RnoINT0000064 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161884150-161885157:-
Coord C1 exon
chr4:161884929-161885157
Coord A exon
chr4:161884284-161884928
Coord C2 exon
chr4:161884150-161884283
Length
645 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
GGCCATTATTCCCTTTTTAGATT
3' ss Score
8.95
Exon sequences
Seq C1 exon
TTCCTCAGGCTCAACCAATGTTTCGTTCCTTGTCCCTGATACCATCACCCAGTGGCAGGCCAGCACCTTCTGTGTCAACGGCAATGCTGGGTTCGGCATTTCACCCAAAGTGTCCCTACAAATCTCCCAGCCCTTCTTCATGGAAGTTACCTCACCCTTTTCTGTTGTTCGAAGTGAACAGAGTGACCTCATTGTCACTGTCTTCAACTACCGGACTACATGTGTAGAG
Seq A exon
GTAGGCCACATCCTTTGATCTGGAAACAAAAATCCAGCAAAGATAAATTATTTATTATTCTTTACACTAAATATCACCATAGTCTCTCTATTAACAAATAAAAACACATACTCAAAGGATGTCATTTCTTTGTATCATCTTAAGAAATAATTATTGAGATTTTTAATTTTATTTTCTGTATGGTATTGTTTTACCTACATGTATATGCACCACATGCATTTCTGAGACCCGCAGATAACAGGAAAGGGCATTAGATGCCTTGAACTGCAGTTATAGACAATTGTGAGCCCCCACATGGGTGCCCAGAACTGAACCCTGGTCCTCTGCAACAGCACCCAGTGCTCTTAACTGCCGAGTGAAGTCTGTGACCCCAGAAACAGTTGTTTTAGATCACAACAATGACATGAAACTTTAGTGAGAAGAAGATTTTGGGATGATGCACAGTCTACCATTCTGTGAGTTCGTGACCAAGTCCTTGTGCATCTTCTCACTTCGCTACGTTAAAATAGGGAGGATCTTCTCAAGATGATGCACAGCAGCTTCTTCTTTGAAGACAACAAAGAAACCATTGTGCAATAAGTCGTAGAATCTAAATCAAAGGGGGGATTTAAAATGCTACCCCTGTGGCCATTATTCCCTTTTTAG
Seq C2 exon
ATTTCTGTTCAGTTAGAAGCATCTGAGAATTATGAAGCAAGCATCAACACCCAGAGTAACACTGACAGTGAGGTCCTGCCGGCTGGAGAACAGAAAACGTATGTCTGGACCGTTACACCAAAAACACTGGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:18
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=0.244
Domain overlap (PFAM):
C1:
PF0020717=A2M=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=8.9)
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:
TCAGGCTCAACCAATGTTTCGT
R:
GGTGTAACGGTCCAGACATACG
Band lengths:
344-989
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]