RnoINT0089754 @ rn6
Intron Retention
Gene
ENSRNOG00000049303 | Marco
Description
macrophage receptor with collagenous structure [Source:RGD Symbol;Acc:1589662]
Coordinates
chr16:85128972-85129408:-
Coord C1 exon
chr16:85129364-85129408
Coord A exon
chr16:85129080-85129363
Coord C2 exon
chr16:85128972-85129079
Length
284 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACT
5' ss Score
6.06
3' ss Seq
CACCCCTATTCTCATCACAGGTG
3' ss Score
8.71
Exon sequences
Seq C1 exon
GCCTCCAGGGATTCACGGGTGCACCAGGGAAGCAAGGAGCAGATG
Seq A exon
GTAACTTAGGCTTCCTCTCCTGGGACAACCAAAGCATTGACAATGCCCATGGGGCGGCTGTCCCCACGAGTTCTCTCTAGAGCCCCATCCTGGCCCCTGAGAGTGAATGGCTTCCTACTCTCCTTTTCCCAAGTCTTCAAAGAGCTCACCAGAACCACCAAAGAGATGAGCTAATGAGTGTGTGCTCTACGCCTTCCCTGGAGATCCCTTCCCTCACACTCTGCTTCAACTCCAGGAGCCCATCCTCACTAGGACAATGGTGCTCACCCCTATTCTCATCACAG
Seq C2 exon
GTGCTCCAGGGCCTCAAGGAGAAAAGGGCAGCAAAGGTGACAAAGGTCTCACTGGCCCCAAGGGGGAACACGGCACCAAGGGGGACAAAGGGGACCTAGGCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049303:ENSRNOT00000075773:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.2=31.2),PF0139113=Collagen=FE(21.1=100)
A:
NA
C2:
PF0139113=Collagen=FE(50.7=100),PF0139113=Collagen=PU(10.0=16.2)
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:
CCTCCAGGGATTCACGGGT
R:
AAGGCCTAGGTCCCCTTTGTC
Band lengths:
148-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]