DreINT0003299 @ danRer10
Intron Retention
Gene
ENSDARG00000019707 | C21H9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr21:3646998-3647914:+
Coord C1 exon
chr21:3646998-3647157
Coord A exon
chr21:3647158-3647824
Coord C2 exon
chr21:3647825-3647914
Length
667 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
AGGTTTTCTTAATGTTTCAGGAG
3' ss Score
7.9
Exon sequences
Seq C1 exon
GTCGTCTTTATACAGTGAGCGTGGCTCTGCCTGGATCAGTGATGGATAACGCTCAGTCTCCAGAGCTGCGGACGTATCTGGCTGGTCAGATCGCCCGAGCGTGTGCTGTTTTCTGTGTGGATGAGGTGGTCATTTTTGACGAGCTGGGAGAAGACGCAAA
Seq A exon
GTGAGCTGCTATTTTGACTTTGCTAAAGATTTGCTAAATCTGCTATTTACATTTTAGCTGCTATTTAGATTTTGGTTACATTTAATAATTGATTGTTTTTGTTTTTTGGTTAGACAGCAATGCTTCTTGACGAACCGTTTACTGATTTGCAAAACTTAATCCCCCGGTTTCACAAACTAGGTTTAAGGCTAGTCAAGATTAAATTGCATGTTTGAGCTGTCTCAACTCAAATAACTTGTGGAGAGATGTCTTAAATATGTCAGTGTCATTTTTGTTTTGTCTTCAGGTGCACACCAGTAATATTGTTTCAAGGCCATTTTTATAAATGTGTCTTAAATAGCCTAATTTAACTAAGGCCTTAAGGCTTAAACTAAGCCCTGTTTGTGAAACTGGGCCAATATGAACTAATTTAATTAAACAAATTTAATTCATTGTTAAATAAGAATTTGAATATATCAATAAAAGTTCTCCATCATGTATTTCTTTAACAAATGCTTCGTTTAAACTACATTTTATGTACAGCACTTGTGTGTATGGTAGCCATTGTGGTTGTTTGAAAGTGCTTTAGAAATAAAGTCCCAATGAGAAAAACCGTTCTGGAAAAAGGCAACAGAACTAATTCAGTCTAATGCAGTTCAAGCTTTAAAAGGTTTTCTTAATGTTTCAG
Seq C2 exon
GAGCGTTGAAGGAGAGTTTAAAGGTGTGGGTAAGAAAGGCCAGTCCTGTGTCCAGCTGGCACGCATCCTGCAGTACCTCGAGTGTCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019707:ENSDART00000146754:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=PU(82.8=88.9),PF0259812=Methyltrn_RNA_3=PU(0.1=0.0)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(12.1=100),PF0259812=Methyltrn_RNA_3=FE(6.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTCTTTATACAGTGAGCGTGG
R:
TGGACACTCGAGGTACTGCAG
Band lengths:
247-914
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]