GgaINT0112600 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79421241-79421810:-
Coord C1 exon
chr1:79421686-79421810
Coord A exon
chr1:79421332-79421685
Coord C2 exon
chr1:79421241-79421331
Length
354 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TGGGACCTCTATTATTTCAGTTA
3' ss Score
5.69
Exon sequences
Seq C1 exon
ACAGCACTGAGATACAACATTCACCTTCCAGAGGGAGCCTTTGGATTTTCCCTCTCAGTACAGACATCAAATGCTTCCTGCCCACGGGATCAACCAGGAAAATTTGATATTGTACTCATAAGCAG
Seq A exon
GTAATGTGCCATCAACAAACCAGCTGCACAGTTGACATGCCAAGTAGAGTGCTGTGTATATTCAGTTTTGCTTAAAGTCATGAACCATGATGATCTATGCTGAGCAGAGAGTACAACCACTATGACATATTTCCCAAAAGATCATGTAATATTTACTCTATTAGTACACAAATTGCTAGCACATACTTAAGCCCCCTCATACCAGGGGCTTTCCCACAGTGTCTCCCTTTTAAGCCAGTCAGCAAGTGCATGTGATTCACTCCATTCTTTCTGTGTTGTATGAGGCCAAGAGCAGAGAGTAAGATTTCCTTCCCCTGACACAAACCAGACTGACTGGGACCTCTATTATTTCAG
Seq C2 exon
TTACACAGGGAAGCGCTCTAGCTCCAACATGGTCATTATTGATGTGAAGATGCTCTCCGGCTTTGTTCCTGTGAAATCTTCCCTGGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:31
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:
PF076779=A2M_recep=PU(24.7=71.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCACTGAGATACAACATTCACCT
R:
TGATCCAGGGAAGATTTCACAGG
Band lengths:
214-568
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]