RnoINT0113525 @ rn6
Intron Retention
Gene
ENSRNOG00000017223 | Plg
Description
plasminogen [Source:RGD Symbol;Acc:619893]
Coordinates
chr1:48536582-48537870:-
Coord C1 exon
chr1:48537722-48537870
Coord A exon
chr1:48536676-48537721
Coord C2 exon
chr1:48536582-48536675
Length
1046 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGC
5' ss Score
6.12
3' ss Seq
AAATGCCTGTCTCTTTTCAGTAC
3' ss Score
8.8
Exon sequences
Seq C1 exon
ACTGCATGTATGGGAATGGCAAAGAATATCGGGGCAAAACGGCCGTCACTGCAGCTGGAACCCCCTGCCAGGAATGGGCTGCCCAGGAGCCCCACAGTCACAGAATCTTCACCCCACAGACAAACCCACGGGCAGGTCTGGAAAAGAAT
Seq A exon
GTAAGCCCCTCTGGTTCAAGGTCTGTTATGTTTTCCTGACCAACCGTTTGAACAGATTTAGTCTTGGGTTACAGCAACCCACCAGGACTGATCTTTGGTGTTGAGGGAGAAGGAAGGGAGGGGAAAACTGAAGTAGGTTGGGGTGGGGAGGGGGAAAGCCGAGGCCACAGCTGGGTGTCCTACAGCTGACAATTCTGAAGCTGTCTGGGAACAGACATCGGGGCTCACTGTTGTGAAGAGACGTGGTAGACCCTGCATGGGGAGGAGAGTGGAGAGAGGAGGAGAGTCCTGCCCTCCCTGGGCACTCTCCAATACTCCCAGGAATCTCTTGGAATCTTCTGTTTTAATTGGAAGCTTTGCTATGTTGACGAGGTTGTCCACACTTTTGGCCTTTGGTGCAGTGCAACCATTAGGCCCTCTGCCGGGGTCAGAGGATAGAGATGACATTCTCTTTGCTCACAGTTGGTTCTGCTGAACACCCTCCACCCCGCACCCTGAGCTCCTCTAGACGCTCTCTTGGTCACTTAGTTAGAACACAGACGCTCTTGTCCCTCAGGATGCCACAGGATTTAGGAGCTGTGTTTGATGCTCTTCAATCAGGGACCATGGAGCAGAGACCACGTTTATTATATCCCAGCATTGGAGAAAACGCTGCCCTTCTGTCTTGACCCATGGAGGGTGCAAACATTTTAAATCAACAACAAGGCCTCTTGGGGACCAGGATTACTGAAGCCAACCAATGATATGACAGCCAGTAATGTCCACTGTCCCTGATGGCTGGCTCTCCCACATCTGGCCCAGAGAGTGGCTTTCTGGTTGGAATTTACTTTGGGCAGAGACAGAGGCTCACTGGCATCCTGCAGTGGAGGCCTTATAAGCACCTTAAACCAACTTGCCAAAAAGCAAACAAACCAAAACAAAACCAAGAACATGAGGTCAGAAAACAAAGGGACGCTGCCTTCCATCCCATATGAAGGTCTATCTCTCTAAATCTGGTCCCCCCTCCATCCTGGGGAGCCTCCTCTCAAATGCCTGTCTCTTTTCAG
Seq C2 exon
TACTGCCGAAACCCGGATGGGGATGTCAATGGGCCCTGGTGCTATACAATGAACCCCAGAAAACTTTACGACTATTGTAACATTCCCCTTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017223:ENSRNOT00000023368:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(60.0=96.0)
A:
NA
C2:
PF0005113=Kringle=PD(37.5=93.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCATGTATGGGAATGGCA
R:
ACAAAGGGGAATGTTACAATAGTCGT
Band lengths:
242-1288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]