GgaINT0112589 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79430224-79430805:-
Coord C1 exon
chr1:79430682-79430805
Coord A exon
chr1:79430343-79430681
Coord C2 exon
chr1:79430224-79430342
Length
339 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTTTTCTGCTATTATTTAAGGTG
3' ss Score
8.76
Exon sequences
Seq C1 exon
ATTAATGTTTTGCTGTTAGAATCCCTTGATTATCAAGCAAAACTCATCTCCCCAGAAGATGATGGATGTGTATGCGCCAAGATAAGAAAGTCCTATGTCTGGAATATTTTCCCCAAAGGAACTG
Seq A exon
GTAAGTGGCTTGGAATCTAGCTGGTTTCCCGAGACTGTTACTAATCAATTTATACCTCACCTGTAAACCTAATTCTTTTCCAACCTGGATAATTTTGTCTACCCCTGTTCCAGCTGTCCAGGCCAAAAAGCCCCTCCAGAAATGCAGTATATTTATCATTTCAATTTTTATAGATCAGTTCTCTTCTCATATGTCTCACCTAGAGTGACCGATCATTCATTGTTCTGCACTACTTACTCTACTATTCTACAGATAATCATTATCATATGCAATTTCTCACTTTAACCAGAAGTCTTCTTGACAGAGGTCGATTTTCCCTCTTTTCTGCTATTATTTAAG
Seq C2 exon
GTGATGTATTATTCAGCATTACAGCTGAGACCAACGATGATGAAGCTTGTGAAGAAGAAGCACTTAGGAACATCCGTATTGACTACAGGGACACCCAGATCAGGGCATTGTTGGTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:20
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:
PF0020717=A2M=PD(4.4=9.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTGCTGTTAGAATCCCTTGA
R:
CTCAACCAACAATGCCCTGATCT
Band lengths:
238-577
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]