GgaINT0121120 @ galGal3
Intron Retention
Gene
ENSGALG00000019254 | A2ML1
Description
NA
Coordinates
chr1:79186851-79188914:+
Coord C1 exon
chr1:79186851-79186994
Coord A exon
chr1:79186995-79188764
Coord C2 exon
chr1:79188765-79188914
Length
1770 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
CCTATGTTCTTCACATCCAGGCA
3' ss Score
7.83
Exon sequences
Seq C1 exon
CTGAAAGGCTTCTTCTCCATCCCTGTTACCTTCAGCTCAGTCTATGCTCCAACTTCAACACTTATTGTTTATGTTATCTTCCCTAATGGGAAAACCATCGCAGATTCTGCTGTCTTCAGTGTCTCTATGTGTTTCAGAAATAAG
Seq A exon
GTAGGATTCTTGTCGGATGCTATAACTAAATGTGAGAGAATAAGTGTGGTTGCTGCAACCAAAGAAGAGACAAAAGAATACATAATTTGTATAGCTCTGTGTGGCTGACACTATGGAGTGTCATGTCTTTTTAACTGCCATATATGTACAGTGAAGGGAGTTGCAACGTATGGAGCAAGTATGTGCTGAGCACTGTGGGAGCTGCTGTGGGATGCAAGACATGCTGAGGGAGCTGACAGATCTTATTGTGAAACTACTCACTATAATCTTACTTGATTAGGGCAACTGGGAGAATTGTCCAAAGGCTGGAGGAAAGTAAATGTCAGTGTTATTTTCAGAAGAGAAAGGAGAGCCCAGGAAACTACTCACTTTAATCCCTGGGAAGGTGGTGGAACAGCTATGGCAGGAAACCATTTCTGGACACGTGAAGGTGAAGAAAATTGTCAGGAGTAGTCAGCATGAATTCAGCAAGGAAAAGTCTTGCCTGACCATCATTAGCAGCTTCTACAGTGAAAGCACCAGCCTGATGTTTGAGGGTGGAGCAGTGAACATTGTCTTCTTGGACTTCAGTAAGGCCTTTGACAATGCCTCCCATAAGATCCTCATAGAGAAACTGTTTAAGCATGAGCTAGATGAGTAGACAATGAAGTGAATCGAAAACTGCCTGAATGGCCACACTGCTGGGTAGTGGTCAGTGGTACAAAGTCTAGTCTTTTTGGCTACATTAGGCAAATTATTGCCAGCAGGTCAAGAGAGCTGATACTCCTTCTGAAGGGAGGATACAAAGAGGACAGAGACAAGCTCTTTTCAGTGGTGTCCGGTGCCAGGACAATTACCAAATGGCACAAACTGTAACACAAGAAGTTCCATCTAAATATCAGGAAGCATATATTTACTGTGTGGGTGATGCAGCTCTTGCACAAGTTGCCAGAGAGATTGTAGAGTTCCCTTGTTGGAGACTGTCAAAAGCCATCTGGATATCGTCCTGGATATCTGTATCTATCTCTGTGGGTTTTTATAGCATGTGCAACCCAGCAGGGGAAAGTCCAGCACAAGTTATTACTGTGACTCCCATGAGAGCTCATGGCTGCTCTGCTACTTAAGCAGACAATTAATTTTGTTGGTACATGATACTGAAAAAGCAGCTGACAATGGCTGATGGAAGAAATGAGTTTTACCCTCCATTCACAATACTTTAGTGGTCATTGTGATATTCACAGGAAAATGCTTTCTTGGCTGTGTTTTGAACTCCAAGGGCTAACTTCTGAGGGCTGGCATTGCTCCTGCTCCACAGCTTCATATCTTCCAGGGACAGTCAGATTCAATCTAGAATACAAGCTGCTGCAGAAAACTGAGACCAACTCCACAAAGAGCCTGGAGATAAATACTAGGCTTATTTTTTATGTGGAGCTCCAATAGGAGCAGAAAGCTAGCTGTGTGAGGTGTGTTGGTTTCCTGGACAAGGAGTGCTGTGTAATGTCTCCAGTGCTGTCACCTGTTCACAGTGATTGTAGACAAGATGGTTCTCCCTCTCTGTCTTTCATGTGACCTGTCATCTTTCTGCATAGAATCCCAACATGATGTTTTCTTAAATACCTTTTAGGAGTCCTTAAGAAATTCCTTGGTTTTTCATTCAAATCATGTCCTTGGAAATTCTCTTCATGTAGGGACCTTCCCTGCTCAGGAAGTGGTAGAGAGGCCAGCAGCAGAAATGTTGCGTATGTTTTACCTATGTTTTGCGTATGTTTTACCTATGTTCTTCACATCCAG
Seq C2 exon
GCAGAGCTGAGCTTCTCAGTGCCCAAGATTCTTCCTGGTTCAGAGGTTAATCTCCACCTGCAGGCAGCACCTGGGTCTACATGTGCTGTCTGGGCTGTGGATCAGACTGTCTTTTTGCTGAAGCCAGAAAAAGAGCTCAGCCACTCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000019254:ENSGALT00000023052:1
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:
PF077039=A2M_N_2=PU(52.3=93.8)
A:
NA
C2:
PF077039=A2M_N_2=PD(45.3=78.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAAGGCTTCTTCTCCATCCC
R:
CATAGAGTGGCTGAGCTCTTT
Band lengths:
294-2064
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]