GgaINT1020339 @ galGal4
Intron Retention
Gene
ENSGALG00000004767 | ODF2
Description
outer dense fiber protein 2 [Source:RefSeq peptide;Acc:NP_001012817]
Coordinates
chr17:5126520-5128457:+
Coord C1 exon
chr17:5126520-5126645
Coord A exon
chr17:5126646-5127175
Coord C2 exon
chr17:5127176-5128457
Length
530 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
AGCTCTGTGCTTTGTTACAGGCA
3' ss Score
9.02
Exon sequences
Seq C1 exon
GTCGAACAAACTCGAGAACGAGCAACATCCAGAGAGAGGGCAGCCCAGTCCAAGGTGCTGGATTTGGAGACCCAGCTGAGTAGGACGAAGACAGAGCTGAACCAACTGCGTCGGAACAAAGAGGAC
Seq A exon
GTGAGTGATTTGTGAGGAGTGCCCTCACTGTGCTGGCAGCAGTCTGTCCATAGACAGAGGTCCCTGCAAAAGACATTTAGAACTTGTTCTAAGCTGAAGTGTGTGTATGGAAGCAATCAGGCTTATGTTCAAATGGGATTTGCGTTGGGTGGTGTCAGAGATACTGTGATCCTAGAAGTGAGACTCCTATATTGTGTGTCTGTGCTGCTCGTTTACATTCTTTTTCCTTGGAATTGGATTGGCTCATGAATTGGGTTAGGTTGGCTTTCAGAGATGTATGTTTAATTCCACACAGGTATAGCTAATCAGTTTAAAAAGGCCAACCAATTAGCTGTGTTGTCTCCTGTTATTTATTACTGGGTTGCTGAGTGATGTTGGGAATGAGCAGAACAAACAGTAAAGGCTACAGCAGCGTCTGTGGCAACACCATCTACTGTGCTAATCCCTGCTGGATGTGGGGATTTCTTGGAACAGCTGAAGAAGTGAGCAGGGTGAGCGCTGCTGTCCCTCAGCTCTGTGCTTTGTTACAG
Seq C2 exon
GCAGAGCGCCGCTATGAGAGCCGCCTGCAGGACTTAAAGGATCGGCTGGAGCAGTCGGAGAGCACAAATCGCAGCATGCAGAACTACGTCCAGTTCCTCAAATCTTCCTATGCCAATGTGTTTGCAGACAGTGCCTTGCTGGGCTCTCCTGGCCGCTCTCGTTCTTCTCCGTGAGGGCAGTGCTTGCTCTGCACCTCTGCTTTTAAGCACAAAATGAGCCCTCTGTCAAAGCCATACGGTGTTTAGGAAATGGGTTGAAAATGGAGAAGTGTCAGGGTCACTTAAGGGAGGAGTGTTTTCCTTGCAGCAGGGGATGGTGGAATGATGGAGGCACGCAATCTCAGCATGCAGAGCATTAGCAGTGCTGGTTTGCAGATGGAGGCCGGCGTTACTCTGTAAGCTGTGCCCCAAAACCGGCTGGCTTTGCATAAAGTGGCAAAGTCCCTTTTCATCCTATGAGCTCTGGATGGTTTCAGCTCTTTAAACCCAGCAGTGGTTTTAGTTGTGTTAATGTTTGTGGGAGCTGTTTTCCATGCTTCGTTTTCTCTTTTTTTTTCCCCCCTGTTTTCTGTACTGGGGTTGATCGTGTGCTATTCCTCACTGTTGCTATCATTTCATGTGCTGGTGGTGCTGTGGATGGTGGGAGAGAAGTGCACCCACCTCTCAGGGAAGCGTGAAGCTGAAAATAAGGGACAGGCCTGGGGCTTCATGCTTACAGGAGATGATCTCCTGAACCACTGTGCTGTTTGTAAGCAGTTTTATACCAGAAATAATGATTTAGTTGTGTTTGTTTTTTAACTTTGACTCTCGTGTGCTCTGTGATCCTCGCTTGTTTCGGCATGATGCTCATTTTGCTTTACCCCTCACCCCAATGCTGTTCTCCTGAGCCTGAACAGCCCCAGCACAGCGCCCCCAAACCATCTGTGTTCAAAAGGAAGGCTGCAGCTCAGCCTCGGCCGGGTCTCACTGTGAATGCTGTATGAATTCAGCGTGTGCACGGAATACCCATCGGCTCAAAGCCCGTTGGAGAGCAGCTGCTGCTCAGTGCCTTCATCAACCCCACCTGTGTGTCCTGCAGCTCTGTGCCGCCCCTCCGCTCCTTCCTTATGGCTCCTTATGGGGACGAAGCAAACATCGCTGTTATTTCGTAACACTTTTGTATCCCGTTGCTGCGGCCCCGGCACCGTTTGCCATGCAGGTTTTCTACGATAATCATTATGGGAGAGTTCTGTAATTTTGTGTGCAACTTTTTACAAAAAATAAATCCTAAAGGTGCTATAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004767:ENSGALT00000007603:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.881 A=NA C2=0.754
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGCGTCGGAACAAAGAGG
R:
CATCATTCCACCATCCCCTGC
Band lengths:
350-880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]