DreINT0000025 @ danRer10
Intron Retention
Gene
ENSDARG00000078183 | A2ML1 (10 of 13)
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr3:3678614-3679327:+
Coord C1 exon
chr3:3678614-3678839
Coord A exon
chr3:3678840-3679206
Coord C2 exon
chr3:3679207-3679327
Length
367 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGG
5' ss Score
3.93
3' ss Seq
CTAATGCTTTTCACTATCAGGTT
3' ss Score
8
Exon sequences
Seq C1 exon
AGACTCTGGGTCCACGTCAGTTCCCCTCACAGTTCCTGACACAATCACTGCATGGGACACCGAGGCCTTCTGTCTAGCCTCCAGTGGTTTTGGTCTGGCTCCACCAGTTCTGCTGACTTCCTTCCAGCCCTTCTTTCTGGAGATCACCCTGCCTTACTCCATAATCCGTGGGGAGATTTTAAATCTGAAGGCCACTGTCTTTAATTATCTGCCCCAATGCATCAAG
Seq A exon
GTCTGGGTTCACGTAATCTATATGCAAATACTATTACCCCTTACTTTGAAAAGAAACTGCCTCTTAAAATTAACCAGTCTTTGGGATCTGATTGCTTTATCCCACTGTAGAAGTAGTCACTCCAGGATGACCAGTTTCTAATACTTTGAGAAGAGTAAATGCATTACTATCAAGATTGTTTGCTTTGAGTGCTTCAAGTATTAACTGAAAATAACCTACAATTTGTTGGTTTTAAGCTTAAAATAGTGTAAGACTTCAACACAATCTTAATCACCATGAAACTGGTTACAGAAGCCATCATTACTTTTGAACAAACTGCTTACACTTGTGGTAATGAATCCTTGTGTCTAATGCTTTTCACTATCAG
Seq C2 exon
GTTCAAGTGACTCCAACACCATCCTCCAACTTCACTCTTAAATCCTTTGGTCACTATTCATCCCATCTCTCTGCCAATGGGAGAAAGACCTTCAAATGGGATTTAACTGCTTCTGTTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078183:ENSDART00000158885:19
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:
PF0020717=A2M=FE(83.3=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACTCTGGGTCCACGTCAG
R:
ACAGAAGCAGTTAAATCCCATTTGA
Band lengths:
342-709
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]