RnoINT0113531 @ rn6
Intron Retention
Gene
ENSRNOG00000017223 | Plg
Description
plasminogen [Source:RGD Symbol;Acc:619893]
Coordinates
chr1:48521772-48522553:-
Coord C1 exon
chr1:48522408-48522553
Coord A exon
chr1:48522233-48522407
Coord C2 exon
chr1:48521772-48522232
Length
175 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTCTTCCCTCCTTCATCTAGGGC
3' ss Score
10.82
Exon sequences
Seq C1 exon
GGACTCCAGGTGCCGGCCGTCTCAAGGAGGCCCAGCTGCCCGTGATCGAGAACAAGGTGTGCAACCGCGCTGAGTATCTAAACAACAGAGTCAAATCCACCGAGCTCTGTGCCGGGCATCTGGCTGGTGGCATCGACAGTTGCCAG
Seq A exon
GTAAGAGAAGAGACCCAGATGGTCTTGGGTTGATCCATCTCTGCCCCTTGGACTTTCAGTCCGAGAGGATTTGACGACCCATGGCCCGGGGAGGAATCCAACACAAAGATGGCATCCCATAACATCCCACCGGTGTAGCTCACTTCTCATGTGGATTCTTCCCTCCTTCATCTAG
Seq C2 exon
GGCGACAGTGGAGGACCTCTGGTTTGCTTCGAGAAGGACAAGTATATTTTACAAGGAGTCACTTCTTGGGGTCTTGGCTGTGCTCGCCCCAATAAGCCTGGTGTCTATGTTCGTGTTTCCCGGTACGTTAATTGGATTGAAAGGGAGATGAGGAATGACTAATTGGGTGGGAGGCAGAACAAAACTACTAAATATGGGGAGGGGATTAGGGCGCTTGAAAAAAAACCTGACAGCAATCAAACCAAAGACACTACACTGGACCACTACTTCCTGTCACCCCTCAGCTCCTCCCTCTTTTTGTATTATTGTGGGTAAAATTTTCCTGTCCCTGGACTTCTGGATTTTGTGACAATAGACCATCACTTCTGTGACCTTTGTTGAAAATAAACTCGATACTTACTTTGATTTGAGTTGGTTTTTGGGGGGAAGGGAAGTCGTCAATATTTTCATATGCTCTGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017223:ENSRNOT00000023368:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(21.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.1=83.3)
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:
GTCAAATCCACCGAGCTCTGT
R:
AGTTTTGTTCTGCCTCCCACC
Band lengths:
243-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]