DreINT0021344 @ danRer10
Intron Retention
Gene
ENSDARG00000036545 | TMPRSS3 (1 of 2)
Description
transmembrane protease, serine 3 [Source:HGNC Symbol;Acc:HGNC:11877]
Coordinates
chr1:46263408-46265051:+
Coord C1 exon
chr1:46263408-46263560
Coord A exon
chr1:46263561-46264881
Coord C2 exon
chr1:46264882-46265051
Length
1321 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GCATATATTTTTGTCCAAAGATT
3' ss Score
6.56
Exon sequences
Seq C1 exon
GTCGGCAATAAGCAGTCGTATTGTAGGAGGGAATGTGTCGAAGTCTGGCCAGGTCCCATGGCAAGTCAGCCTTCATTACCAGAACCAGTATCTCTGTGGAGGATCCATCATCAGTGAGAGCTGGATACTCACTGCTGCACACTGTGTGTTCGG
Seq A exon
GTGAGTATGAGCCACTGCTGGACTGCTTTATACTACTAGCTTAGACTTTTATGCTAACCCGATGATAGTCTAAAACTGGTGTTACTCTGGTCCTAAGATGGTCCAATATGGTTTATGGTGGTCTGGTACTGGTACAGGCTAGTTTATATTGCTTTTTTTTAGACTGTAATTCACTGTTTTATCTAGCTTTTATGCTAGTCAGGGTTTGATACATATTGGTTTATACAGATTTTGTGCTATTCAATACTGGTCTGTGATGGTCTGGTACTGGTCCAGATTGAAAAATACTGGTTCTTTGCAGGTCCAGACTGGTTTGTAATGATCTGGTACAGGTCCAGATTGATTAATTCAGGTTCTGTGGTTGGTTTGTGATAATCCGATACTCGTCCAGATTGGTAAATACTGGTTTGTGATGGTCTTGTACTGGTCCACATTGGTTAATACTGGTCCTGTGGTGGTACAGATTGGATTGTTATGGTCTGTTACGGTTCCAGATTGGTTAATACTGTCTCTCTGGTGGTCAGGACTGGTTAAAACAGGTTCTGTGGAGGTCCAGACTGGTTTGCGATGGTCTGGTACTGGTCCATATTGAAAAATACTGGTTCTGTGCATGTCCAGACTGGTTTGTAATGGTCTTGTACTGGTCCACATTGGTTAATACTGGTTCTGTGGTGGTACAGATTGGATTGTTATGGTCTGTTACGGTTCCAGATTGGTTAATACTGGTTCTGTGGTGGTCAGAACTGGTTAAAACTGGTTCTTTGGAGGTCCAGACTAGTTTGCGATGGTCTGGTACTGGTCCATATTAAAAAAATACTGGTTCTGTGCAGGTCCAGACTGGTTTGTAATGGTCTTGTACTGGTCCACATTGGTTAATACTGTTTCTGTGGTGGTTCAGATTGGTTTGTTATGGTCTGTTACAGTTCCATATTGGTTAATACTAGTTCTGTGGTGGTCCAGACTGGTTTGTGATGGTCTGGTACTGGTCCAAATTGAAAAATGCTGGTTGTGTGCAGGTCCAGACTGGTTTGTGACAGTTTGGTACTTCTCCAGATTGGTTAATACTGGTTCTGGGGTGGTCTAGGCTGTTTTTTTCCTGTCCAGACTAGTCTAAACTAGTTAATGGTGCTGATCTGGACTATTTTAACCTGATGTTGTACCAGTCTAAACTGGCTCATTGTAGTTTCTGTTGATCCAGACTCATTAATTCCAGTCTGGTTTAGGCTGATATGATTCTAGTCCAGCAAACTATATATACTGGCTCTGAGTTATGCTGCAGTCTAGTCTCACTGCTTACATGTGCATATATTTTTGTCCAAAG
Seq C2 exon
ATTCGCGCAGCCAGTATTATGGGATGTGTATGCTGGGTTGATAAACCTGCCGCTGAGTAAAGCTGAAGCTCATTCTGTGGAGAAAATCATCTACCATGCCAACTTCAGGTCAAAAAGCTTCAGCTACGACATAGCGCTGATAAAGCTTGCACTACCTCTGACTCTCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036545:ENSDART00000132843:3
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:
PF154941=SRCR_2=PD(46.5=63.5),PF0008921=Trypsin=PU(20.1=84.6)
A:
NA
C2:
PF0008921=Trypsin=FE(25.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAATAAGCAGTCGTATTGTAGGA
R:
CATTGAGAGTCAGAGGTAGTGCA
Band lengths:
319-1640
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]