RnoINT0089750 @ rn6
Intron Retention
Gene
ENSRNOG00000049303 | Marco
Description
macrophage receptor with collagenous structure [Source:RGD Symbol;Acc:1589662]
Coordinates
chr16:85134618-85135260:-
Coord C1 exon
chr16:85135039-85135260
Coord A exon
chr16:85134654-85135038
Coord C2 exon
chr16:85134618-85134653
Length
385 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CTTCTCTCCTTCCCTTACAGAGT
3' ss Score
11.95
Exon sequences
Seq C1 exon
TTCTCAATCTGCAGGAGCAGTTCCAGAGCCTAGAGATGTGTTGTGACAATGGAACACTAGCTGCTGAGGACAAGCCATTCTTCTCTCTGCAGTGGGCACGTCCCAAAACACACATAGTATCAGGAGCACAGGGGCTGCAAGCCTTGCAGGCCCAGCTTAGCTGGGTCCACACCAGCCAGGAGCAACTGCGTCAGCAAGTTGACAACCTCACTCAAAATCCAG
Seq A exon
GTACCACCACACCCAGTTTCTGTGGTTCTGGGGATGAAACCCAGGGTTTCCATGCATGCTGGCTGAGCACCCTACCAACTGAGCTACACGCTCAGCCGGGGCAAATCAGCCATTTTGACCAACGCAGATGGGTTTAGAACAATGCTGGTATAGGCCAGCAATCTAAGTGTTTCAGTACTTCCACAACTTCCGGGGCACTGGTTCCTGGTCTCTCTAAGCTTAAGAACAAATTCAGGTGTTATTGTTCAAACCTCTTAAGGCTAGAAGACCCATGGGGCCCCAGCCTTCCAATATAGAGTCTGTGAGCTCTCTGTGGGGCACAGGAGCAAAATCAAGCTTCACTCTACACCCTGCTCAGTTGCAACCTTCTCTCCTTCCCTTACAG
Seq C2 exon
AGTTGTTCCGGATTAAAGGTGAACGAGGCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049303:ENSRNOT00000075773:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.227 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(11.5=53.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCAGTTCCAGAGCCTAGA
R:
TGGAGAGCCTCGTTCACCTTT
Band lengths:
244-629
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]