GgaINT0126644 @ galGal3
Intron Retention
Gene
ENSGALG00000008472 | F1P2X9_CHICK
Description
NA
Coordinates
chr17:2456798-2458953:+
Coord C1 exon
chr17:2456798-2456929
Coord A exon
chr17:2456930-2458807
Coord C2 exon
chr17:2458808-2458953
Length
1878 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ACTGATCTTCTGTACTCTAGGTC
3' ss Score
9.88
Exon sequences
Seq C1 exon
GTGCTGAAGCCTATAAATCATCGTTGGGAGGCAGAGAGGGCTCTGCCCAGGATAACAGCATGGAGTACATGGAGGTGTCTCTGGATTCCTTGGATCTGCGGGTGAAGGGAATCCTCTCCTCGCAGGCGGAAG
Seq A exon
GTGAGTGCTGGCTCGGCGCGGCCATGACCCACGTTGGCTTTGTTCGCTCAGCCCAAGCAGCGAGCGGGGCCCCGCGTGCCCCCTGGTGGCTGCCAGCGCCCCGAGCCCAGGCCTGGCCCGGCTGAGAGGCCTTCTGCAAGGCTGGCAGCAGTTGGGGGCCGGAGGTGTGAGGGGGGAGCTGAGTGGTTTGGGAAGGGTGCTAACGTGGGATGCATCCATCCATCTGTCCCACTCCCCCATCTTTGGGCGATGCATGTGCAGCCTCCCAGTGAATCATTACCCTGCACACGCAGCTGGTGCCCTCATCTCCTCAGGAACATGGCAGGGGGGGTCCGGCCTTGGTGGCCAGTGAGGACAGTGGAGGAACAATGGGTAGGGCTGTCTGAATGGCTGCTGTTCCCAGTGCTGATCCTTGGCTCCAGTGTGGATCTGTCCGGCTGCCCCCCTGTGGCTCTTTCGCCTTCAGAAGTTGTGTGGCTCTTTGATAGAAGCACATCAAAGAACGGGTGGGAGTGTTTACCACCAAGGGAGGGTCAGGATGGATGAGGGATGTTTTCAACAGAGCCTCTGGATGTCACAAAAGATTATGAAAGTGACAGCTTGGAAGGTGAGGAATGAGCTTTGTGATTTGTGCTCCTAGATAAAGTGCTTAAACATTTAATATCTGGGCAGGATTTTACATGAAAACTGCAAGGGCTTTCCTTCTGCTCGTGTGTCTTGAAACATCTCATCCCTTCTCAGGGCTTGGTCTTGCAACTTAGCCAAAGGAAACTCCTTACAGGATGAAAAGAGCTTCTGCTCAGCTGATAAGGTTGCAGCCATAGGCAGGAAAGGGGGAGAGTGCTTTTGCCAGGGCAGCTACAGAGGAATCTATCTGAAGAATGAAGTTAGTCTTTGAAATTTTGCAGCAAAATAACTCGTTTTTCAAAAGCTTCAAAAACAGCAGCACACTTCCTTCTCAATGGGACTCAAACCCATAGCAAGCTTGTGCAGGAAAAGCTTGGGACGCTGCAGGGTGAACCACAGGTAATGTTTGAGGGTTTAAAACCTTGCAAGAGATGTTTCAACTACGTAGGACTAAGGTAGGTGTGTGGAACAAAAAGCAATCCCTGTGTCATTGGGTCAGTGTCTTGTGGTCACACATAACCTAGTAAATGAGTTGAATCCAGAGGGGCCCCAAGAACATTCACAGTGTTCCCTCATTCCTGGCTGTGTGTTCACTTGAAAGCTGTTATCCACCTTTAAAAAGGCTTGGAAGTGCTAAATACCCGAGAGAAAGAGATGAGGAGAAGGCAAGAAAATCTGAACGTCTCGCTGCTTTCTTTTCTCTGGTTTGTTCTCTTTCAAATAAATAAATAAATAAACAATATATCTATATTTTGGTTGTGTGAGACCAAACAGTCCCAGGAATTTTGTTTTTCCATTTGCATAGTAAGCTTGTGCAAATAGTAGTTTATGCTTTCCTGATCTTCTCTATTTAACACTCCCCTTACTACTCAAATTTCCAACTCTAGTTTGTTTCCTACAGATTTCCTGGTGCCAGAGCGCAGTGCTGTGGGACAGGTGGGAAAGAGAGGCAGACTGATAAAAATCTGTACCTTGTAGCTTTTCCACGTTGGGGTTTTCTCAGGATAAACTGTTCTTAACTTAGTATTCTTGAATTCAGCACTGTCATCTGTAGTGTCACTGGACTCAGTAAAGTACAGTATGCTTTTGCAAACTCCATCTGTTGTAAGAAGTGGGTCTTTTTTGCATGGTTTGGATGATGCCTTTAAAGCATTTCAGGACGTGGAACTGGAAGATGCCATGAGACATGGACTGCATCCTTTCTCCTGGAGGGTACCATCAGAGTTGATTTACTGATCTTCTGTACTCTAG
Seq C2 exon
GTCTTTCCAATGGCCCTGAAGCAATGGAAGTAGATGGTCTCCAGGAGGTTCCCCTCTGTAGCTGTCGAATGGAAACCCCCAAAAGCAGAGAGATCACCACGCTAGCCAACAACCAGTGCATGGCCACCGAGAGTGTGGATAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008472:ENSGALT00000013807:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.622 A=NA C2=0.223
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGAAGCCTATAAATCATCGTTGG
R:
CTCTCGGTGGCCATGCAC
Band lengths:
263-2141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]