GgaINT0126454 @ galGal3
Intron Retention
Gene
ENSGALG00000002515 | NOE1_CHICK
Description
NA
Coordinates
chr17:8291312-8293361:+
Coord C1 exon
chr17:8291312-8291529
Coord A exon
chr17:8291530-8293211
Coord C2 exon
chr17:8293212-8293361
Length
1682 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
TTTTTCCCTGTGTCAATCAGGTG
3' ss Score
8.69
Exon sequences
Seq C1 exon
CGTCCCCAGCGGCATGGAGCCCGGCGCCGGTGCAGAATGAAGGGTGCCTGGCGCCCCCCCCTGCAGACATGTCTGTGCCTTTACTCAAGATTGGAGTCGTCCTCAGCACCATGGCCATGATCACCAATTGGATGTCGCAGACGCTGCCCTCCCTCGTGGGGCTCAACACCACCAAACTCACGGCGGCCTCGGGCGGCACCTTGGATCGCAGCACGGGA
Seq A exon
GTAAGTGCGGGGGGCGGCGGGGGGGAAGACTGGCCCGGAGCATCCCCACCTCCCGTGGCGGCTCCCGCCTGGGCACCCCCGGGTCACCCCCATCCCTCCGCGCCTCGTTGCCCCCCTGCGCCGGGACCCTCCCGGCCGCCTGGCAGAGGGGGGTGGGTCTCACGGCGAGACCCCCGAGCCTCCCGCTGCAGAGGGTGGTGAGACGGGGAGAGGCGGCGCTGCTGTCCCCCGGGATGACGGGGGTACGTTTTGGGGTGGGAGGAGATGCGGGGTTATCTATCCCCGGCCCCGGGGGTGACGCGGGTGCCTCCCCACGCCTTCAGCCGGGAGAGAGCAAAGTTTCCCTCGTGGCTGTTTCGCTGGGTGAAGCAGTCTGGGACAGCAGGTGCGAGTCCCGCAACATCTCGTTTGCTTCCCTGCCTTTAATCAATAGGCGTTAATGGAATGGAAAACGCAGCGGAGCAGCTGCGGCGTATTTTGGTCGTGCCTTATGTTTGCTGCCTCTGTTTTGCCGGAGGGCTGGGACAGAGCCCGGGATTGGCACTTTGCAAACGGCAGAGGGAAACGATCCTTCTGTCTGTCTTCCTACAGCAGGCAAAAACGGGTTCCTTTCTCCTCCAGGCTGCCTTGCAGCAGAGCCACCGATTTACAGCTCCGCTGCTTCAAAGCGGCCGTTTCCCGTAGTGCCTCCGCTGATTGTGAATGAAGCTGGGATTTTTCCATCTTATCAGGGCTAATGAGACCTTTGGTGGGGTTTTTTTTTTCCTGGTTGTTTTAGCTAGATCAAATTACTCGTCTGTCCGCTAGTGTGTGCCTGTGCACATGGGTGTTTGCATGGTTATTTGTTATGCATTGAAATAGCAGAAAGAACATTTCCCTTCTGGCTTGGCAAAACAGCGGTGCCTTCAAAGTGATCAGACGCTGAATTGTGACTAAATAATGTATTTTGCAAAGTGCTGGGAGATGAAAGGGAAATTAAGATCAGAGAGGCTTGGAGAGCACCAGGGGCGCGGGGAGGATGGGGAGAGTGCTTGGGGCTGCGGCGTGTCCTGGGTGCTGTGGTGGCAGTGGTGGTGGTCTCCCCTGGGCTGCATCACTGTGCTGCTGTGTGCTTCGTGGGGTCCCGACCTCTGGAGCGTTTAGGGGGGAATGGTTGTCCTGGAGAAGCTCCCCATCCCTGGGAGAGCCTGGCAGTGGATGGGGGAAACGTGACTCCTCGTATCGCATCGCTGGTGCCGGCTCCAGGAGAGCTCTGCAGGTGCTCAGTGACGGCTCAGCTCTCAGCCAGGACACCGTGCCCTCCCTGTGAGTTTGGGCACATCCTGCTCACGGCGTCAAGGAGACCCTGAGTGCGTGGCAATGACAGCCCGGCCACAGGCTCTGCCAGCGGGCTTGGCACCCGGTGCACCCGGTGCTGAGCCTCTGCGATGTGGCTTCCCATGTCCGTGCTTCCCCGCTCGCACTGCCCTGTGTGCTCCATCTCTTCTTCTCAGACCCTTCCTTTATTTGTCCCCGATCCATATTTTTGCATTACAAGCGAATCCCGCTCCTCCTCAGTGCATCCCTCCTCTCGCTGCGCAGCTCCGGGATCCACTCCGTGCTGCTTCCTCCCTCCTCTTCCTCACCCACCCCTGCTGAGCCCCCCCTGTTTTCTTAACCCCTTTTTTCCCTGTGTCAATCAG
Seq C2 exon
GTGTTGCCTACCAACCCAGAGGAAAGCTGGCAGGTCTACAGCTCTGCCCAGGATAGCGAGGGACGTTGTATATGCACAGTGGTGGCACCTCAACAGACGATGTGCTCGCGTGATGCCAGGACAAAGCAGCTGAGACAACTATTAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002515:ENSGALT00000003964:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.201
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF123083=Noelin-1=PU(46.5=94.0),PF101864=Atg14=PU(15.4=54.0),PF0154011=Lipoprotein_7=PU(17.1=52.0),PF041569=IncA=PU(17.6=54.0),PF131661=AAA_13=PU(10.1=30.0),PF045827=Reo_sigmaC=PU(14.1=44.0)
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:
GTCCCCAGCGGCATGGAG
R:
GTCTCAGCTGCTTTGTCCTGG
Band lengths:
353-2035
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]