GgaINT0038669 @ galGal3
Intron Retention
Gene
ENSGALG00000006804 | ODF2L
Description
NA
Coordinates
chr8:16707688-16709876:+
Coord C1 exon
chr8:16707688-16707804
Coord A exon
chr8:16707805-16709690
Coord C2 exon
chr8:16709691-16709876
Length
1886 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAAC
5' ss Score
2.31
3' ss Seq
GATATTTAATTATGCTGCAGACT
3' ss Score
5.02
Exon sequences
Seq C1 exon
GTCCCTGTACTGAAGGAAGAGTATCTATCAAGACCAGTAAACACAATTGAAGCTCATCTGCAGTATCAGATTCAAAGAAAAGAAGTGGAAAATGATGAATTAAGGCTGAAAACACAG
Seq A exon
GTCAACATATTTTTATGTGCTTTAAATTTAAAGGCAAATTAGCAAAGCCCTTCTGTGGGTTTATTTCAGAATTGAGAGTTAAATCTTTTTTAGGTGTAGCTTTGATCAAATTGAATAATATATATTGTTGCATATATCACTTCAAAGAAAACTTTGCAAGAAAAAATCTGCAACAATTTTTTAAAAATAGCATTTATATTTTGCAATTTATCTTCATTGTCTTAATTGCAGGTTATTTTCTTCTAATTATTTCAACTTATAGTAGTAGTCCTGCTGAAGAAATTTAAGCAGACATAGAAGTGTTTGTACTCATCTAATTTTACTATCTGAGAGACTGATATCTTTCCTATTGGGTGTATGGAAACTGCTTTAGGAAGAGAGACAAGTCCCAGAATGACTTTTCCACTGTAAGTTGTTTGAGATGTGTGACAGACCAGCACCTGTTTCTTTTCATAAACTGTGGAGGAATCAATAATCCAAAACCACTTAAGTCTGACCATGTTCCATGTTTTCCTATGAATCAAAATTAATTTCTTGTACTACATAGCACATTTGTTAGAATTACTACATTTTCATTAAGTAGTACCTGGATAAAGTAACTGATGAATAACTTTATTTTCATTGAATCTTTGTATAAAAGTGTTGTTTGTTTCCTCCAAAAAAAATGCTACAGTCAGTTGACAGCTCAAATCCTGTAGATGACTTTGTTAGTACTTAGGAAAAAAGATTGGGATAGCTTACGGAATTTAATTCACTGTTTAAATTTGTCTTGGTCGCTGAATAATGCCCAAAGCATTCATTCTTATGTGATTCTGACCCCCTGTGGTTGTAACAGGAGATAACAGTTATTTACTGAAATCACTAGTTAAGGAAAACTGTACGCATACCCAAATTTTTCAGTTTCTCTATTCATTGAAATCGTTTTTCCTGCAGGTCATATTTTATATGAGAACTATTTCCTGCATATATTTATATGCAGAGAGACATAGACCTGTTGGAATGCATCCAGAGACAGGCCACAATAATGATCCCAGGGATGGAACACCTCTCCTATGAGGACAGGTTGAGAGAGCAGGGGCTGTTCAGCCTGGAGAAGAGAAGGCTGTGATGTGACCTAATAGCGGCCTTTCAGTATCTAAAGGGGAGCTACAGGAAAGTAGGGGACAGACTCTTTAGCAGTGTCTGTGGTAACAGAATGAGGGGAAATGGCTTTAAGCTCAAGGAGAGTAGCTTTAGGTTGGATATGAGGAAAAAGCCTTTTACAGTTAGGGTTGGTGAGGCACTGGAACAGATCACCTAGTGCTGTGGTTGATGTTCCATCCGTGGAGACTTCCAAGGCAAGGCTGGATGAGGCCCTAGGCAACCTGATCTAGCTGTGGTGTCCTTGTTCACTGCAGGGGAGTTGGACTAAATACTAGTAAGCTGAGACCATCTTTCACATGGCAAACTACGTAAATTTTCCATTGATTGTGGATAAGTTTTGGAGTCATTAGCAGCACCTGTACTGACAGATATAATCTCATGCATAATATGTGCGTTTTATGGCAACTGGTAGATAATAGTATGAATAAATCTGGCAGATTAATGTAGGTAAGCAGTAGCTAGGTAAACAGTGTGTCATTATTGTCTTCATTCATGTAAAACGTAAGTTAAATGTTAGACTATAATCAACTATAAAAAATAAAAAGTTACATGTTCCTAATCATTCTTTGTTAGAATATTGATCAGTGACTTGAGCAAAAAAAAAAAGTATATTACTGGTGTATTTACAGAGATACTAATGGAAGCAGGTTATAAATGCAATTTCTGTTCTTCATTATGATACCTCACAGACTGATTTATAAGGTGTAGGATTTGAAAAGACTTGATATTTAATTATGCTGCAG
Seq C2 exon
ACTCTAGAGAAGAAAATAGCAGAGTGGAAACTTCAAATTGGTGAATACAAGCGTCAGATGTTGGCCTTGAAGAAAACAAGTGAGCAAAAAAAGGCTTATCTGAGAAGAGCAATTAGGTCCCAGAAACAAAAAACAGAATGCTTTGAAGAAGCTGTGGAAAATTTAACCTCCAGAGTAAAAGAACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006804:ENSGALT00000038838:7
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=0.048
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF048997=MbeD_MobD=PU(18.8=19.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCTGTACTGAAGGAAGAGT
R:
ACGTTCTTTTACTCTGGAGGTT
Band lengths:
303-2189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]