GgaINT0039871 @ galGal3
Intron Retention
Gene
ENSGALG00000002090 | GPSM2
Description
NA
Coordinates
chr8:1331286-1332210:+
Coord C1 exon
chr8:1331286-1331441
Coord A exon
chr8:1331442-1332101
Coord C2 exon
chr8:1332102-1332210
Length
660 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGC
5' ss Score
5.66
3' ss Seq
AGATGTTTTATCTTTTGCAGAAT
3' ss Score
8.98
Exon sequences
Seq C1 exon
GAGGACATTACAGCTGGCTCGGCAGCTTAAAGATAGGGCTGTGGAAGCACAGGCCTGCTACAGCCTTGGAAACACATACACTCTGCTTCAAGACTATGAGAAAGCAATTGATTATCATTTGAAACACCTTGTGATTGCTCAGGAATTAAACGATAA
Seq A exon
GTAAGCCCTAAGAGATTGTTTAATGTGTATGATGCTTAAAGCAATTGCCTTTGAAAATGAAGGGAAAAACATATTTTCCATGATTTGATTGTAGTAGTTTGGGTATCTTCACAGGCATTTTTCTTCTGTTTCTTCACAAATGAAGAAAATAAGAAGGGATGATGCAGGGAGGATAATCGAGTAGTAAATAATGGCTCTTTGAAAATTATTTGTAAAAGTTCTTTTTGGGAGGGGGGAGAAGAGGTAGAATTAATTGTTTGTTTTTGTCGTGGCAGGGGTGTGTGGTTTTTTTTTTGTTTTTTTTTTCTTTTAAATGCACAAAATAAGCAGAATACGTGAAGAATAAGCAGCCACACAATCTGAGGAACAGAAAGGGGGGTTATGCAATGTTTCATGCTTGCAAAACTATAAGGAGTGACTTAAATGGTTGCTGTAAATTTTAAAATTTAAGTTTTGATGAGATTTGTTCACATTTATGCTTATACCGGATCACAGTTCTTTAAGTACAGTACTTAACATGGTGGCGTTGGAATAGTTCTTGGAGACGGTCTGAATTTTCCTTGGCACAGTAATATTATTCTGGTAACATTTTGAAAACCTGACCCCTGGTGTTCAGAGAGTATGTGAAACGTATCCCTGAAGATGTTTTATCTTTTGCAG
Seq C2 exon
AATTGGTGAAGGAAGAGCATGCTGGAGTTTAGGGAATGCATATACTGCTCTGGGCAATCATGACCAAGCCATGCACTTTGCTGAGAGGCACCTGGAGATCTCCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002090:ENSGALT00000003258:8
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:
PF134241=TPR_12=PD(62.3=90.6),PF134241=TPR_12=PU(3.1=3.8)
A:
NA
C2:
PF134241=TPR_12=FE(56.2=100)
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:
GAGGACATTACAGCTGGCTCG
R:
AGATCTCCAGGTGCCTCTCAG
Band lengths:
257-917
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]