RnoINT0153393 @ rn6
Intron Retention
Gene
ENSRNOG00000001165 | Tmprss3
Description
transmembrane serine protease 3 [Source:RGD Symbol;Acc:1310135]
Coordinates
chr20:9920068-9921080:-
Coord C1 exon
chr20:9920915-9921080
Coord A exon
chr20:9920238-9920914
Coord C2 exon
chr20:9920068-9920237
Length
677 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
TCTCTGTCTATGATTTCCAGCCT
3' ss Score
5.62
Exon sequences
Seq C1 exon
CCTGTGGCATGAGAACTGGCTACAGTCCCCGCATTGTGGGTGGAAACGTGTCCTCGCTCACTCAGTGGCCCTGGCAGGTCAGCCTCCAGTTCCAGGGGTACCACCTATGTGGGGGCTCCGTCATCACCCCTCTGTGGATTGTCACCGCTGCGCACTGTGTTTACGA
Seq A exon
GTGAGTGCCGGGGCCGGCTACTGCGGCTTCTGCTCTCCCCAGAGCCTTGTCTAGTCCTGGGTCAGCTAGAGAAGGGGTGGTCTGGAAGTGAGGGCAAGTCAGAAAGCCACGTGCAGGGGTGCAGCCCACCTTCCTTACAGTGGACTTGTCTCTGTGTCTGAGGGTGACATGAGCTAGGCTAGCACAGAAAAGGTAGAAAAAGGATGTAGGAGCTCAAGGCAGAATGAGACCCCTTGAAATAAGAGTCGTAGCCCTTCCTGTAGCTCACTACCTTGTCCATGGGTACCGTGGGTGGGAGTGCAGGGCACCCAGAGAACACTGAGCCTTCATGACGCTATGTCTGTCAGGTGTTTAGATGGCAAGGAAGTCACAGAAAGCATCTTAGAGCAAGTGGCCGATTCTCTTTCTATCTCCCGGTTTGTCCAATGGAGAAAGGCCTCTGCGGAGAGCCAAGCTTAGCCCAGCTCTCAAATGCTTGTCTTTTGGGTGTCACAAAGAGACTGGCCTGTCTGGGATGTACATGGGTGTGGCCTGTGTTCCTACAGGACTTGGGAGTGTGGTCTATGTGGGACACAGATGTGTAGGGCATTGGGCCATTTCCACTGGGTTTCCCTGGGCTCTTGGGACAGCAGAGCTCAACAGGATTTCTCCTGAGATTCTCTGTCTATGATTTCCAG
Seq C2 exon
CCTGTACCACCCCAAGTCCTGGACTGTCCAGGTGGGTCTCGTGTCCCTGATGGACAGTCCTGTGCCCTCCCACCTGGTGGAGAAAATCATCTACCACAGCAAGTACAAACCAAAGCGACTGGGCAATGACATCGCCCTCATGAAGCTGTCCGAGCCACTCACCTTTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001165:ENSRNOT00000001540:7
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(5.0=8.9),PF0008921=Trypsin=PU(19.4=78.6)
A:
NA
C2:
PF0008921=Trypsin=FE(25.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGCATGAGAACTGGCTAC
R:
CGTCAAAGGTGAGTGGCTCG
Band lengths:
334-1011
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]