RnoINT0153346 @ rn6
Intron Retention
Gene
ENSRNOG00000016397 | Tmprss13
Description
transmembrane serine protease 13 [Source:RGD Symbol;Acc:1310872]
Coordinates
chr8:49641471-49642602:+
Coord C1 exon
chr8:49641471-49641633
Coord A exon
chr8:49641634-49642429
Coord C2 exon
chr8:49642430-49642602
Length
796 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
ATACCCTGTGGCTCTTGTAGGAC
3' ss Score
9.05
Exon sequences
Seq C1 exon
ACTGTGGTCTGAGAGCTATGACCGGGCGGATCGTGGGAGGGGCTCTGACCTCGGAGAGCAAGTGGCCCTGGCAAGTTAGCCTGCACTTCGGCACCACCCACATCTGTGGGGGCACGCTCATTGATGCCCAGTGGGTGCTCACCGCTGCCCACTGTTTCTTTGT
Seq A exon
GTAAGTGCTTGGGGGTCCTTGATAAGATGTTGTTGGGGACTTGGAGCCACTAGGAAGGGCTTATAGACACTCTCGTCTATAACTAAGCTGAGTTCCCCAGGGAAGGACAACCCAGCTACTGCTCAAAAGACTAAGTGTGAATGAGGGTTTGGTCTGAGCTTGAGCCAAAGGTGAAAACGGGAAGCAGGCTGCAAGGCCTTTGCACCCTTTCCCTGGAGAGCAGACGGAATGAAGCACCAGGCTCATTGCCACTTCCCACAACCGCAGCTGCAGTTGCAGAGCGAACAGCAGAAGAGTCTGACACTCTGGGATGCTGTCTCAAGACCTGAGGGGCAGGGACAGCAGGAGGGTGGTACAGGTGATTCCTGAGAGTTCCTAGCAGCCTTTGGGGACCCATAGCACAGGCCTTGTGGACACCGGTTCCCTGAGTAAAGCATCTGCATTATCTTGTCCTGTCTAAACCTCTGTGGCAGATGGCATCTGTCCCACTGCCAAGTCTCCATCCTTAGTGGCATACAGATAAGATAACGGGGTGAATCTCCGCGCACAGAAAGTGTTTATTCCGTTGCTTTTCACACTCTAAGGTGAAGGCCAGTTCAGAATGATTTTGAGGAGATCGAGGGATGGTTTTGGGCTTCATAAGATAGAAAACTCCTCCAGAGGTCATTTTATCCATCCTCCTGTCTCTAGGCTGGTGCTCCTGCTGTGCCTCCCACCCCCAGTGGGTAGCAGATATAGTCAGTGAGTTCTGCCAGGTATAGAACTGGATGGCACTCATACCCTGTGGCTCTTGTAG
Seq C2 exon
GACCCGGGAGAAGATTCTGGAGGGGTGGAAGGTGTACGCAGGCACCAGCAACTTGCACCAGCTGCCTGAGGCTGCCTCTATCTCCCAGATCATCATCAACGGCAACTACACCGATGAACAGGATGACTATGACATCGCCCTCGTGAGGCTGTCCAAGCCCTTGACCCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016397:ENSRNOT00000021949:8
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(5.5=9.1),PF0008921=Trypsin=PU(19.2=80.0)
A:
NA
C2:
PF0008921=Trypsin=FE(25.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGTCTGAGAGCTATGACCG
R:
CTGACAGGGTCAAGGGCTTG
Band lengths:
334-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]