RnoINT0057025 @ rn6
Intron Retention
Gene
ENSRNOG00000001589 | Evx2
Description
even-skipped homeobox 2 [Source:RGD Symbol;Acc:1305594]
Coordinates
chr3:61579964-61581598:-
Coord C1 exon
chr3:61581172-61581598
Coord A exon
chr3:61580242-61581171
Coord C2 exon
chr3:61579964-61580241
Length
930 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
GTGGATTGTTTGCTTGCTAGGGT
3' ss Score
5.57
Exon sequences
Seq C1 exon
ATGATGGAAAGAATAAGAAAAGAGATGATTCTGATGGAGAGAGGGCTCCATAGCCCTACTGCTGGCAAGAGGTTCTCCAATTTGTCCGATTCGTCTGGCAGTGCTGTGCTCGAGGCCCTGGAAAATTCGCAGCACCCGGCTCGCCTCAGTCCGCGCCTGCCGTCCGCCCCGCTGCACGGTGCTCTGGGAGACCTCCCCGCCAAGGGCAAATTCGAAATAGACACTTTGTTCAACCTGCAGCACCCGAGCAGCGAAAGCACCGTCTCCTCCGAAATCGCCTCCGCCACCGAGAGCCGCAAGAAGCCTAGTCATTATTCAGAGGCGGCCGCTGAGGCCGACATGAGCAGCGACGTGGAGGTGGGCTGCTCCGCACTGCGCTCCCCCAGCGGCCTGGGCGCCGCGCAGCTCAAGGAAAACAATGCCAAAG
Seq A exon
GTAACCGGGTAACCCACAGACTCCAGCCCCATCCTCCGGGCTCTCTCGCGGGCCTCCCCAGCCCTTTCCACGCCTTAGCTGCTCCGACTCTTAACTACGTGCTGCACAGAGCTGGCAGGGGCAGGGGAGGGACGCATGCTAGGAACCGATCCCTCTGGCTCTGCTCTTTGAGCTTCCCAGCACAACCCGGGCCTATGGAGCCTAAGAAACCAGGCCCACGCGCCCAGGCTCCTGCCTGAGTCCGAGCAAATGTTTCGCTTGCGGATCTAAGAGCTGGGGCGAAGCGACACAGGGCTAGCCTGCGTGGCTTATTTGCTTTTGGGGAAGGGTACCCTGGACAGGAGCTCTGAATTCTGGTGCTTCTGGAGCCCCCAGGGCCGGGTGGAGGGGTCATTTCTCTGGATAAGTCTGAGGCAGACAGTCTGGCCTCACACCTCTGCTCAACCGCTTAAGTCAGCGGGCAGAAAAGAGTTTGAAAAGTGGACAGTCCCCTTTACTGACTCGGGTTAGAGCTGCAGATGCTTTGATAGTCTTAAAATATTTTAAACCCAAAAAGCTGTCAAAGAAAGGTTGGAGGCCATAAAAAGAAAGAGCTGCCCTGTGGTTTCTAGACTATGTCAAATCCACAGCTTCTTAAACTGCTTCTGAAGTACGCATTCTTCCCTAGCAAAATTCCCTACCGAGTGGAAATTTTCTAATTATTGGAAAAAATACAACCTTTTCAAATTCTGTTTCTATTATTTGGTTAGGAAGGGCTCCCCAAACTTCATTGATTTCATTAACAGTAGCAATTTGTAAGCCTGACAGATCCCATCAATTTTGACAGCGACTTTCTTTCCCAAAGCCTCTTTTGCCACCAGCTAGCAAAAGCCAACTCTGGGTGCTCGGCCACTACAACTACTCATGCGCTGTGGATTGTTTGCTTGCTAG
Seq C2 exon
GGTACGCGGAGAGCGGCTCCGTCGCGGGCACCACGACGTCGGCCACCGGATCCGGCCTTGGCAGTCTGCATGGAGGCGGCGGCGGCAATAGCGGGGGTGCGGCGTTGGGCGGCTCTGGCTCCGGTTCCGGCGCCGATCAGGTGCGGCGATACCGTACCGCATTCACCCGCGAACAGATCGCGCGCCTGGAGAAGGAGTTCTACAGGGAGAACTATGTGTCTCGGCCCCGCCGTTGCGAGCTGGCCGCTGCACTCAACCTGCCCGAAACCACCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001589:ENSRNOT00000002156:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.755 A=NA C2=0.548
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(77.2=47.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATTATTCAGAGGCGGCCG
R:
GGGGCCGAGACACATAGTTCT
Band lengths:
348-1278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]