GgaINT0039201 @ galGal3
Intron Retention
Gene
ENSGALG00000005069 | PGH2_CHICK
Description
NA
Coordinates
chr8:10060472-10061221:+
Coord C1 exon
chr8:10060472-10060615
Coord A exon
chr8:10060616-10061077
Coord C2 exon
chr8:10061078-10061221
Length
462 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
TATTTATTTTTCTCTTTCAGCGA
3' ss Score
11.43
Exon sequences
Seq C1 exon
CGGAATTCTTCACGTGGCTGAAACTAATATTGAAACCTACACCAAATACTGTCCACTACATTCTCACCCACTTCAAAGGAGTCTGGAACATCATCAACAACATTTCCTTCTTACGAGATACTATTATGAGATACGTGTTGACGT
Seq A exon
GTAAGTATACGTTCACTCTTCCAGTACTCCTAACTGACAGGAGCTACGTGTAGGACTCTAATCTATTTGATTATTTTATTGATAAAATAGCAAACTAAAATGTGTTATGGTAAAAGCACTCTAAAGAAAACTTAGGATCTAAGTATATTCACGCTTGGTGTGAAATATGCTTTCAGACAAGTGCATTTTTTTCTCATCTGAAATAGAATGTCAAATTTTGCTAATGCAACCTGCACCATTTGTTATAAATTCAGTAGCTGGATCCAACTGGTAAACTGGGACCTGTTTCTATTATTCAGTAGCCATGAATTACTGAATTTAAATGGGATTATACATGTGAAGTTTGTGAATGCAACTGCTGCCAAAAATACATGGAAACAATCTAGCACTGTGACTTCTTGTACTACTTAGTCTCCATTTTAACATATGCCAAATAAATAGATATTTATTTTTCTCTTTCAG
Seq C2 exon
CGAGATCACACTTGATTGACAGCCCACCAACATACAATAGTGACTACAGTTACAAATCCTGGGAAGCTTATTCCAATCTTTCCTATTACACAAGAAGCCTTCCACCAGTAGGACATGACTGTCCAACACCAATGGGTGTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005069:ENSGALT00000008125:3
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=0.082
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0309810=An_peroxidase=PU(36.0=63.3)
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:
CGGAATTCTTCACGTGGCTGA
R:
ACCCATTGGTGTTGGACAGTC
Band lengths:
281-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]