GgaINT0039203 @ galGal3
Intron Retention
Gene
ENSGALG00000005069 | PGH2_CHICK
Description
NA
Coordinates
chr8:10061634-10062705:+
Coord C1 exon
chr8:10061634-10061815
Coord A exon
chr8:10061816-10062621
Coord C2 exon
chr8:10062622-10062705
Length
806 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGA
5' ss Score
7.83
3' ss Seq
CTCTTATTTTTATTTTAAAGGTT
3' ss Score
10.46
Exon sequences
Seq C1 exon
GTAAGAAAGAGCTCCCAGATTCAAAGCTGATTGTGGAGAAATTCTTGCTGCGGAGAAAATTTATTCCTGACCCACAAGGCACAAATGTGATGTTCACATTCTTTGCCCAGCACTTCACTCATCAATTCTTTAAGACAGACCATAAGAAAGGGCCTGGCTTCACTAAAGCTTACGGCCATGGG
Seq A exon
GTAAGATCATAGCTTTGAACTTGAATGCAGCACTAAGCTCTTAGGAGCTACCAAGCAGTTAGAATGATACCTTACAGGTAGTCAGAATATGCAAACACTAGTGGATATACTGTGCAACATAGCAACAAATTGTTGGCTTTACTCCTTACGTTGCTTTTCTTTAGGCAAAATTCCAGCAACTCGGTAGCATCTCCTAGGTCAGAACTGTTTGTGCCAAGCACATAATTCTGCTTAAGATCTCTGTACAGTGAGGACTGTGATTTCTTAAAAGCAGATTGTTTGACCTAAAGTGTTTTAGATGTCCAGAGTAGTTCTAAACACTCATTACTCTTTCCATTAGTTGCAAAGATGCTTTATACAGTATTTTGTTTTGTGCTGCTAATTAGACAGTTCTAAAAGAACTTGAAAAGCAAACTTGGATTTTTAAGATATTTATCTACACAAGGACAGTTTTGGGATAAAGAAATTCTCAATGTAAATATAGTGTGCATGTCTAAAACAAATCTGTAACATCTTTGTATATACAAAGAGCTGTCTGCTTAATAAAATGCCATTGACACTCTAAACAGTCCTCCTAAATCACCAGTTTGATTTAAAAACTTAATGCAGAGATCGCTGCAGTTGCCAAGAAATAATTTGGCTTCATCTTAAATATCAGTGTGTGATACTTATAAGGTAACAATACTGTAATCAAAAGGTAAACATCTATGGATGCCAGATCATCTGTTAGAAATAGGACCTGTCCTAAAATAGCAAAAAATGTAGCTTGTCTTCATGTTCTGAATGCTCTTATTTTTATTTTAAAG
Seq C2 exon
GTTGACTTGAACCACATTTATGGAGAGACTCTGGAGAGGCAACTTAAATTGAGACTTCGCAAGGATGGAAAACTAAAGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005069:ENSGALT00000008125:5
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:
PF0309810=An_peroxidase=PD(62.8=88.5),PF0309810=An_peroxidase=PU(2.7=16.4)
A:
NA
C2:
PF0309810=An_peroxidase=FE(7.4=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:
AGAAAGAGCTCCCAGATTCAAAGC
R:
TGGTACTTTAGTTTTCCATCCTTGC
Band lengths:
262-1068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]