GgaINT0112570 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79446026-79446888:-
Coord C1 exon
chr1:79446709-79446888
Coord A exon
chr1:79446210-79446708
Coord C2 exon
chr1:79446026-79446209
Length
499 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGA
5' ss Score
5.75
3' ss Seq
ATGTTGTTTGGATCTTGCAGGCA
3' ss Score
8.17
Exon sequences
Seq C1 exon
CTCCTTCCCCCTGGAGCTCTCAATGAGGAATGCTGCAGAACTGTTAAACTAGTAGGCGATGCATTGTTTCTTGGGAAGAGAAATTCTCTCTTTCTTCTGTCTAACAGTAAGAAAAATGTGGTTGAAGTTTATTCTGGCTATTCTTCTTCTCCATGCAGCAGCTGGAAAGGAACCTGAGCC
Seq A exon
GTAAGAACTACTATAATACTATTAGTAGTACTAAGTACTAGTAAGATTTTAAAGACAAGGCTAGTTGATGGCATTACTTTTACTCTAAATATTAAATACTGTGAAACCTTATCTTTCATATTTGGAGAATTAAGTTAAACTGGAATGTGTATGGCAAGTGAATAGCTCTCATTTAATACCAAGTAGACCTACTGCCTATTGCAGAATTTTCATAGAAATTGATGTTTGTGTTCAGGAAGGACAGTAGCAGTAGTAGTAGCAATATAATTTAGTAATAAGCTAAAGGGTAAGAGTGATGGGTGCTGGCAGAATTGTGTGGGGAACCCAGGGCTGGGATTTTTGGGTGCTGCAAAGGAGGAGTGAGGGGTATCAGAAAGAATGTCCTATATTTATTCTAAACCAATTAGTGAGTGTTGAACAATACAAATATTTTGCTTCTTCCTGTTGAGGCTCCATTCTCTATGACAAGATTGATCACTATGTTGTTTGGATCTTGCAG
Seq C2 exon
GCAATATGTTCTAATGGTGCCTGCTGTTCTCCAAAGTGACTCTCCAAGTCAGGTTTGCCTGCAGTTCTTCAACCTCAATCAAACAATATCTGTCAGAGTCGTCCTGGAGTATGATACCATTAACACCACTATTTTTGAGAAAAACACAACAACAAGCAACGGTCTACAGTGCTTGAACTTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:1
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:
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:
CCCTGGAGCTCTCAATGAGGA
R:
AGCACTGTAGACCGTTGCTTG
Band lengths:
345-844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]