DreINT0000013 @ danRer10
Intron Retention
Gene
ENSDARG00000008835 | A2ML1 (1 of 13)
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr3:3654249-3654799:-
Coord C1 exon
chr3:3654716-3654799
Coord A exon
chr3:3654426-3654715
Coord C2 exon
chr3:3654249-3654425
Length
290 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAG
5' ss Score
4.05
3' ss Seq
CCTGTTCACTCCTCTCATAGGGG
3' ss Score
9.26
Exon sequences
Seq C1 exon
GAACCACGCTGTCAGAAGTAGTGAAGATCACATTTCCAACAAATGTCATCCAAGGATCTGCCAAATGCTCCGTATCAGTCATTG
Seq A exon
GTAAAGGGTTTGCTAAAGGGAGACTACACTGTAGTCTGTACCGTAACTCCAGTCCTACTTTAAACCCCAAATCAGTTTGCTTTGCCTGATTTGACCTTGTGCATGTATTTCTGCATTAGTAGTTTACATTTTCAACCAGCCTCTGCCCAGTGTTTTGTCAAATGCATTGCATTACACATTTCTGCTTCCGCTGATTTTGTGATCAAACAAATCTAAACCTGGATCCTCCATCCACAACTTTTTGATATGGATTGTTGGCATTGCTTTTGACCTGTTCACTCCTCTCATAG
Seq C2 exon
GGGACATAATGGGTCGTGCACTGAAGAATCTGGACAATTTGCTACGAATGCCTTCTGGCTGTGGTGAACAGAACATGATCATTCTCGCTCCCAATATTTACATCCTACGATATCTGACAGTAACTGCACAGCTCACCCCAGTCATCCGAGACACTGCAACTGGCTATCTTCAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000008835:ENSDART00000021286:6
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:
PF105694=Thiol-ester_cl=WD(100=52.5),PF076789=A2M_comp=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCACGCTGTCAGAAGTAGTG
R:
CAATTTGAAGATAGCCAGTTGCAGT
Band lengths:
260-550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]