCAATGCACTGAGGGTTGAGTCCTGGGATGCCAAGGGTCGGTTCTTTATTGTATAGCAAAGCAGGCCCCATCTTCACTGACTAAGACCATCTCCACTCCCTGGCCACTCCCCACCAAGCATTCTCTGCCACTCTTTCTCCTGAAAGTGGGGGCCAACTCTACCATCTTGTTCTAACCCCCTGCCCCAGCTCACAACTCTCTCTCCCTCTTGATGTGAGCAG
Seq C2 exon
CAAACCCACTTTCAGAGCTGTGGAGATTGGCCCAGACCAGGATCTGGATGTTGTTGAAATCACAGAAAACAGCCAGGAGCTTCGCATGCGGAACTCAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137648-TMPRSS4:NM_001173552:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PU(44.3=88.6),PF139921=YecR=PU(64.2=97.7)
A:
NA
C2:
PF154941=SRCR_2=PD(44.4=88.9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)