RnoINT0082232 @ rn6
Intron Retention
Gene
ENSRNOG00000020774 | LOC103690163
Description
zinc finger protein 420 [Source:RGD Symbol;Acc:9421075]
Coordinates
chr1:87790104-87792314:+
Coord C1 exon
chr1:87790104-87790430
Coord A exon
chr1:87790431-87792249
Coord C2 exon
chr1:87792250-87792314
Length
1819 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
CACGACTCTTTGTTCCCCAGCTC
3' ss Score
7.12
Exon sequences
Seq C1 exon
ACCTACTCCAAAAAACATACAGTGATTCGGTGAGATTGGCCCCTAATGATGCAAGGGGCTCGTGCCCAGGGTGTCTGCCCTACGTATTGTGAGAGTTTCGATCCCAGTTTGTATCTCTGTCTAGGAATTTTCCGCACAAAATTCCAAATGCGGAGCCAGATCCTCGGCCTGCCTCAGGCCGTGCCCTGGCGGGAAATCCAACAATGGTTGCCATTTTCCCCGCCAGTTCCCATCGCAGACTACATTTCCCAGAAGCGCCCGCAATTTCTAGGCAGCCCCTTCTTTTGCCTGCGGGACCCTCATCGTCCGGGGACAGGAAAGTGTACG
Seq A exon
GTGAGCGTCCTAGGCCCTTTTTAAGGCTCCAAAGGTGCGGCCCTGGGGTCTGAAGGGAAAGACCAGTCAGTATCTGAGATGTCAGGTCAGTGGGAGCTAGTCTAGCCGGGTGAGCAGCAGTAAGGCTGTGGCTGTGTGTAAATGTGACCTTAAGTGACCCTAGGACTCCGTGAGTGCGTGGCTATGATTTTTTAGGGTTCTCTGGTGGGTGTGTCAATGACCTGTGAACATGCGCAGAGCTGTGTGTGTACGTATGCCCATTTTCTTTATTAGTATGTGGTTAATAACTTTGTGGCAGTACGGGTAAGTGCGATTGAGTCCCCGTGTGTTTGGACCTATTGCGTATAACAGTATAACTCTTGTGTATGAGAGATATATCAGGTAATCAGTAATTACGCTTACTGTTAATCTGAGAGGGGCAGTGTGTATGTTTGTATACTATGTGTACTGGGTGCCTGTAACTGAGGCTGTTTGAGTGTGATTATGTAACTTTATGTGGTACAATGAGCCTGGTTGAATGTAGCTGGTCTTTGCTACTTTGTGGGTTCCTCCCCCCACAAATAGATGGGGGGCGGGGGGCGCGGAGGGGAGGTCCTTGTATGTAATTTATTTCTTCTTGTTTCTTCTCTGAGCAACGACTAAGAAACCGTAACCAGATCCTTTGAACAACCAACAATCATCAATCCTGCTTGTCTGGACCCTAGCATTTATGTACCCTTTGAAAAGTTCTCAGAATTTTAAATGTCACACAATTGCAGGAACTATTTACAGCTGGCAAAACCGTGCCTTTGCTTGAGCAGGAGGTCAATCAGCTGCTTTGAGTACTTTGAGTAGCCCAGGATCCGCACACCTGGCATTAAAACAAAAACATACTCTTAGACTATTTCTATGGTTTTTGTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGGGATTGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTCTATGGTTTTTTTTTAAAAGATTTATTTATTATATATCTGTACGCTGTAGCTGTCTTCAGACACGCCAGAATTGGACATCAGATCTCATTACAGATGGCTGTGAGCCACCATGTGGTTGCTGAGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTACCCTTAACCATTGAGCCATCTCACCAGCCTTACTTCTGTGTATTTTAATGAAACCAAAATTTCAGAATTCTCACTATCATCGGAGGATGCATGTGAATGTCAAGCCGACAGTGTTTCTGTCTTAGCGACTGTTCTGTTCTGTTGAACGTGTGTAGTGTGTAATTCCAGGAGGACAAACGAGGTGATTTTGACTGTTGCGTGGCTCCGCAGTGAGTGTGCTGTTGTGGCCATTTGTAGCACAGTGGTTTGATGTGGTGTTGGATCCAAGGGTTCTATAAATGTGGATGTGGTTGCAGGATGGATGTGTGACTGTGAGTGTGCAACCATACATTATGCTATTGTTTGGGTAGAGCGTGCTTGTGGGAATCAATGTGGTTGCATGGTGGGTGATGGACAGCAGCTGTGGGTTTGTAGATTTGGCGTGCCTCTGACAGCCCGGGTGACTCCAGTTTTCTGTCCTAAGAGACCCCAGTGAGATGAGAACAGATTCCAGTATTGGACATAGGCTTCATTCCTTCTCTTGACTCTAGACATTATCATGACAACCTAGACTTCTCCCTGGGTGACAGGTATGATTCTAGGTGGCCCTTTATTAAAAAGGCTTAGGACTTCACGACTCTTTGTTCCCCAG
Seq C2 exon
CTCTGCCCCTCCAGAGGTACCCAGTGGAGAGAGGAGGAATGGCTGCGGACCATGCCAAACATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020774:ENSRNOT00000074580:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.091
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGTGAGATTGGCCCCTAAT
R:
GCCATTCCTCCTCTCTCCACT
Band lengths:
344-2163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]