GgaINT0127348 @ galGal3
Intron Retention
Gene
ENSGALG00000001111 | DNAH9
Description
NA
Coordinates
chr18:1037878-1040077:+
Coord C1 exon
chr18:1037878-1038100
Coord A exon
chr18:1038101-1039910
Coord C2 exon
chr18:1039911-1040077
Length
1810 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TGTTTAAATTTTGCTTGCAGGAG
3' ss Score
8.86
Exon sequences
Seq C1 exon
CTTGACTGACCTTGAAGAGTTCATAAAAACTGCTGATGAAGGTCTGAGCAAAAAAGTTGAAAAAGGAGATTATGATGGCTTGGTGGAGATTATGGGTCATCTCATGGCCGTTAAAGAAAGGCAGAGTGTCACTGATGCCATGTTTGAGCCCCTGAAGCAAACCGTGGAGCTGCTGAAGGCGTATGAGCAACAGCTGCCCGAGGAAGTCCATAAGCAACTAGAG
Seq A exon
GTGAGTGAGAACACACAGATCTTCCAAACAGGAGCTGTCAAAGAGAATGTGACCTTAATAGCATTGCAAGAATATTTAAGACCCCACTCCCAGTCATTAGAGGGCCTCGTTGGGTAGTGTTCCTTCTATCATGGGATGTGCATTGATAGCTCTAAATTTTGGAGTTCTATTGAGATTTTCTTTTACAGCAGAGATTAAGCCTTTTGTTATGTATGAAAAACATAGAATTGCTTGCTCCAACCCTCAGCGATTACTTTTGAAAAAATTAATGCATTTTCAAATGCATCTGTTAATTAGGTTGAATTATAATTATTTTTAAATAAGCCAGTTCTTGGCAACTGTGGAGATGGGGAAGATAATGTTGGCAGAGGAGTTGCTTTCTCAAAGGACTTCAGTCCTCTTTTGGGTCTGTAAAACCAGATCTCCCTGACTCAGAGGATATCACAACAGGTTCTGAAAGTGTTCTGACACCTTTACTGGCTCTGATGAATCAGTTTTCTTTTGGGAATTTCTTTACCTTCAGTGAAGGGGACCATGAGATGAAGGTTAGAGGACATTGTGAGGTACCCAGCCAGCCTTGGGAGTAGGAAGAAATTCTTCTGTGGGTGCCCCATCCATGGAGGTGCCCAAGGCCATGGAGGGGCCCTGGGCAGCCTGAGCTGGTGCGGGGCAACCAACCCATGGCAGAAGTGGGGCCTGGGGGCCTCTAAGGTCACTTCCACCACAACCATGCTGTGATTCTATGATCCCGTCTTTTTACAGTGGAGAAGTGCATGGCTATGTGCCAATGGATACCCTGTGGTCACTGAGTGCTGTGTGCAGAACCCAAGGCTGAAAGTGGGGCCTTTCTTGGGGATTTCCTGTCTTCTGCACCTGTGTAGCAAAGACTCCCATTCTCTGATGCAGGCTTGAGTGGTAGCTGAGTGGGGTTTGGTAGTTCCCTGGATTCCTGCTTTTCCCTTCAGATGCAGGAGAGAACAAACTAATTGTACTCTTTCTGGCAACACGGAGTTGAATGGTTGAGTCACTGCCATATAGGGTGGGAAAACCAGGAAGAAGTTACTCTCAGTGCCTCTCTCTCCATGGCTGGGCTGGGCTGGAGCTGGTGATGAGGACAAGGAAGCAGCTCCATGTGTGCACTGAAAAAGCAGAGCCCTGGGATTCAGGGACAGCAGAGCCCTCGGCCAGTATCAGTATCTGGGCTGAGAATGTGGTCCAAAAAGCCTAGTGAGAAGAAATACATCCCCTTCAGAAGGAAATCCCAGGTACAGCAGGGGGGGTTGTCAGCAGCACTGTGTGCCTGCAGCTTGGCTGTAGACCTGAGGAAGGAACCAGACTTATTTAGCACCAATTTTATATACACAGGCTGGAGGGGTTTGCCCCAGAGTCCTGCTTCTTAATTAGCTCTGAAAATCCATCTGATCTGATGAGCTGGCACAGACAGCCCGTCCTCCTGCCTTCGGCTGCTCACAGCAGTCTCTGGGTCCCGCTGGGCTCAGTGTTAGCATCAGTGTTCTTCCTCAAGTATTGAGCCATCGTGGGAGCCCAGAATTTCAACGTGGGGCCCTTTTTAAATTACTGAAAATATTTTTGTGAGGAGAGCAGCTGGTTGTAAGGTGTCAGTCCTCAGTATTCTGCAAAACTCTTGTTGTATCCCAAACTGCACGTTTAGCTTTTATGTCATGGGAATATTTCCTTACAACTTACGCCGCAGATTCAATTGCTGTTCTGGGATTATCAATAAACAGATCAGATATGCCATCTATCGGGTTTCAAATACATCCTACCAGTGTTTAAATTTTGCTTGCAG
Seq C2 exon
GAGCTGCCAGAAAAATGGAACAATATAAAGAAGCAGGCGATAGCTGTGAAGCAGCATGTGGCTCCTCTGCAGGCAAACGAAATGGCAGCTCTGCGCAGGAGCTGTGCGGCCTTTGATGCTGAGCAGCACAGATTCAGAGAGAGGTTTCGGAAAGAAGCTCCGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001111:ENSGALT00000039398:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.018
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGATGAAGGTCTGAGCA
R:
GGAGCTTCTTTCCGAAACCTCT
Band lengths:
355-2165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]