RnoINT0000055 @ rn6
Intron Retention
Gene
ENSRNOG00000007247 | A2ml1
Description
alpha-2-macroglobulin-like 1 [Source:RGD Symbol;Acc:1565709]
Coordinates
chr4:161907190-161907767:-
Coord C1 exon
chr4:161907703-161907767
Coord A exon
chr4:161907374-161907702
Coord C2 exon
chr4:161907190-161907373
Length
329 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGG
5' ss Score
6.08
3' ss Seq
CGGCTCTTCTCTCTGTGCAGGCG
3' ss Score
10.05
Exon sequences
Seq C1 exon
ATGGTGCCTACCATCGTGCTCAGTGCCCTCGTGCTTCATCTCACTAACGTTGTGGCTTCAGAACC
Seq A exon
GTAAGGGAATTCCAAACTCTCTGTATCGAAGTACTGACAATATCATTTTGTTAAATGGATTCCACCTTAAAAATCTACTTGGTTCGTTATTCTATTTCACCCTCAGCAGCCGAGTGCTGGGCTAACCTCTAAGTGTCGAGAAAATGCCAGAGTGGTTACTATTTTGTTAAGTCACCATGGTGTGCATCCAGTTTAAGGTTATCCTGCCTGTGGAAAAAAAAAAAAAAACGCACGGTTTGGGGAATCCGTCAATAGCTCAAGCTGCTGTGGGTGGGTGTAAAGACTTCTCTAGACTTGTTTGCAAAGTGCCGGCTCTTCTCTCTGTGCAG
Seq C2 exon
GCGATACCTCCTGTGGGTTTCTGCTGTGGTACAGCGGTTTTCCTCAGAAAAAGCCTGCCTTCACCTTGTAAACCTCAACGAGCCTGTGTCCTTGAGCGTCATCCTAGAGTATGCCGGAGTCAACACTACTATTTTTGACCAGCGTGTGAAAGAGGGGAACTTCTATGCTTGTGCAAATTTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007247:ENSRNOT00000009557:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACCATCGTGCTCAGTGCC
R:
GCACAAGCATAGAAGTTCCCCT
Band lengths:
232-561
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]