HsaINT0099938 @ hg19
Intron Retention
Gene
ENSG00000019169 | MARCO
Description
macrophage receptor with collagenous structure [Source:HGNC Symbol;Acc:6895]
Coordinates
chr2:119749353-119750052:+
Coord C1 exon
chr2:119749353-119749451
Coord A exon
chr2:119749452-119750007
Coord C2 exon
chr2:119750008-119750052
Length
556 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GGGTTTTCTCCTCATGACAGGAT
3' ss Score
7.8
Exon sequences
Seq C1 exon
GCCCTGCAGGTGTGAAGGGAGAACAGGGGAGCCCAGGGCTGGCAGGTCCCAAGGGAGCCCCTGGACAAGCTGGCCAGAAGGGAGACCAGGGAGTGAAAG
Seq A exon
GTAAGGCCTCTGCATCTGATTCCTTTGTTCTTAGGACTGTGCTTTACAGCCAGTTCTGTACCTTAAAATAGGAAAGGCGCTGTTTTAAGAGTTCTGGGGATTTTCAGAACCCAGGAGGGTAGAGGTTTATTTCCTTGATTGACAAGTCTTGTGCTGGGGCTTGCCCTAGGCATGGAGCACACAGCAGCGGGTTAGGCGCAGCTCTAGCATCCAAGGCAGGGGCGTGAACATGCACTTGAGCCATGCCCCACGACCCAACACTCCTAGGCAGTTTCCATGAAGGAGATGAGCCCATCCCACTCCATATCTCTGACCAGACCAAGCATCCCTCACCAATCTAACTTCAACCCCTCTTGCTGTAGCTCAGGCCCGTTTCTTCCTGCTCAGTCATTGACACCCGCAGGACATCCCATCCCCATAATGCCAGGCCACAGGCGAGACCCACGGAGCATCTGACCACTCCCAACCCTCCACCCGCTCCCCACTCATGCAAATGCAGGCAAAGGCGTCCTGCCTGGGTTTCTTTCAAACCGTGTGGGTTTTCTCCTCATGACAG
Seq C2 exon
GATCTTCTGGGGAGCAAGGAGTAAAGGGAGAAAAAGGTGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000019169-MARCO:NM_006770:14
Average complexity
IR-S
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=FE(52.4=100)
A:
NA
C2:
PF0139113=Collagen=FE(23.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)