GgaINT0039202 @ galGal3
Intron Retention
Gene
ENSGALG00000005069 | PGH2_CHICK
Description
NA
Coordinates
chr8:10061078-10061815:+
Coord C1 exon
chr8:10061078-10061221
Coord A exon
chr8:10061222-10061633
Coord C2 exon
chr8:10061634-10061815
Length
412 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TAAGGAAACTTTTCTTCCAGGTA
3' ss Score
5.64
Exon sequences
Seq C1 exon
CGAGATCACACTTGATTGACAGCCCACCAACATACAATAGTGACTACAGTTACAAATCCTGGGAAGCTTATTCCAATCTTTCCTATTACACAAGAAGCCTTCCACCAGTAGGACATGACTGTCCAACACCAATGGGTGTTAAAG
Seq A exon
GTAAGGAATAAAACAGACGCATAGTGTTCATTTCTAGGAATTTCATTGATCTTTTTGTCCTAGAAAACAGCAACAGGTTGTCTTGTCTACAACCATCCTAGTGTGTTGTTGACTCTGAGAATAGCAATGAATGAGATATATTGTGTAATGACCTAAAAGATAACCATTCCGGTACTCGTTATTGTCCTGTGTTCTAAAATCAGGAATTAGAAAGATTCTAATAAATTCAAAAAAGTAAGAATTGGGAAGCTATGACTATAACAAACAAAAAGAAGATAATTCCTCTTGTTAGTAAGTTGCTATCCTTTGTTAAAGAGTTGAAAATGGGAAACCTGTTTGGTTGTTAGGAGCAAAAGTAAGTATTAAGCATGATTTTTGTGAACATCTTGCTATAAGGAAACTTTTCTTCCAG
Seq C2 exon
GTAAGAAAGAGCTCCCAGATTCAAAGCTGATTGTGGAGAAATTCTTGCTGCGGAGAAAATTTATTCCTGACCCACAAGGCACAAATGTGATGTTCACATTCTTTGCCCAGCACTTCACTCATCAATTCTTTAAGACAGACCATAAGAAAGGGCCTGGCTTCACTAAAGCTTACGGCCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005069:ENSGALT00000008125:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=PU(36.0=63.3)
A:
NA
C2:
PF0309810=An_peroxidase=PD(62.8=88.5),PF0309810=An_peroxidase=PU(2.7=16.4)
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:
CGAGATCACACTTGATTGACAGC
R:
CCCATGGCCGTAAGCTTTAGT
Band lengths:
326-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]