RnoINT0000078 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161868588-161869393:-
Coord C1 exon
chr4:161869269-161869393
Coord A exon
chr4:161868679-161869268
Coord C2 exon
chr4:161868588-161868678
Length
590 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
TGTTTGCTTTTTCATTTCAGGTA
3' ss Score
11.18
Exon sequences
Seq C1 exon
GCTACCCTCAGGTACAATGTGCCCCTTCCTAAGGAGGCCTCGGGGTTTTCCCTTTCTGTGAAAACCAGAAAGAGCAACTCTTCGGATGAACTCCAGACCAAGTTTGACCTCATGGTGACCCTCAC
Seq A exon
GTAAGTGTAACGTTTTAATATCCACTCCCAGGTCAGAGAACTCGATCAAAGAGTTATTTCAAATAGGACTGAAGAAAACCAAACCTGAATGACAGTGACCACAGTGAGTCCCATGTTGACAGGTGATCTACACCACGGCCACATCACTGTCTTTTTAGATACTGGCTTATTAGACAGATCTTCGGCAATGTCTACGTGTGTGTGATTCACACTCCTCAGCTACAACCTGAGAGCTGTTGCCTTGCTGACCGATTAAGAGTGTGGAAGCTCTCCTCGGGTGTTGGGCAAATCTAAAGCTGACAGGAACGGACATGATGTAAACAAGGACGGTTCTGTCTGTAGTTCTGACTTTGTGGAATTCAGGAAGGCTTTGTGTTCACAGAAGTCATGATCGGAACCAGGTGATGCCACCTTGCCCACCCGGCCTCTTGACCACTGTCCCTCGGCTGTGACTGCACTCATGGCCGAGGATGAAGTCTGCCAGCTCTCCAGACTTCAGGCTTATTAGCCCACCTGCCCACCTGCCAGCCTCACTGAGAGAGCTCGTGTTCCTAAACCCACGTAGAGATGTGTTTGCTTTTTCATTTCAG
Seq C2 exon
GTATACTGGAGCTCACGAAAGCTCCGGTACAGTCCTTGTGGATGTGAGGATGCTCTCTGGCTTTACTCCTGTCTTCTCATCTATCGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF076779=A2M_recep=PU(25.3=71.0)
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:
CCTCAGGTACAATGTGCCCCT
R:
TCGATAGATGAGAAGACAGGAGT
Band lengths:
207-797
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]