DreINT0000038 @ danRer10
Intron Retention
Gene
ENSDARG00000078183 | A2ML1 (10 of 13)
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr3:3682580-3682892:+
Coord C1 exon
chr3:3682580-3682701
Coord A exon
chr3:3682702-3682810
Coord C2 exon
chr3:3682811-3682892
Length
109 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGA
5' ss Score
4.46
3' ss Seq
TTTAAATCTCAATTTTTCAGATA
3' ss Score
8.85
Exon sequences
Seq C1 exon
GTTTTATGTTTCTACAACATCCCGACTCCTGTTAGAGTTTCTAAAACACTGAGTGTTGTTGCGAAGGTGTCTGGAAACTGCCAGGCTACACCAGTCAATCTGATGTTGACCTTTACGGCCAA
Seq A exon
GTAGGAACCACTTCCTTTGTTTTTGTACCAGGGCCTTTAAGGTCGCATGTATATTTCAGAACTTTTTGACCTCAAAGATGATCGCCTTTTTTAAATCTCAATTTTTCAG
Seq C2 exon
ATACACTGGTCCAAAACCAACTACTAACATGGTTCTGGTGGACATCAAGCTCTTGTCAGGATTCACTGCAGACACCTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078183:ENSDART00000158885:31
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:
NO
A:
NA
C2:
PF076779=A2M_recep=PU(21.1=67.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTACAACATCCCGACTCCTGT
R:
CAGTGAGGTGTCTGCAGTGAA
Band lengths:
194-303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]