RnoINT0113535 @ rn6
Intron Retention
Gene
ENSRNOG00000017223 | Plg
Description
plasminogen [Source:RGD Symbol;Acc:619893]
Coordinates
chr1:48550470-48552177:-
Coord C1 exon
chr1:48552038-48552177
Coord A exon
chr1:48550591-48552037
Coord C2 exon
chr1:48550470-48550590
Length
1447 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TCTCTTCTCACGCTGCACAGAGG
3' ss Score
5.69
Exon sequences
Seq C1 exon
ATACTCCCCCAGCACACACCCCAGCGAGGGACTAGAGGAGAACTACTGTAGGAACCCAGACAATGATGAACAAGGGCCCTGGTGCTACACAACAGACCCGGACCAGAGATATGAGTACTGCAACATCCCCGAATGCGAAG
Seq A exon
GTAGGGGTGGCTCTAGAAAGCCCCTCCTGTCTGCTTGTCACCGGCATATGCGCTACAGCCATTTCCCAGGGACATCAATTCATATTGTCCACTACAGCACCGAGTAATGGGCTTGCCCCTCGTGAAGGAGTCCCAGTTCTGACATGAACTATCTTTAGCAAAATGTTATTTCAACACGAGCACATGTATATCCAGATCCAAGACTTGGATGCAGATTTCTTTGGCTAAAACCCCACACAGTGTAGAACTCCAAAGATGGTTGCCATTAAATAGCTAAATTAAAATCAGGGAACCAGTGGAGTTCAAGCACACAGGAGGAATGATTTCACGTGGGCGGTTCCGTTGAGTGTGAGGTTAAGCAGCACACCAGTTGGTGTGTCGGCATTGCCTTCTTCTGATGGGCCCATCAGCTTCCCAAAGAACCCTGAAGGTCAGTGCTAAAACAGCACTGAATCATCAGCCTGGGAAAACATCTCCATTTCGAATTTCTAGTTACGTTGGTTAGAGCAAGAGCCAAGTGGTGTTTATGAGGTAACGTGGGCAGGTTTCAGGGGTCGATTCCTTTTCTCCTCACTTTCCCTGTGTGGACAGAGGAGCTCCTGTTTGGATATGGACAGTCACAGGTTATTTGGTTTTTACGTCCCATGAATACATGCTACTTATATCCACCTCACGGCTGTTTTTTTCTTTTTAAACGATATCATAAAAATTCCAGTTGTGTGTTATTTCTCTTCAGCATGGGACTTTGATGATTCCAAGTCAAAGTCTTAGTTTTGAAATAAATTAGAGAGCAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAGAAAAAAGAAGAAAAACAAATATAGCACCTCCCTGCCCCCATACATGCCCCCGGTCAGTCATGTTTCTCAACAATAGGCAAACAGAAGTTTGGCTGCTTGAGGTTGAGTGGGATCCTCCAATGACTGCAATGTCACCGGGGACAAAAACAAAACCAAAAACCAAAAACCAACCAACCAAACAAAAAACCAGCAGAAAGATCCCGGTGGTTCTCATATATCTGTCAGTCATCAAGTGATCAGAATAAGTTCATCGAATTTTAAAAGATCATTCTAGAAATGATGCTGTCCACTATGCAAAAATTAAAACAGAGGGCATACAGGCTTCTGAGAACATGAGCCTTCCCCATGGGTGCCTCCCAGTTCGAGGCTGTGTATTACGGAGTTTCTGACCATCATAGATAGTTAAGGTGGCACAGACTCAAAAAGTTCAAATAAATTTCTTAGAAAAAGGGCCCTAACTGCCTCAGAACATTTCAAGTCTTTACTGCCAAGTGGTTACCGGGAGTCAGGTTTGATGGGTGACAGGAAACACTGGAGACCTCTCTAGAGGGACTCCAGTCTCTGTTTCACTGTGCTTCATGTCAGTTTCTCTCTCTCTCCCCCTTCTCTTCTCACGCTGCACAG
Seq C2 exon
AGGAATGCATGTACTGCAGTGGAGAAAAGTACGAGGGCAAAATCTCCAAGACCATGTCTGGACTCGACTGCCAGTCCTGGGATTCTCAGAGCCCACATGCTCACGGATACATCCCTGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017223:ENSRNOT00000023368:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.276 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(57.0=93.8)
A:
NA
C2:
PF0005113=Kringle=PU(48.7=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACTCCCCCAGCACACACC
R:
GGATGTATCCGTGAGCATGTGG
Band lengths:
254-1701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]