GgaINT0039020 @ galGal3
Intron Retention
Gene
ENSGALG00000002803 | MTA1
Description
NA
Coordinates
chr8:4080283-4080633:-
Coord C1 exon
chr8:4080502-4080633
Coord A exon
chr8:4080347-4080501
Coord C2 exon
chr8:4080283-4080346
Length
155 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACG
5' ss Score
7.74
3' ss Seq
TGTGTGTTTTTCTTTTTTAGAGG
3' ss Score
11.67
Exon sequences
Seq C1 exon
ACTAGGAGAAATGGAAGAAGAGATGGAAAACCCAGAAATGGTCGACTTGCCAGAGAAACAGAAGCATCAGTTACGACATCGTGAGTTATTTCTCTCGCGACAGCTGGAATCCCTGCCAGCCACACACATTAG
Seq A exon
GTAACGGCCATTTTCTTCCTCTGCTTTTTATTCAGAAACCAAATGTCGCTATTATTCGAGTACTCTTCAGTGTAATATTAAATTTTGTGTGCAACTTCAGTCGTATCATCTTGTGAATCACACAAGCATTTAAGATGTGTGTTTTTCTTTTTTAG
Seq C2 exon
AGGCAAATGCAGCGTTACTCTGTTAAATGAGACAGAATCCCTTAAATCATATCTGGAACGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002803:ENSGALT00000004434:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.692 A=NA C2=0.303
Domain overlap (PFAM):
C1:
PF0142613=BAH=FE(29.4=100)
A:
NA
C2:
PF0142613=BAH=FE(14.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTAGGAGAAATGGAAGAAGAGATGG
R:
CCCGTTCCAGATATGATTTAAGGGA
Band lengths:
194-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]