RnoINT0153340 @ rn6
Intron Retention
Gene
ENSRNOG00000016397 | Tmprss13
Description
transmembrane serine protease 13 [Source:RGD Symbol;Acc:1310872]
Coordinates
chr8:49631625-49633005:+
Coord C1 exon
chr8:49631625-49631970
Coord A exon
chr8:49631971-49632900
Coord C2 exon
chr8:49632901-49633005
Length
930 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCCTACCACCCTCTTCTTAGGTC
3' ss Score
9.19
Exon sequences
Seq C1 exon
AATGCTTCTCCAGCAAGGCCATCTCCTCAGGCTTCTCCAGCACGGGCATCTCCTCAGGCTTCCCCAGCAAGGACACCTCCTCCTCAGGCTTCCCCAGCAAGGGCATCTCCTCCTCAGGCTTCTCCAGCACGGGCATCTCCAGCACGGGCATCTCCAGTCCGGGCATCTCCAGCCCGGGCACCACCTTCCAGGTCATCGTCAGGCAGATCATCATCTGCCCGGTCAGCCTCCACAACATCCTCCCCAACGAGAGTGTACCTTGTTAGAGCAATACCAGTGGGGACTGTCATCCGGGCATCTCCTGCCAGGTCAGCACCAGCCACCAGGGCCACCAGGGAGAGCCCAG
Seq A exon
GTAAGGGGGCCGCTGCAGGGAGGGCAGAGATCCAGGGCAGTGTCTTTGCACAGAGGGAAGCTCTCAGTGAGCATACTGCTCCTTGTACCCCGGGGATAATGACATGGGAGACAGCCAGAGTGGAACGAGGGGAACCTGGAGAGGTGAGGGTGGAAAGGGACCATGGTATGACAACCCAAAGACAGTGAAAAATTAGGCAAAAGGAGGAAGGGCCAGAAGCCAGGAGCAAGGAAGCAGAGTGCTCGCTGCTGAACTCCAGAGTTCTCCAGGCAGAATGGTGGGAGCCGCTCTGCCCAGAGTAAAGCTCTGACATCAAGAGGAAGGGCTCTTAGTCACAGGAGGGGCTGTTTCCTTTGGCCAGCCTATATGTCTGCTGGGAAAGCCAGGGTCTCCAATAGTACAAGGCCATGGTCAGTGTGCCTGCTCATACCTGGAGAAAGAGAGGGACTCTGACCACTCCCAGCCTCCAAACTTGGGTCGGGGGCGAGGCTCAGCTGCCAGGAAGTCAAGGAGGCCGATGGGCCTCTAGGCGTGGCTCTGCCCATCGGGAAACTGTTTCCATGTACCCCTGACCTTAGTAGAGACACTTTGGTGGGATGGATTCTAGAATGAGACACTGCATTTGAATCTCTGTTCTGCCAATCACTAGTTCCACGAACCTCAGTGTCCCCATCTACCGAGGGTATCTAATAAGACTCAGCTCATGCAAGGCAGTGAGGATGAACTAGCAGAACACATATGTGATACCTACCCTAGAGGAGCCTAGGGGAGGGGATCCAAAGAGGATTATACTGGGGAGCGGTGAAGCTGCCCTGTGGGGTGCAAGGGCCCTAGCAGGACGCTCAGGGAGTCAGTTTTGCTTCTTTCTGGGCGCTCCACCATGCCGCACTGCTCCCCAGCAGTTTTTCTTCCCTACCACCCTCTTCTTAG
Seq C2 exon
GTCTCAGTTTCCCCAAGTTCTCCTGGCAGGAGACCCAGAGACAGCTGCCACTCATCGGGTGTGTCCTCCTCCTCATCAGCCTGGTGATCTCACTCATCCTTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016397:ENSRNOT00000021949:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.832 A=NA C2=0.056
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATCTCCTCAGGCTTCTCCA
R:
GCCAGGAGAACTTGGGGAAAC
Band lengths:
355-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]