RnoINT0153338 @ rn6
Intron Retention
Gene
ENSRNOG00000016397 | Tmprss13
Description
transmembrane serine protease 13 [Source:RGD Symbol;Acc:1310872]
Coordinates
chr8:49648258-49648708:+
Coord C1 exon
chr8:49648258-49648400
Coord A exon
chr8:49648401-49648555
Coord C2 exon
chr8:49648556-49648708
Length
155 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCTCTAGCTATTCCTTGCAGGGA
3' ss Score
6.32
Exon sequences
Seq C1 exon
AGAAGACATCTCCCTTCCTCCGAGAGGTTCAGGTCAACCTCATCGACTTCAAGAAGTGCAATGACTACTTGGTCTATGACAGTTACCTTACCCCAAGGATGATGTGTGCGGGGGACCTTCGAGGAGGCAGGGACTCCTGCCAG
Seq A exon
GTGAGGTCCTTGTGGGTGAGGCTCAGGTCTCATGAACCTGGAGGTGGGAGAAGGCTGGAGTGCTAGGATTGATATGGGGATCTCAGAGACACCCTTTCCTGATTTAGACCCCCTCCCTTTGCACCAGACTGACACCCTCTAGCTATTCCTTGCAG
Seq C2 exon
GGAGACAGTGGAGGACCCCTCGTCTGTGAGCAGAACAACCGCTGGTACCTGGCAGGAGTCACCAGCTGGGGCACAGGCTGTGGCCAGAAAAACAAGCCTGGGGTGTACACCAAAGTGACAGAAGTACTTCCCTGGATCTATAGAAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016397:ENSRNOT00000021949:11
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(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCTCCCTTCCTCCGAGAG
R:
ACCCCAGGCTTGTTTTTCTGG
Band lengths:
242-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]