RnoINT0003540 @ rn6
Intron Retention
Gene
ENSRNOG00000011300 | AABR07031193.1
Description
NA
Coordinates
chr18:3797991-3799878:+
Coord C1 exon
chr18:3797991-3798128
Coord A exon
chr18:3798129-3799831
Coord C2 exon
chr18:3799832-3799878
Length
1703 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CACTTCTGAATCTCCTGCAGGGT
3' ss Score
8.84
Exon sequences
Seq C1 exon
CTTGCCAGTGTTCAACTAGTGGATCCTATCCAGTGCCCTGTGACCCAGAGACTGGCCAGTGTGAATGCCTGCCTGGAGTAACGGGGAGGCGGTGTGACAGATGTCTCTCAGGAGCCTACGATTTTCCCTACTGCCAAG
Seq A exon
GTAAGGAAGCCTGCGGCATGTTGGAGGCACGGTCCTCATCTGAGTGGGTGCAGCCAACCTCTTGGAGAAGCCTAATGAGTCTTCTCTACACTGACTCAAACCACCCTAAGTATTTGGTTTGGTCTTCTGTAGGCAGCGTTTGTGGAAGCACGGCCATCAACACACTCAAGCCCAGAGACAGTCAGTGTCTGAAGAGAACGACTTTAATAACCCATTCATAAAACACCTGGGCTTCTCAGTCCTCTGCATCAGCCTGGTCAATGTAACCCCACAAATTTGCCCTTGCATTGTTGACGCCCCACCCAGCCCCTGTGCACCAAGGCTCATGCCTCTGTCCTAGTGACTCTGGGTGCTGATGTGGGCTGCATAGGATCTTTGCTGTAGGCTGAGAGGGACCAGAGCTGTGTTCTGGTCTTCTAACACAGACACGAGCCACCTGCATTCCCCCAAGCCCTTTAATGTGGCAGCCCCAGGCCTGCTAATAGCTCCAGCCTGGGGATTTCAGAGATCTTTTGTGCTATGGAGGGAGGCAGTTTGTAGAAGACTGACCCAGACTTTCCATCAGAAAACTGGTCTTTGTAGGAACCCTCTGGTTCCTGGGGACACTGAGGGTGAAGCATCCAGAGCTGGGTAGGACTGGGTAGAAGAGAGGATGACATTTTCCAGAACTTTCCTAATCAGAATTGTCCAGGGCAGAAAGTGTAGACAGCTACTGCAGGGCTTCCCCTGAGAAGGCCTGTGGTCCTTGTGAGGTCACCAGATCCGTGAGTGCTGGGGCAGAGACAGAGTAGCCATAGCTGTATCCGAGCTGGACAGTGACACAGGCCATGCCACGGGAGGAGCCCAGGACGGGGCGTGGTCACTATGGAAGACAAAAGAAGAGAAAATGAGGTGTGGGTGGCCACAGAAAGAGGGGGGGAGAGAAGGACATCATGAGAAACGGAGACAAACTTATAAAGAGGAAACAGGCAAAACGATAAGGGACAATTTGTAAGGATATACGATCCTGTTATGTATATGTATCATGGCGAAAACTAGCCATGGAAGCAGGCTCAACCAGGTTCCTGTCAGAGCAATACCAAGGCATTGCAAGTGCTCAGAGATAGCCTCTGCAGGGAAGGCGGGAAAGCACATCAGATGACGTCACCAAGAACTTCAGTGCACACTCGGACAGGGAGAATTAAAATTTCCCTGTTTTATGTTGACCTTCTTTTGAATGTTTATTTAGGTATAACATTTTTTAAAAGAGGTGCAATATCGCCCTCTTCTGGACAATTCTAAAGATGCTCAAAATTTCAGTGTAACCATCACCTATTAAGAAAGGAGGTTTTGCAAGGAAGTTAGGGAAGGATCTGGGAGAAGTTGAGGGAGGAGAGAGAATATGATCAAAATATATTACATGTAATTCTCAAAAACAAATTGAAATATATATTAACAGTAAAGGGTATCAAGCACTAAACACAGAAAGGAAGTTGTGTTCCTAGGCAGGGCAGAGTCACTGAGTGACAGATGAGTCAGGGCAGATCCAGTATCACAAAGATCTCTTGGCTTGTCTTAGTGTGAGTTACACATGGTCTCTGTCACGTATCTCTCAAAAGCATAGATGTCAGTGCACTTTTTTAAAAAGGGGGGGGGGAATCTAACAAATGTTGCAGCATCTAGATCAGCAGCCAGACTTGGTAACACTTCTGAATCTCCTGCAG
Seq C2 exon
GGTCCAGCAGTGTTTGCGATCCAGCTGGGACCATGGACTCCAGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011300:ENSRNOT00000092846:13
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:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=PU(88.2=95.7),PF0005319=Laminin_EGF=PU(5.9=6.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(9.8=31.2),PF0005319=Laminin_EGF=FE(29.4=100)
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:
TGCCAGTGTTCAACTAGTGGA
R:
AAGCTGGAGTCCATGGTCCC
Band lengths:
182-1885
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]