GgaINT0039866 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1327418-1328710:+
Coord C1 exon
chr8:1327418-1327639
Coord A exon
chr8:1327640-1328574
Coord C2 exon
chr8:1328575-1328710
Length
935 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATC
5' ss Score
7.46
3' ss Seq
CTTCAATTCTGCAATTTTAGGAC
3' ss Score
6.47
Exon sequences
Seq C1 exon
GATGGAGGCTTCTTGCCTGGAGCTGGCTTTGGAAGGTGAGCGCCTCTGTAAAGCAGGAGATTGCCGAGCTGGTGTGTCTTTCTTTGAAGCAGCTGTTCAGGTTGGAACTGAAGACTTGAAAACACTCAGTGCTATTTACAGCCAGCTAGGCAATGCCTATTTCTACTTGCATGAATATGCAAAGGCCTTGGAATACCATCACCATGATTTAACTCTTGCAAG
Seq A exon
GTAATCTTGTGTCTTCAACCCTGTTCTCCATTTCATCCTATTCTTGTAGAGGTGAGCAGCTGGCTGTTGGTCTGCCTACCAAAACCTGCAGCTAATACTAGATAATGCATGGATGTGGTGACAGGAGAGGGCCGGGGGCCTGGTAGGTAACTTGACTGCCCTTTAACCTGGGAGCTAATGCTCATCCTAGCACCGTAATCCTAGTACTAACTGAGGCCTTACCAGGTTTGTGGACAATTAAGAAGCTTCTTTAAATCCAACCTTTCTTTACCCTTTTCTGTTCCTAAAACTCAAATCTTTCTAGCTCTCTTGTTTAAAAGATGTTCATGTTTCAGTGTGTAAAACTCACAATACAATACATTGAACTGTACAGCTGTGTATTTTATACACTATTTATGATCTTATTTTTAATTATTTAGTATAGATCCAGTAAAAGACACACACGCTAATGTAGGACTTAACCACAATATGAGCAAAAATTTTTTTTCCCAACCCCTTTACTTGCTTAAATGTGGTAACTGCGAAGGTGCCTACATTCAGTAAGCATCCTTGTGGGAACCTGCTGCTTTCTTGTGTTATTCCCCAGATAGCAGAGGCAGAGTGGCTCAGTGATGATCTTTTGCCTTAATCTCATTCAGAACCTAGAAGTGTAGGTTTTCTTCTGAGCTTTCTGGGAGACCAGCACGTCTACTGTATAATAAAAGGATGATAGTCAAGGAAGACTAAGAAACAGTTAAAACTTGCTGTTATCCTGGGACTGCCTTTTTGTATAATCATTAAGAAACAAAATTAAATGTTACTGCAATGATAGACTGAACCATATTTATGTGAATGCCTTTTAGATAAAAATGAATGGAATATATATATATATGCTTACATTTTCTTTCCATATATTCTTCATTTGGTTTTGAATTACTTCAATTCTGCAATTTTAG
Seq C2 exon
GACAATTGGAGATCTGGTGGGAGAAGCTAAAGCTAGTGGAAATCTGGGCAACACCTTGAAGGTACTTGGAAACTTTGAAGAAGCTATTGTTTGTTGTCAGAGACATCTGGATATTTCCAGAGAGCTTAATGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0051523=TPR_1=WD(100=33.3)
A:
NA
C2:
PF134241=TPR_12=PU(61.7=80.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTGCCTGGAGCTGGCTTT
R:
TGTCTCTGACAACAAACAATAGCT
Band lengths:
318-1253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]