RnoINT0000071 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161876570-161877520:-
Coord C1 exon
chr4:161877439-161877520
Coord A exon
chr4:161876727-161877438
Coord C2 exon
chr4:161876570-161876726
Length
712 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TTTGATGGTCCCCATTGCAGGCT
3' ss Score
7.93
Exon sequences
Seq C1 exon
GTTACCAGAAACACTTGTCTTTCAAGAACTATGATGGCTCATACGATGTGTTCTGCCATAACAACCAGGAAGGAAGTGTCTG
Seq A exon
GTGAGAGATTAAAACTTTGTTTCCCCCAAGAGGGGCGAGGAGAAGGAAAGGGAACAATAAGGGGAGGGATTTGTAAGAATGAGACTGGGAAGAGAGGAGGGAGGGGAGTGTGATTGGGATGTAAAGTGAATTTAAAAAAAGAATTCAGGAAAAAAAACCCTTTGTTTTCAATAACGCAAGTTATTTTCTAAGCAGGACTTGCAAGAAGGTGAGAGCAGCTTGAGCTCAGGGAGGGGTTTTCCAGCCAAGTGGGTTTTAAAGTGGTATTACTGATGCAGCAATATTCCCACAGTCTCTTGCAACCTGCTTAGCTGTCTGGTCACTTAGTGACGGCTTTCTGTGGTGACACAGCTCATCAGCTCCATGACAAGTGTCACGTCTTACTCTGCGCCTCCCAGTCTTGTTTAGATACTGGAAAGGGAAACCAGAAGACCCCACAGCGTTCTACATCATACCAGAGCTGTTTCTGGGCATGTATAATCAAATGAACTACACAGTCAGACCTTGAGTGGCCAAGATCCACCTACTCTGTTTTCTACCAATTTGCTGTTTACCATATTTTACGGACCCCAGTGAAAGGGCCACCGTCAGTCAAGACTAGTAACTGTCAACATCAGACACGTATGAATGCTTTACCAAAGGGAACAGTGCTGGTGAACCTGTAGCAATGACATCTTCACTCTAATGTTTGCTTTGATGGTCCCCATTGCAG
Seq C2 exon
GCTCAGTGCCCTTTCTTTCAAGACATTTGAGAAAATGAAGGAATATATTTTCATCGAAGAGACGGTCCCCAAACAGACCTTGATTTGGCTTGTGAAGAAGCAGAAATCAAACGGCTGCTTTAGAAAGAATGAGAATCTTGTCAACAATGCTCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:24
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=0.057
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(10.9=100)
A:
NA
C2:
PF076789=A2M_comp=FE(21.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACCAGAAACACTTGTCTTTCA
R:
CTCCTGAGCATTGTTGACAAGA
Band lengths:
239-951
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]