DreINT0003302 @ danRer10
Intron Retention
Gene
ENSDARG00000019707 | C21H9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:HGNC:26933]
Coordinates
chr21:3650332-3651979:+
Coord C1 exon
chr21:3650332-3650462
Coord A exon
chr21:3650463-3651906
Coord C2 exon
chr21:3651907-3651979
Length
1444 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GCTCTTTGCTGTGTTCACAGGAA
3' ss Score
8
Exon sequences
Seq C1 exon
GTCTGTTGAATCCTCTGGACAGCCCTCATCACATGCGCATTGATGAAGAGGCGGAGTTTCGAGAGGGCGTGGTTCTTGATCGGCCAGTCAAAGCAGGAAAAGGCTCCTTTGTCAACTGCGGCATGAGGAAG
Seq A exon
GTGTGTGTTTGCATTTATCCTGCTTTGTGTGTTTAGAAAATTGTGTTAATTGTAAATTTGAATTATTGTAATTGTATTTTTAATTGTAGTTTAATGTAAATGTAATTAGTTTCAAGTAAATTCTAACAGAATGGATTTTTTATTTATTTTTTTTAATAGCAGTGAACATGACGATTATAATTAATAATGACAACAAAAGTATATATTTTTATTTATAATGTTTTTTTTGTATTTATGGGGAATTCATTGTGTCTTGAGGAATTTCTGATGAATGTATACTCTCATTTATATGCTTATTTAAGCGATTTCAGTATTATTATTATTATTATTATTATCATCTATTGTAGTATCACCCATACCTTTGACATTATTATCAGGTATGTGTGCTTTGTTATATAAAAAAGTCACCCTGTGTAAATGCAGTCAGAGATGAGAGTGGATAGATAGAGGGTTGATTTATGGAAGCAAGGCCATAAGGACACCTGCGTTCTGTTCTGTAACTCATGATAAGGCACACCTGCACGTGCGCCCACACTCATTTGTAATGACTTATAAAAAGTATAAGTACCCGTGAACTTCAGCTGAACATACAGCTGACAGCTCAGTGGACAGTGAACAAGATATATTGTTGAGCGTTATTACTTTTGAAACAGGAAGAAAAGACCTTGGCTGCGTCCGAAACCGCCTACTACTCAGTAGGTACTGTATTTTAATTTAAACGTACTACTCGGCGGTTAGAAAAATACGTTGTATAATGTGAAATGTATGAATGTAATTCGGACGTACTACATCTGCCATTTTGTCATGGTCACGTGACCTACCTGCGTCAGTTGCGTCGCTTCACTTCCACATATGAATTCTCACGCAGGGCATTATGGGATAGCGCAGCGTGCATGGGATGCGCACTCCAGAATCTCGCCGGAAGTAGTAAGTCATCCGGGTACTTCTCGCAAACTGATTTTCGAATTCTATGAATTCAGACATACTACTCTGCTCGCATACTGATTTTAGTGTACTATATAGTATGGAAGTATGCAGTTTCGGACGCAGCCCTTAACTGGACATAGGTAGAGGACCCCTGAAAGACCCTGAGATTCTATTGGTGGAGGACACCTGAGAGATTTGAGATCCTAACAGTGGAGAAGCTAAGGGAGATGTGTAATGTGTAAATTTGGGTGGAGTATTAAGACAAAGAAGTGTATTTAAACTGTGTGCTAGCCTATACTCATCAGACACTCGAACGACCTGTCTCTGCTGTTACTAATGCTGTAACAATAAACTGCTTTGCCTGAAGACTTAGGAGATCTTAGACTTTGCCATTTTTTTTTTGAGAACTTAGAATATTTTGCAGACCAGAATCTTTTTTCCACAATCTTTTTTTTCTTTTTTCCTTGAATTCTTTGCTGCACAAGAAATGACCTCAGGCTCTTTGCTGTGTTCACAG
Seq C2 exon
GAAGTTCAGATCGATAAACAGCTGAAAACGGGACTGAGAGTGACCGTACAGCTCAACGAGAGCCAAAACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019707:ENSDART00000146754:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(14.7=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(20.9=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:
TTGAATCCTCTGGACAGCCCT
R:
CTTTGTTTTGGCTCTCGTTGAG
Band lengths:
199-1643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]