GgaINT0124404 @ galGal4
Intron Retention
Gene
ENSGALG00000004767 | ODF2
Description
outer dense fiber protein 2 [Source:RefSeq peptide;Acc:NP_001012817]
Coordinates
chr17:5115043-5116353:+
Coord C1 exon
chr17:5115043-5115213
Coord A exon
chr17:5115214-5116186
Coord C2 exon
chr17:5116187-5116353
Length
973 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TATTTAAATATCTTTTTCAGGCT
3' ss Score
7.91
Exon sequences
Seq C1 exon
GGACCAACTCACCGCCTGGAAATTACACCTCCAGAGTCCGAAAAGATGATGTCAGTATTGCGCCTGAGTGATCTCTCTACAGATGAGGAAGATGCAGTTTGCTGCAAAATGAATGAATACGAAAGGAAGATAGATAGCCTGATGAATGTGGTGGGAACACTAAAGAATGAG
Seq A exon
GTGAGGGAACCAAGTAAAGACCTGCTGGTTCTGGCTTTGTAGCTGATTATTTGGCAAGAGGAGACAAGAGCCTCGATGAAGTGGAAAACTGCTCAGCCTGTTGCTTGTTTTGCTTAAAGAAATCAGTCTGAGCTGTTCAGAAAATCAGAACTAATTTACTGAAAAATTCATTATGCCCTACTATGAAAATCCTTTAAGCCGTGTCAGTTCCATAAGGTATCCCCGAGCTTTAGTTTCCAGATCATCTTTCTTCAATCCAAGCCCAAAATCTGGGAAGTTGCTGTTCCAGAAGGTGAAAAGCACAGTTTGGTGATGTTCTATTCTTGAAGAATCCACTTATTGCTCAAAATAGTTTCTTCTGATTCTCCTCTAAAATTCACAGACCAGTGATATTGTTTCTTCCAGCTTAAGAGCATCATTATGTGCTTGACATCATTTAAAAGATGGATAGGAGAGGCTTCCAGATTTCATTAGATGCTTGGAGAGAGAGGAAAGGGCAACTATTTATTTCCTCTGAGGGTCGCAGAGATTGTATTCTTACTTAATTTATGCAAAACTAAACGAAGTTCAAATCAGTAAATGAGAATAGAATGCGTGTATTTTTATACTAAGCCTTTTCTATTTTATTTGTGCTACAAAAAATTAAAGAAGTTACTTGCATAATTGTAAGAACAAAATTCTGTTCTGATAATGAGTGGATTGAATCTAAACGTTTGGTGGCATCGTTTAAGTAAATCCGTGCTGTAAGATCACTTTCCTTTTGTTAGCTGCAATTCTGTGCAAGTGGGGGAATCTCAGGTGACCTTTTCTGCTGCATAAACAAACAAACCTGGTGCACCAATTCAACCTCCCTCCATATTCTCTCTTCTTGTGCATTTTCAGCTGTTTGTGCTCCCAACTGCCTGGTGGGATGCATGGGGAGCAGCGGTCAACTTCTGGTTTGTCTTAAATTCTATTTAAATATCTTTTTCAG
Seq C2 exon
GCTAAGTTACAGAAACAGGAGCAAAGGCAGCAAATGACAAAACGTCTGCTTGAGGAGCAGAAAGAAGAGCTGAATGAGGTCACACAGGAGCTGGCAGAATCAGAACATGAGAACACGCTGCTCAGGCGCAATATTGAACGCATGAGGGAAGAGAAAGATCTGACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004767:ENSGALT00000007603:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.857
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACCAACTCACCGCCTGGAAAT
R:
AGTCAGATCTTTCTCTTCCCTCA
Band lengths:
334-1307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]