GgaINT0038670 @ galGal3
Intron Retention
Gene
ENSGALG00000006804 | ODF2L
Description
NA
Coordinates
chr8:16709691-16711239:+
Coord C1 exon
chr8:16709691-16709876
Coord A exon
chr8:16709877-16711129
Coord C2 exon
chr8:16711130-16711239
Length
1253 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
GTAATTAATGTGTTCTGTAGGAA
3' ss Score
6.75
Exon sequences
Seq C1 exon
ACTCTAGAGAAGAAAATAGCAGAGTGGAAACTTCAAATTGGTGAATACAAGCGTCAGATGTTGGCCTTGAAGAAAACAAGTGAGCAAAAAAAGGCTTATCTGAGAAGAGCAATTAGGTCCCAGAAACAAAAAACAGAATGCTTTGAAGAAGCTGTGGAAAATTTAACCTCCAGAGTAAAAGAACGT
Seq A exon
GTGAGTGATTACACTGACCAATGTTGTCCTGCATTAAATTGAATGAATAATTGGGAAACTTTCACCTTTGTAAAATAGGAAAGTTTTCTGTTGCATCGTTTGCATCTCTTATTTTTTTCCTCAGTTAAGGAAAAGCTTGCTATAAGAGACATGAAAACCATTCTTGTACTCACTGTTTTTGTTTTGTTAAAATTTAGTGAATGTCTTTATGCAGTTGTATACTTCATAGTAAATAAGTGGAGTCTGATCAGCTTCATTTATACATGTTCTGATCCTTCTCTTAGACCTTTGTGGAGATGCAATAACTGAGCTTAAAAGTATGATATAGCGTCAGATAAGAACTGGGGCTGAAGTCTTTGTGTCCTTTATTTATTAGCCTACGGTGTCTCATACGGATGCTTAGCTTTCTATTTCCAAGCTGCTTGCTTTGAGCTTTTTTAATATCCAAGCATATAACTTTAATTCAAATTGTTGTGTGGCTTCTACCTTGCCCGTCACCTGTGCACAGTGTGTAATTTTTGGAAAAAGTCAGGTGGATCGGGACTGTGCTAAGACCTCTGTCGACTTATTTAGATTTCCTAATAAGAGTGTTCTCACAACTTTTGTGCATTGCCATTGTTTAGGATTTGCCTGTATTATAAGGATATTTTTCCAGTTAGTATATCTGGAGATGGCTAATAATTTGTTTTGTTTCCTTTGATCTCTGTAAGAAGTTACATTTAGCAGTCCAGAGGAGTAGCATTTGCTTACCTCTTGAACTGGTAGTGTTTTGTATTCATACTGTTGTTTTCTTCCCATTGAAGACCTTATTTCGTTTCAAGATAGTATGCTGGTTAATGCTGGAATTTATGTAACCTTGCATTTCTTATATAGCTATATACTTTTTTAATCCTTAAAATGCTTTGAGAGAATTTTATTTTGGTATTAACTTATACTGTTTATAAGTAGAACAGATGTATTGGAGGCATTTTTTTTTAAGGAGTATTTCATCTTAAATAATGGTACATTCTGAAGCTGGTATAGAGAACCCGTGTTTAACTGTGTCTATACTTGGAAAATAAGTTTGTATTACACTTTATATTTTTTAAATGTGTGTAGTTTATTTGTTCTCTTTTTGAGATTAGATGAAATTTACACTGCTTTGTACTAGAGAGTTCCAATAAATAGCTCTTGTTTAGAAGATTTTGTAGAACAAGATGGTGCTCCTTATGGCATCCTTATGATACATGATTTGTAATTAATGTGTTCTGTAG
Seq C2 exon
GAAGTGAAATTGTCTGAGATACTGTCAGCTTCTGATGTCTGGAAAAAACAACATGATAGAATGGTAGAAGAAAAGACAATGTTAGCAGTTCAGACAGAAGACCTAAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006804:ENSGALT00000038838:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF048997=MbeD_MobD=PU(18.8=19.4)
A:
NA
C2:
PF048997=MbeD_MobD=FE(56.2=100)
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:
CTCTAGAGAAGAAAATAGCAGAGTGG
R:
TCTTTAGGTCTTCTGTCTGAACTGC
Band lengths:
294-1547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]