GgaINT0038672 @ galGal3
Intron Retention
Gene
ENSGALG00000006804 | ODF2L
Description
NA
Coordinates
chr8:16712725-16713701:+
Coord C1 exon
chr8:16712725-16712860
Coord A exon
chr8:16712861-16713590
Coord C2 exon
chr8:16713591-16713701
Length
730 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCCCACATGTTTTAATCAAGGCT
3' ss Score
2.3
Exon sequences
Seq C1 exon
GCAAATCACAAGCCTTTCTGAAGACCTGAAAAGAAAGGAGGAACTCAGAAGAAAGGCTAGTGAGGAACTTCTTGGAAAGCTAAATTCTGTTAACTCTGAAAATGAGAAGATTTATCTTGAAAATGAAAAACTAAAG
Seq A exon
GTGAGATTACTATAAATCTCTGAGAAACAGTTTGGATTTCTGATGCATATATGAATTAACCGCTTTCATTTGCTGTTGTTCATTTGTCTAGAGATCCCAAACTGGTAGAATAGATGCTGTGACCCATTTTTTTTCACAGGAAGTGGAATGAGATGTTAAAAATTTATCAGTGGAAATCTATGGCAAAGATAGAAACAGGATTTTCTAGTCATCCTATTTAACCAGGATGTCGTTTGTTTTACAGTCAGTGGATATAAAATTGCTTACCTGGAAATTATTCTCTTTATATTAAAGTTTCACAAACACAATAATTGAATTTATCTTGATTATTGATACAATTTTTTAAAGAATTTCCAGGTTTTGTACTGTATTTATCTTCCAAAGTAAATATTCTTACAAGGAGATGTACTGTTATTTTTGATTGATAGGATAAATAATTGCTACTGCTTTCTATGTCTTCAGGTCACTTGATTGTAATATATTGTAGGTTGGGTTGTTTTAATCGTATCGTAGAATCATAGCATGGCCTGGGTTGAAATGGACCACAATGATCATCTAGTTTCAACCCCCCCTACTGTGTGCAGGGTTGCCAACCACCAGACCAGGTTTCTCAGAGCCACATCCAGCCTGGCCTTGAATGCCTCCAGGGATGGGACATCCACATCCTCCTTGGGCAACCTGTTAATGTCTTTTGTTTTTGGCTTTTTTTTCCCCACATGTTTTAATCAAG
Seq C2 exon
GCTTGCCTTGCTGCTTTGGAAATCAGTACTGTTTCTGTTGAAAATGACCTGCTATGTCTGCAAGAAAAGACCAAGCTACAGGAAAACATTGTTGAAGACTGTAAAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006804:ENSGALT00000038838:10
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:
PF048997=MbeD_MobD=PD(21.9=30.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAATCACAAGCCTTTCTGA
R:
ACAGTCTTCAACAATGTTTTCCTGT
Band lengths:
238-968
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]