RnoINT0000074 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161871617-161872702:-
Coord C1 exon
chr4:161872537-161872702
Coord A exon
chr4:161871829-161872536
Coord C2 exon
chr4:161871617-161871828
Length
708 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGT
5' ss Score
10.15
3' ss Seq
TTTTTCCCCCACTTTCTCAGATA
3' ss Score
9.2
Exon sequences
Seq C1 exon
TTTCCTGCCCTCCGCAATGGTCTCTATTGCCTGGAAGAAGCATTTTCGAGTAGTGTCACCGATGACCACACTCAAGCTATCATGGCTTATGTGTTCACATTAGCTGGGAAGCAACAGCAAGTGAAGTCCTTACTCCCAATCCTGGATCGGTCTGCTACAAAAACGA
Seq A exon
GTAAGTCTTATTACCAATTTCTCTTCGCTAGTGGGCAAAAGTCCCGAGATCAAAGTACAGAGCCTACTGAGAGATCGGGTCGAACCCTCCCTCCACCAAGTGCTTCGGCATCTCCGGAACAGGTCAGCAACTGTCTTCAAAGATTGCCAGATACTTAACTTTTTCTCAAACACCTGAAGGAAAGGAAATTAAGCATGCTGCAGATCATAATTACTTCTGAGATGACTTAACACCCTAAGGAGATGCCATATTTATTTCCCAGGATGTCATAGAGAAAAACCACAGACTTAAATCCCAGAAAGTTTTTTCTCTCTAGAGGGTAGACATGTAAGATCCTGAGAGCAAGAAGTATGGGCTCTTTGCCCGAAGTGGATGGCTTCTTCCTCTGCCTTCCGGTGTGTCCTCTGTGTGTGGACACCCTTGGCTCCCTTTTATTTGTCCATATTTCATCTCCTCATAATCATCATCAAATTGGATCATGTACCACCTTAGAAAACTCATTTTAACCTTATCACCTCTTGAAAGGTCCTATCCTGAAATCTGATCAAGGCTTCAGTACATTCGTTTAAAATTCAGGCCACAACAGGAATCCAAAGAATAGAGCCTGTCTATTAGTTACCCCTCTGAGTGGGTAACTTATAGAAGCTTGCTTTAAGGACTTGTGGAAATTCTTTGTATAGAGGCTGATTTTTTCCCCCACTTTCTCAG
Seq C2 exon
ATAATATGATATACTGGGAGAAAGACGAGAAACCCAAGGCAGACAGCTCTCCATCATTCATTCCTTCTGCACTTTCCGGTGAGACAGAGAAGACGTGCTATGTGCTGTTGGCTGTCCTTTCCCAGGACACTCCGGACCTCGATTATGCCAGCAAGATTGTGCAGTGGCTTGCCCAGCGGATGAACTCCCATGGAGGCTTCTCTGCCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:27
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=0.169
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(22.2=100)
A:
NA
C2:
PF076789=A2M_comp=FE(28.2=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:
CCGCAATGGTCTCTATTGCCT
R:
GAGTTCATCCGCTGGGCAAG
Band lengths:
342-1050
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]