GgaINT0112598 @ galGal3
Intron Retention
Gene
ENSGALG00000022962 | A2M
Description
NA
Coordinates
chr1:79422203-79423984:-
Coord C1 exon
chr1:79423767-79423984
Coord A exon
chr1:79422419-79423766
Coord C2 exon
chr1:79422203-79422418
Length
1348 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAT
5' ss Score
4.89
3' ss Seq
CTTTTATTATTTTCTTTCAGGAC
3' ss Score
12.11
Exon sequences
Seq C1 exon
ACGGTTCAAAGTACTGGGAGCAGAACCAGAGATCTGCACCTGAAAAATCCCACCTCTTAGACCATGTTCAATCAACTGATGTTGAGATCACCAGCTACGTGCTGTTGGCATTGCTCTACAAACCAAATCGCAGTCAAGAGGATCTCACAAAGGCCTCAGCAATTGTGCAGTGGATTATCAGGCAACAGAATTCCTATGGAGGTTTCGCTTCCATGCAG
Seq A exon
GTGCATAAACTCCCATTTCCCAGTCAGTCCTAGGAACTGGGGCACTACTGAGGCACTCGTGTGTCAGTGAGGCTATGACTATCTAGTTTTATTTCTTTCTTGTATCTGCTGTCATGCATATAGAGACCAAGTCTTTTTCTTAGTGAGTCCTAAATCCTTTTTTTTTTTTTTTTTTTTAATTTGCCCTTCTGAACTACACATAAGTTAAATACATAAAGGAGTAATTGGACTAGTAAGAAATACAGATATTCATGTTAGCAATAAACCTAAAAAAGACCTCTTATTACCAGGTCTTAATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGTTCAAGTACTGGGAGCAGAACCAGAGATATGCACCTGAAACCCTCACCTCTTAGACCACGTTCAACCAACTGATGTTGAGATCATCAGCTACGTGCTGTTGGCATTGCTCTACAAACCAAATCGCAGTCAAGAGGATCTCACAAAGGCCTCAGCAATTGTGCAGTGGATTATCAGGCAACAGAATTCCTATGGAGGTTTCGCTTCCATGCAGGTGCATAAACTCCCATTTCCCAGTCAGTCCTAGGAACTGGGGCACTACTGAGGCACTCGTGTGTCAGTGAGGCTATGACTATCTAGTTTTATTTCTTTCTTGTATCTGCTGTCATGCATATAGAGACCAAGTCTTTTTCTTAGTGAGTCCTAAATCCTTTTTTTTTTTTTTTTTTTTAATTTGCCCTTCTGAACTACACATAAGTTAAATACATAAAGGAGTAATTGGACTAGTAAGAAATACAGATATTCATGTTAGCAATAAACCTAAAAAAGACCTCTTATTACCAGGTCTTAATTGCTATATGACCAAGAGGTTCTCTGCAGTTCCCTAGAAAATACATGCATTTTCACTTCAAATATCTTATTGAGGTGAGCTCTAGTGCTCGTATGTTGTACTCTGAAACATTTATCATTAGTAGAGAGATTTCTTTCACACTAAAATATGCACATCAGAAGGAAATGCCTCCTTCTATGTGGGAAACGTGGAATCATATACAAGTTCAGGGTTTCTTTAATGAGGTCAAAGTGGCTTTGCTTTGTATTAGAATCATAACATTGATTTCCTCCACATAGTCACACTGTGTAGCTAACTGTCTTTTATTATTTTCTTTCAG
Seq C2 exon
GACACGGTGGTTGCTCTTCAAGCCCTTGCTGCTTATGGTGCGGCCACCTACAATTCAGTTACACAAAATGTCATCAAGATCAATTCCAAGAACACTTTTGAGAAAGTATTTACTGTTAATAATGAGAACAGGCTCCTACTGCAACAGACTCCCCTTCCTCAAGTCCCTGGGAAATACAGCTTAACAGTGAATGGCACTGGATGTGTACTTATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022962:ENSGALT00000037194:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(29.0=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.2=18.1)
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:
GCAGAACCAGAGATCTGCACC
R:
TCTGTTGCAGTAGGAGCCTGT
Band lengths:
347-1695
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]