GgaINT0039865 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1321240-1327639:+
Coord C1 exon
chr8:1321240-1321545
Coord A exon
chr8:1321546-1327417
Coord C2 exon
chr8:1327418-1327639
Length
5872 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTTTACTTAACCTGTGCAGGAT
3' ss Score
7.64
Exon sequences
Seq C1 exon
GAACGCAGCTGAATGGAGCTGAAAGGGCCACAGATGAAAGAACTTGAACGCGTTTCTGACAGTTTAAGATGTGTCTGACAGTGACTTGCTTACCTTAGTAACAAAGAAGAGTATTTCAACAGCAGCTTAGGATACCTGTGTGCCAACTTAGTAACTGGAATGGTGTTCTGACAACAGTTCTCCGTAGCAAACTACTCGCCTTGCTACAGAACAGTAGCGTTTTCTCTACTGATAATGCAGCTCAATGGAGGAAAGTAATGTTTTGATAAGCATGCGAGAAGACCAGTCTTTTCATGTGCGATACAG
Seq A exon
GTAAGATGATGAATTTTAGTTTGGTTGAATAAGTACTGTTAATGTTAGAAAACTAACTGTGTTTTGCAGTACTTTGGTGTCTCTTTTACTACTGAGATAGACAGTGAAAGCTGAATCACTGCTTCTTTGCTTTCCTTCATTTCTAAAGTTTGAAAATTCACTGTTGTTATATAGTAGGTTAGTTTGGATGATTCTGGAACTGTGTGCGGCTGCGGAACAGTTTTTGGGTTGCCTCTGCAAACTATGGAGCTTTGTCTGCTAATGTTCTCTATACTTGTCCTATTATTGCTGCTGTGATGGGCACTGTCATCTAGAGCGCTGCTTTCCTTACCTAGAATAGATTTGAGTGAGTGATTAAAAACTGCTTTGATACTTTGAACTAAAAATTCCTGTAATTGCAAGTCAAGAGGATATGCCATTTCACTTCTGAATGCTTTTATCCTTTCTCTTCTGGAATCCCCTTTATAGATGTGAGATGAAATGTTAGCATTCCAGACTCCCCCTAATGAATTTGAACAACAGAAATGTTGTGCGGTGCACTGTAATTGAGCAGCTGCTGCTGGGAAGGGTAAATCTTGCAGCTCATTCAACAGGAAGGGACACTGGAACAGTGGAATGATTGTTTGAAAACAAACGAAAAGTGTGGTTCTTGTGCGTTGCCCTGCCCTCTCCCTCAGTCAGCCTTTCTTTGGAGGCATTTTCCTCACTAACAGAAACACAGCACCACCCTTGTTTGTAAGGTAGGTCATGCTGTGGCTTAAAATTAATTCACATGAACGTGAAAGTACTTGTAGTATCCACTCAGAACAGCTTTCTGACAGTGTTAGGTTGGTTGTCTTCCATTATGTAGATCTTCCATTTCACAGAAGTACAGTATTAGTTCTGGTTAGCGATGCACTCAGCAGGAGGAACTTATTCATGGTCAATATGGAAAAAAATGGTAAATAAATTTTATTTTCAACTCTTCTCTCTTTCTTTGCTATAATCTGTATACATTGGCTTTGATAGCGGAAATCTCTAATGTTTGAGCTTGGTATTTCTGCTGTGTTGGTCGCTTCTTGGCTGCATCTAGCTGATGCCCTAGGTCGTTCCCAGACAACTGCAGAAGATCCTTGCTCTCTAACAAAAGCTGAGGCTGTTCAGGTTACTGTTATGACACTAAATGAGCAAAGAGAGCCATGGCCAATTGCCTCGTTTAAATTGACAAGCCAGAAATAACTTTGCCAAATTTGGTGAGCATGGGTAGAGCAAAATGTCTTACAGCTTTATTCTGTATTTCTGTACAAGCTTATGATACTGATTAACAAAAAAAAAGGATTTGTGCCTTATTAAATCTTTCTTTAAGAACTGTAATCTGAAGAACACTTGAAAATGATGGAGATGTAATCCTTGTTTGTTTGTTTTTTTTCATATATTAAACTTCTCTAAAATTCAGACCAACTTTCCCCCTGGCATTCTGTTGGAACTGGCTGTACAAGGAGACTGCTGGCCTGCCCCTAGGGCAGAGCTTTACTGTGGGTCTGTTCCTTACTGTGCAAGCCACTGCTTTCTCCCCACAGCAGTTGAGAGGCATGCGGTAAACCGGCTTTAGCAGCTGCAAAAGTCTTACGCTGGTGGAGAAAAAACTGTTCTAATGTCGGCTGGTGACTTAAAATAAAATGCTGATGTTAATGACTGCGACTAATAAGTAAGGGATCTATAGAGTAAATATTTGTAGAACTAATTTCTCTCGGCCTCCTAAGTTCGTGCACTGAAACCTGACAGCACTTGTGACAGTGTGACTAAACACAGTGTTCCAGTGGCCATGTAGTTCAGTTGTTTGGACTGGTCCATGTGATCCGCTTCTACGTTATGCATGGAAACCAGGAGTAAGGTAGGACTGAGGAGCAGTCTGCCATCTGTAGTATAGGACTGAACACTCTGCCATCTGTAGTATAGGACTCTGAGGCATTAGTGATTTTTTTTCTCTCTGAATTTAAGAGAGGTAATAGGTGTTTTTGGTTTTGTGTCGTTGTGTGGATCGATGTGTTTCACAGCACAGTTACAAGGCAGCACCCCACCAAATGGCAGGAGTTTTCAGAAATCCTCTAAGTAGGAATTGAATGGAGTAAAATTAAATGAGCAGTGTTAAAAGACTAATAGAATCAGTGTAAACTTGTTTTCTTCTTCTTGCCTTATTTCTTAACAGTTTTCCATTCTTTATTTTAAGATGCAAACAGATAAAGGATGGAAGAGTCCAAAGGGGAGAAGAGCGGGGAGGCCTGGACTGAGGGATATGCTTAGAGATTGTATTCTTATAAGGGTCAGGTTTCAAAAGAGAATATGAAGGTCAGAGAAGACCAAAAACCAAACCAAACCAAAGCATAATGGAGCCAGGGAAGATGAAGAGCTTGGAGGCAGAGATAAGGATGAGGTAGTTTTACAAATGAGGAATTATTCAGGAGATGCCAGCCTTTCAGAGAGCAGGTGGAGGCAACTGTAAGCAGAATAATGGAGTGTTTCCACAGTCATGTCTGGAAGAAAGCTATCCTGTTTATCAGGAACAGTGTTTCATTAGGAGTACCCAGATGAATGGGCCTTATTTTCCTGTCTCTGTGAATTCAGTGAATCTTTTGTTTAGCCGTTCTGTGTTGAATAAATAAGTAATTTGATTCAGCCCTTGGAACAGAGAAAGTAATTTCATATTCTGCTTCTAACTATTTAATGACTTCCTAAAACATTGATAACCTGGCTCTGTCTGGTCTGCTGGCATGCTGTTTAACCATTAGCGGTTAGAACAGTCTCTGAGAACACGAGGTGATGGGTTTTTGACAGTAGCACAGTTATATACGTCTTCTAAAAATGTGTGATTTTTCAGAGCAGTCTCCCAAAGTCTGTAAAAAAATACATATTCATATATACACATTTTCTGGGCCCATTTTTGTACTTTATGGATAAACTTAGAAACCCTTTTGCTCCAAAGTGGTAAAATAACTTAATGATTCCATAGCTTTTCAGTAGTGTGAATAAAAGCAACTGTAGTAAATCACTTTTTTTTTTCTTTCATCTGTTCTTATTTTTTTGTAGTGTATTTAGACTTTGAAAATGTGGAAGGCCAGTAAGTATGGATCCATGTAGTTTCAATTTGTTGTACAGATTCCAACTAGCTGTTGAAGCAACCTTTCTGGAGGTGTGCTCAAGTAGTATTAAAGGTTGACTTCTTTTTTACCCAAACAGTTTTTAATTCTCGTTCTCATTTACTTCCTGTAATTCTGGTTGAATTGAAATAGCTGATACTCATCAGCTTTAGCTTTCTGTATGGAGAAGAAAACACAACACGAAAACCGAAAACAAACCACATCTTTCATATGTATAAGCGGTACTAAATCAGGATTGCAAAGTCATAACATTGTTTCAAGTTCCTTGACAAAAGGGTAATGCTGCCTTGGCATCTGGCAGTCTTTGGAATAATGTGAAATTACTTGAGTGCAGAGAATATCAGAAAAATTCCTGGTCCAGCATTCTCAAATGGCAAATAAAACCATGATTTTTTTAATGGTCTAAGTAAATTTATACACCTGGAGTCTGGTGTAGCATGTTGACTTTTTTTGCCATATAGGCATTTTACTGAAAGCTCTACTGCAATCCTTTCAAGCTAAAAATGAGAGGAAATGAACACGGTTGTATAATGTTCTAAAGCTTCGCACTGAGGAGCACCATATTTTCCAGCCATCACTTTAATTAGGCATGTCAGTTAACATGAGGTGCCCGGAGAGAACCTCTTTGGATAGGATTAAGATTACCCAATGATGTGTTTTAAATCTTAAACCTTCAGTTGCTGATGGTGTAACATGCTGTGCTTAATCATTTCTGCCTTTTTCTGTCTTACATTCAACACCTGCACAATGTAATAAAAAACAAGCTGTGTGCTCTAGCAATAGGAGTGCTTCAGCTTCTCTGAGGAGCTTCCAAACTTACCATCATTACATGTGTTATGGATTTCCAACCTGAGAAGCTGTACCTGGGAAGAACTTCACGCTTCAGTTACCATTTGCTATTTGCATCATTACTGACTACCGAGCAGACGGTATTTTTAACTGCAAAAGTTAAATATGTCAGTCATCTCACTGTGCTTAAGTTGTGGAATGTCAAAGACCAGCAGGTATGGTACTATTTTGCATTAGAAGCTTATTTTACTTACGATCCAGATCCTTCTGGTTCTCTTGGAAAGTCAGTAGGTTTGCCACGAATGCTTTCTTCTTACTCAGGTTTCTGTAGAATGTTGTATAAAACTATTTCTTTTCTGATTTGCAAAAAGAAATGTAAGAATTGCAGGTACACTGAGTATTTTGTTGCTGTGTCTTGTAGAAACAGCTGTCTTGTAGTGCTGCTGCTAAAACAGCTGTTGGAAAAGCAAACATTTGTAACTGTTACTGATTTTTGCATACGAAAAAAGCAGGCATATGTTGTGAGCTAGATTTCTAGAATATTTATTCTTACAACCAGGTAGATATTATTATTTGATATTATTTGATAACAAAGATATATTAAATTATGCAAAACATTCTGTTTTGGACTGCAGTGCCAAACAGCCAAAGCACAGTCCATCTAGAAGAAAAACTTACAACAATACACAAATTGGCAAAGTTATGTTCAACGTTTTTTGGCATATTAGCGCAGACTTTTTGAACTACTAGAGAATGTCTCTTACTAATTTTCCTCTCAAAAAAATCTAGCAGTAGAATGGTGGTATTTTTGTAAGCTGACCCTAAAGCTGTCCTCCTCCCGAACTCCCTCATATCTCAGAATTGCTAAGTAGAAAATTTACATGTGTGGTTGTTAACACTTCATGAAATTTTAGCTTTTTACCTTTTGTATGCCTGATTTCACAATAGTTGAAATGCATATGAATATTTTTTGGCAGCCACTGTTCTCAGAGCTCCTTTATTTTTTGTTCAAAATGTAATCCACAGATTCACTGATATCTTCTTCACTGCTTGCAGCATTTTATACCTGCATGATTATGTAGTTATTTGCTCATAATAATCCAACGTATTCCAGTGCCTTCGGGACTTACAGCTTTTCACTAAAGTAACAGGAATTGACATACATTTTGTTAGTTAAGTCTATTTTTTTCCATAACACTGAGAACTTTTGTAACAGTGACACTACAGGAAATAAAGTACGAATTAGTAGTGAATTACGTAGGAAAGACCTATAGGAGAAGTAGTCATGGCCTTTGATACACAAGAACATTTGGACTTTTAAGATGTTTTTTTTTTTTAGTAATACATTTTGTACGTAACTACATTAGCTTCCTGTAAGTAAAATTGACTTTTCTGGGGATGGAGAGTTGGAAGGGAGAAAGCCATTGCTGTTAGCCTGCTGTAAATACTACCACATCCATTTGCATCTGTGTTTCACCATTAGTGTTCAATTCTTTGATTACTCAGCATCCATAAGCCTATGAGTAAAAAGCTAAGATTATGTAATTACATTTGTCAAAATCAGTATTTGGTAGTAGTCACTTGAGTTTTAGTTCATGGTACTGAAATTATCTAGATGGTGAATACTCAGTGTTTTAGGATCCTACAGATGCTGTATATGGACAAAGCAGTGTTTGGATTTCCTCCTCAAGACATAAAAATACAAATAGTTGAAGCTTTTTGTGCCACTGCTATGTTTGCCTATCATAACTCAATTGCCAAGTTGTGTTTCAGCCTTAGCTTCTGCAATGGTAAAGAATCATGGTTGTTGTTTGTACTGCTGACTTCCTGTCCTAAGCAAATGGAGATCACCCTCTGAGTAAAATGCACTTTTTCAGAACTCAGGATAATTGGACAAAGTATTGCATACAGAGTGACAGGTATCTCTTTTTACTTAACCTGTGCAG
Seq C2 exon
GATGGAGGCTTCTTGCCTGGAGCTGGCTTTGGAAGGTGAGCGCCTCTGTAAAGCAGGAGATTGCCGAGCTGGTGTGTCTTTCTTTGAAGCAGCTGTTCAGGTTGGAACTGAAGACTTGAAAACACTCAGTGCTATTTACAGCCAGCTAGGCAATGCCTATTTCTACTTGCATGAATATGCAAAGGCCTTGGAATACCATCACCATGATTTAACTCTTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:2
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:
PF0051523=TPR_1=WD(100=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]