RnoINT0000070 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161877439-161879019:-
Coord C1 exon
chr4:161878843-161879019
Coord A exon
chr4:161877521-161878842
Coord C2 exon
chr4:161877439-161877520
Length
1322 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CTTACTCTGTTGTGTTTTAGGTT
3' ss Score
12.89
Exon sequences
Seq C1 exon
GAGACATTCTGGGAGTCGCAATGCAGAATCTAGAGAGCCTTCTCCAGACACCCTATGGCTGCGGTGAACAGAACATTGCCCAGCTGGCAGCTGACATTTATATACTTGACTACCTCAACGCTACCAAACAGCTGACAGAAGAGGTCAGATCCAAGGCTCTTCTTCTCTTATCTAAAG
Seq A exon
GTGAGAGGGCTGAGCAGTTTCCACCCACAAAGGGGAAATCAATTGCAACCAATATTGAAATATGATCAGTCTTACTCTGGTGAGACAAAAGTGGACCTTTAGGTCCTCTGAGTCCTAGCCGTATGTTCTTTAAAATCTCTGTTCATTATTTAGCCTCCTAAATAGAATGGTAGTTTCAAATTGTGAACTTATCTTTATCTTTAAATTTTCTTTATTCATACATGCAAACAAAATGTGGTCATACCCACCCCTATGTCTCTCCTTCTTACCCTCCCCAACATGCCCCCCTCCAAATTTTGTGTCTTTTATTATTATAACCCACCAAGTCCAGGTAACACAGCACAGTACATATGTGCATGGTGTAGAGGCCTCTCCTAGAATGGGAGTGGGCTCCCAGCGGCCATACCCTCAGTAAACAATGAGTTTCCCACCTGCTGCAAACACTCACTACCAACAGCTCCTTAGCATAGAACTGAGCCTGGGGATCATCTACCCCATCTACGCCAGGATTTTGACTGGCTTGATCTTCTGTAGGACTTGAATAGGCAACCACAGCTCATATGAGCTCACAGTTATAATGGCCATGCCATGCTCGGAAGATGGCATTCCACAGTACGCACACCCCTCCCCCATCATCGGGCTGTTGCATCCTTCCTGTCTCCTCCTCTCAGATGTCCCCTGGACCTTGACAGTCACGAAATTAATATCAATGAGCTCGTTTGTAAATGTGTCATAGTTACCATACCATCTTGTTAATAAACAAGATGTTGCTGGGAGCAATGGCTGAAAATGAGTCACTTGTCAGCCCGTAGACTGACTTGCCTGCGTTCCAATGCAGTGATGTGATTGAAGGTGAATGCAGAAAGATGCATACAAGCGACATTAAAATGGGATATTGGGGACAAGTCCAGGAGGAAATGCATTTTGGGTTTTCTTCTTAGGAAAGTAAAACTGAGTGAAGTAAAATAACCTTAAGGGAAGGTGTTGATTTGCTAAATGCAGTTCAGAGCCATAACCTTAAGGGAAGGTGCTGATTGCTAAGTGCAGTTCAGAGCCATAACCTTAAGGGAAGGTGCTGATTGCTAAGTGCAGTTCAGAGCCATAACCTTAAGGGAAGGTGCTGATTGCTAAGTGCAGTGTGGAGCCAGCATTTAAGTAAGGCATTTTCTCTCTACACAGAGCTAGACAACCTGGAGTTTCAGGGACCCAAACTGAAGTGTCCACAGTAGCGCAGTCCAGGCCTTGTGATTTGCCCAGTGTGCTCCAGGCTTCTCCTTCTCTCGCAGGCTGAAGGACTCTGTTCTTACTCTGTTGTGTTTTAG
Seq C2 exon
GTTACCAGAAACACTTGTCTTTCAAGAACTATGATGGCTCATACGATGTGTTCTGCCATAACAACCAGGAAGGAAGTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:23
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:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
A:
NA
C2:
PF076789=A2M_comp=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCTGGGAGTCGCAATGCAG
R:
CAGACACTTCCTTCCTGGTTGT
Band lengths:
254-1576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]