RnoINT0153384 @ rn6
Intron Retention
Gene
ENSRNOG00000001976 | Tmprss2
Description
transmembrane serine protease 2 [Source:RGD Symbol;Acc:620766]
Coordinates
chr11:38068544-38069604:-
Coord C1 exon
chr11:38069436-38069604
Coord A exon
chr11:38068720-38069435
Coord C2 exon
chr11:38068544-38068719
Length
716 bp
Sequences
Splice sites
5' ss Seq
AGAGTATGC
5' ss Score
3.16
3' ss Seq
TCTGTCCTTCTGTCTCTCAGACC
3' ss Score
10.8
Exon sequences
Seq C1 exon
AATGCGGGGTTCGCTCAGTAAGACGTCAGAGCAGGATTGTGGGTGGGTCGACCGCCTCACCAGGAGACTGGCCCTGGCAGGTCAGCCTGCACGTCCAAGGTATCCATGTCTGCGGAGGCTCCATCATCACCCCCGAGTGGATTGTGACAGCCGCCCACTGTGTGGAAGA
Seq A exon
GTATGCCTTCATTCCGTGAAGTCTGGGGTAGTAGAGTGGGGTCACATGGCCCAGACATTTGGGGTTGGAATATGGCTCTTCTACCATGTGACCCACACCAAGCAGTGTGGAAGCTCCGATGCCTGTTGGGGTGACAGTGCTGTTTTAGATGTCTCAATGTCTCTTTGCCTGTTGCTACCACACAGGAATACCCTCCTTTTCTTCCTCCCAGGCACTGCTGGGAAGTTAGGGAAGCTATCTCTCCTGGGAGTCTACCTTCCTCCCTCATACATCCCAGATTCTGAGGTTCCTCTGGTAGTTGAAGCTAAAAGTTAAAAACAAAAACAAAAACAAAACAACAACAACAAAACAGATGAAAGAAAAGCATGGCCACTCCAAGTATGTCCGTATTTATTAAGCACCTCCTGTGTCAGTAAATGCTCTGGCATATAAAGATTAGTGAGACCCAGTCCTGTCAGAATGTGATTTCAAGTACTACAGAAAGGTGCGGCTCTATCGTGATCTGGTGCAGAAGATGGGAGAAGGAACAGAATCCTTGGGGAGCCATTCAGCTGTGGGGTGCTGAGAGGGAAGTGAGAAGCTCCCTGCCCCAGCCTCACTCTGTGGCTTAGGTTGTCATCTTACCCCAGGACTCAGCATGTGTGTTTAAAAGACTGTGAAGGGAACACCTCATATCTGTGGTCCTGAGTTTCCGTGTCTGTCCTTCTGTCTCTCAG
Seq C2 exon
ACCCCTCAGCAGCCCTAGGTACTGGACGGCATTTGCGGGAATTTTGAAACAGTCTCTCATGTTCTATGGAAGTAGACACCAGGTAGAAAAAGTGATTTCCCATCCAAATTACGACTCTAAGACCAAGAATAATGACATTGCTCTCATGAAGCTGCAGACACCCTTGGCTTTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001976:ENSRNOT00000002713:9
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=0.017
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PD(5.2=8.8),PF0008921=Trypsin=PU(19.2=77.2)
A:
NA
C2:
PF0008921=Trypsin=FE(25.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTTCGCTCAGTAAGACGTC
R:
AAAAGCCAAGGGTGTCTGCAG
Band lengths:
335-1051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]