RnoINT0000086 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161896914-161898144:-
Coord C1 exon
chr4:161898027-161898144
Coord A exon
chr4:161897026-161898026
Coord C2 exon
chr4:161896914-161897025
Length
1001 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
CACCTCTGCTTATTTTTCAGCTG
3' ss Score
9.2
Exon sequences
Seq C1 exon
GTACATCTATGGCCAACCTGTGCGTGGAAAAGCCCAGATCAAAGTGTGCAGAGAGCTCTTCTCCCCGGGGTATTGTGAGAGCAACGAGAATGAAATCTGCGAGCAGTTCACTCTGCAG
Seq A exon
GTGCGGACCACGGGCTTACTCTGGAGGGAACTCCTCACAGGGACTTAAGGCCACCTCTAAAAAGGATTCCCAGCACTGTTATTGTGTGGCTAGTGGGGGTGAGAGCTAAGTCAGGGGAGGAACATGAAGATCATGGTTCACCCAGTTCCTCGACTTCCGGGTGCTTTTGCCCGTAGAAGTTTAGACCTGCAGAGTTGCTCATCGGCTTCCTAAGTTCTGTACTATCTGGGTGGTCTCCACAGTCTTTCCTTGGAGAATCCTTCCTCACGCAGCTCATTCAGAGACACCGCAACCCAGAATGCTCTGTGTTCGTTGTTCCAGACTTCCGGTCTCCTTCATTCTAAATCCCAGCTTTGAACGCCTCACCTAGTCTACTGGGCTTTATCTTTATGAATATTTTTTTCTGCGTGTCTATAAGTCACTGGTTTTAATTTTATCTTTTTAAATTCTCTTTTAAGGGTTTTTTTTTTAATTCACGCATATGCCTACATGATACCTAGTGCAAGTGATAGCGAGGTCCAAAGGAATGAGCGTGTCCTTCCGATGTTTAAAATTTGAAGTTAGTGCATTTTTCTTATTTTAAATATAACTAAATGTACAGTTTTCTAGTTATTGTTGTAAGTAGCGAAAACGTACTTTTTCCCTATTTCAAATAGCAGACCTTAACAGCCGCAGACTTCAACGTGCTTCATCTAAGAGCATTGGTCCGTCTGTTGTTAGTGTTTCTCCAAGGGCTTAAATTCTTATTCTCAGGATATCGTTAGCTTTATCCGCAGCCTTTAACTGTTTCATGCCTACCCTACTTTCAGGAGAAGCATAGATATCCCCTTCTCTGATGGAAGTCTCCCGGCTTTAACTCTTTTTTTTCTTCCATTCAATATCTCAGCGAGGGGAAATCTGGGTACACAAGGGCGGAAGACTTTCGTATTGACAAAGTCCCATGAGTCCCATGAGCCTCTTGGGTCGCTAACTTTTCCATTCCACCTCTGCTTATTTTTCAG
Seq C2 exon
CTGAAAGATGGCTGTGCTTCTTACATTGTCAATACGAAAGTCTTCCAGCTGTACCGCTCTGGGTTGTTCATGACGTTGAATATCAACGGAGTCATTACAGAATCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:8
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACATCTATGGCCAACCTGTGC
R:
CTGTTCCAGATTCTGTAATGACTCCG
Band lengths:
230-1231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]