RnoINT0083983 @ rn6
Intron Retention
Gene
ENSRNOG00000000599 | Lama4
Description
laminin subunit alpha 4 [Source:RGD Symbol;Acc:1560062]
Coordinates
chr20:44190172-44191713:+
Coord C1 exon
chr20:44190172-44190327
Coord A exon
chr20:44190328-44191553
Coord C2 exon
chr20:44191554-44191713
Length
1226 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCTTCTTCTTCTTCTTTCAGATT
3' ss Score
12.93
Exon sequences
Seq C1 exon
GTGATATTTATTCGGGAAAAGAGCAGTGGCCGATTGGTCATTGATGGTCTGCGAGTCCTCGAAGAAAGGCTCCCCCCTAGTGACGCTGCCTGGAAAATCAAGGGTCCCATTTATCTGGGAGGAGTGGCTCCCGGAAGGGCTGTGAAAAATGTCCAG
Seq A exon
GTAAGCCGGCTGTGGCAAGGCTGAGCCACTGACCCCTTGAACCGGAAAAACACTGATTCCCGGTTCTCATTTTATAGAGTAGGAACTTAGTCAAAGTGGAGCAGTTTGACTTCAAAATATATATCCTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTCAGTCCCCAGCTCTGGAAAAAAAAGAAAAGAAAAAAAAATAATATATATATCCTAGACTGTCCTGTAGGATTCCTGCCTGCCCTGGGCATTTTGACTTTTAAAATAGAAATGAGATTTTAAAAAAAAGTTTAATAGGTATAAAATGCCCTGGAATTTACATCTCCAGAGGGGGTTTATTAGTTCTGCAAGTACCTATAATTTTAATAAAAAGCTACAGTAAGACCAGAGAACAACCCATTCTACCATATTACTGACTGGGAAAAATAAAAACCTTCATCTCCTTTCAATTCGGTTCCACTTTTTCTCTTTCTCACAATTTCTAAATACTCACAGAGTGCACATGTAAGTGGGAGAATTCAGAATCTAAGAAACATTTTTGTAAATCAAATTACAGCTAATACCTCTTTTTAAAAGGGTTTCTCGGTGAATGGAAAGGATCAAAGGTCTTAATTTATCTGAAACACAAACGTAGATTTGATTTTATCCCAGGGTCAGTACATTGCTAAGATCCATTGGCGGTTTTCACTATAATTAGACTTGAAGTAAGCAGCCAGTTCTGTGGCTGTCATTTTTACTGTTCCCAAATGCGGTCTAAAACCCATTGTGCGCAGTGACACAAATGTCATATCCCGTAGTGTGATAAATTCATAACTGCATTACGAGCTAATGAAGCCAGCTCGGCAAGCTTCTCCCTGGTGGCATAGAACTTCCATCCACATCCGTGATCTGGGACCCAGCTACCCTCCTGAAGGAAAATGAATGGTAGTACGCTCGTCAACTAGAAAACCACAGTTGCAACTCGTTTTGTCGCTACCTGTGGAAACATTTCCAATGCTCAATAACTACACGCTGATGTTGTGAAATACAAAATCCCAGCTTTGAGGAATTAGTTAAAAGTAAGTGCCAGGAAGAAGCCACGTCCCTCATTCAGAACGCTAAAATGAACAAGGGGTAACTCACTCGTTTGCTTTCCCGTGGTGCATCTGGGCGCTGGGCAAGGGTATTTTAAGCAATTTCTTCTTCTTCTTCTTCTTTCAG
Seq C2 exon
ATTAACTCAGTCTACAGTTTCAGTGGCTGCCTTGGCAATCTCCAGCTCAATGGAGCCTCCATCGCCTCTGCCTCCCAAACGTTTAGCGTGACCCCTTGCTTTGAAGGGCCAATGGAGACGGGGACTTATTTCTCCACAGAAGGAGGCTATGTGGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000599:ENSRNOT00000000737:33
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=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=FE(39.8=100)
A:
NA
C2:
PF0221019=Laminin_G_2=PD(14.1=33.3)
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:
TTTATTCGGGAAAAGAGCAGTGG
R:
CTAGAACCACATAGCCTCCTTCTG
Band lengths:
310-1536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]