RnoINT0118795 @ rn6
Intron Retention
Gene
ENSRNOG00000037175 | Prss50
Description
serine protease 50 [Source:RGD Symbol;Acc:6499372]
Coordinates
chr8:119139085-119140572:+
Coord C1 exon
chr8:119139085-119139368
Coord A exon
chr8:119139369-119140405
Coord C2 exon
chr8:119140406-119140572
Length
1037 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
ACTGGGGACATGTCCCACAGGCC
3' ss Score
5.95
Exon sequences
Seq C1 exon
GAACCGTGTTAACTATACCGTGAGGGTGGGGAGCCCATGGATTAACCAGACCACAGAAACCAGTTCAGATGTGCCAGTAAACCAGGTCATCATAAACAGCGGCTACCAATCCAAGCGGTACTGGTCTTGGGTTGGCCGGATCCATGACATTGGTCTCCTCAAGCTCAAATGGGGGCTCAAGTACAGCAAATACGTGTGGCCTGTCTGCCTGCCTGGCCTGGAGTATGTGGTGGAGGACGGCTCTCTCTGCACTGTGACAGGCTGGGGATACCCCAAGGCTAACG
Seq A exon
GTGAGTCAGAGCCCCACCCCCCATCGTTAGGGTGCATGGTGGGGAGAGCCGACTTGGGGGTGGCTGGGGTGCGCCTTGGATGAACCTTTCTGGATCATCATTTTTAAGGGGCTGACTGACCCAGGAACTTTCTTCTTCTCATCTCTCAAGTCTCCTCCTCCTCGAGGGTCTTGTCAGAGAACATACTAGGGTCAAGTTAGGCCTCTGGGAACCATTGAAGTCTCAGGATCACGAAAGCTTATGTAAACAAAACTTTCTTGAGAGCAGGGAGGTCTCCGAACGATAGCTTGTCACCTACACACGACCGCAGGACATTGGCAGGTAGAGAGTACAAGAGGGCGGGTTCTCCTGTCGGCAAGACGTTGCCAGAATGGATGCGGGTTATGTTTGAAAAGCCAAGAGTCTCAAAAGGTCCCAGATCCCTCGTCATTCCAGTGCCCCGCCCCCATCCCTTGTCATTCCACTATAGGAGCAAGGCTCTCAAGACAGGCACATCCTCTCATGGCCAGTCAAGGGATCATTTTTTTTCTGATGGGTGCTGGGAATATCTCTTCCCTTTAGGAAGCCACTAATGCACAAGAGACACACCCTTCTCTGTGTCCTTAGGATCCGATTTCCTCCTCTAAACCGCCATTCTGTGGCCTATCTGGGAGTGATCAGAAGTTTCCTGTCTCCAGGAGCTCAGGCACATTTTGGGTGGAATGGAAGAGTGCTGATGTAGGGGTGGGATGGGGTGGGGGTTAGGGTAGAGTTGTGGGGTGGGCCTGGAGAAACTGTGAGAAAGAGGCCCCAGGAATGGCTTTAAAAAGAAAGACTTAGGCCTGAGAGTGCTGGCTGCACTTGGAAGAGGACTAGCAGAGCCAAGAGGTCAATAGGTGTGGACTATGTTACAGCACCTCCATGGGGACAACCTTGGGGCCTGCTGGCCAGAGGGGAAAATAGCCCAGATATGGAGACCTCTCTGCTATGCAAAAGAGACAGAGACGGTGGCTGTGGACTAGCCAATGGCTAAACCTGACTGGGGACATGTCCCACAG
Seq C2 exon
GCCTATGGCCCCAGTTCCAAACCCTCCAGGAGAAGGAAGTCTCTATCCTGAACAGCAGGGAGTGTGAGCATTACTACCACAAGTTCTCCAGGATCCACTCTCTGGTTCGGATCATCAGCCCTCAGATGATCTGTGCCTTGGACAACGACAGGGAAAAGTTCTGCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000037175:ENSRNOT00000056114:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(23.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGCGGCTACCAATCCAAG
R:
TTTCCCTGTCGTTGTCCAAGG
Band lengths:
346-1383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]