RnoINT0076931 @ rn6
Intron Retention
Gene
ENSRNOG00000014066 | Jade1
Description
jade family PHD finger 1 [Source:RGD Symbol;Acc:1306920]
Coordinates
chr2:128488904-128491088:+
Coord C1 exon
chr2:128488904-128489061
Coord A exon
chr2:128489062-128490900
Coord C2 exon
chr2:128490901-128491088
Length
1839 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
CTTGTTTTCTTACTAACCAGGGT
3' ss Score
7.77
Exon sequences
Seq C1 exon
GTGTTTAGGACGGACCTGATCACTGCCATGAAGCTGCATGACTCCTACCAGCTGAACCCGGATGAGTACTACGTGTTGGCTGATCCCTGGAGACAGGAATGGGAGAAGGGGGTCCAGGTGCCTGTGAGCCCAGGGACCATCCCACAGCCTGTGGCCAG
Seq A exon
GTAGGCACCTAAGGAGAGACAAGTGCTTCTCTACTCTCCTCTCTGCAGGCATAGAGGCTAAGGGGAGACAGTTCTTCAGTTAGCAGTGCAGTAACATGAGGCCTCACAAGAGGCAGAAATGTAGAAACAGCTCAGGCGCTAGGACGGTGAGTTAGAGGGCAGTGGCCTCTGAACTTAGCACATTATCACAGGGGGTGCTGCTCTCTTACTGGAGAATAGAAGGTCCAAGATGTTTTGGGGTGGGTGGGTGAAGTCTGATGTTACTGGCTGTTTCTCTCTGCAGTCTATGTCATTTCTCAGAGTGGCTTTGTGGGAGCCTTGGTGGCCTTGGTGCTTCCTGCAGTGGCTGATGGTATTTGAGGCGATGACAGGAACAGAGGAGACTGACAGTCGGACAATGTCAGATGAGGAGTTTGAGCTGTGGACAGGCTCTTTCCAGATGCTGGTGCTTCCTCTTGACCTCCTGCCGTGTCACTCACCTCTCCCAGCATGTCCTAGATGTTCCTTTGGGACAGGCTGTGTCGAATTGGTACCTTTTTTCCCACTCTTGCATATAGTGTGTCCTCTGAGAGCATGGAGTGCCTGAAATCTCTGCCTGGCTTTGCTGCCACAGGATCTGTCGGCTCCTTGCTGTGTGAGATAGCCTCTCTTTCCATGGACAAAGAAGGACTAATTCACCTCTTGGTCCTTAACTCTGTGTCTCCTTAGACACTTGATTGGTTTACTTACCATCATTTGGGATCTGTGTTCAGATTATAGTATACTATGGCTAGACAGGCATAGGTGAGCACTAGGAGTCACCTATTTCTTCAGACGAGGGTCCTGGTGTGAAGCAGGGATCAAGGGGCACAGGGTGGGTGGTGCGTATGGTCCCCTTTGACCAGCACCAGCAGGCTGTCAGTCTAGGAATCCTGTGTAGTGCCAAGTCAGCATGAAAATGCCCTGATAGATAGACTGGAGCCTTTCACTTGACACCTGTTCTTGCTCAAATATAGGAGGAATAAATCCCTTCAGTTTGCACATCTCTGTCACACAGATAAGTTCCTCCCGTCAATTCCAGGGTGATAAAACCTATAAACTCCGGACATCCTGTTGGTGAGAATGCATGTGGTGGAAAATAGATGTAGAAGGACTGTGGCCACAGAACCTGTAATGGCTGAGAAGAACCCTTGGCTCTGAGCCTGAGCTGTTTTGCGCCTTTTATGCTGTTCCTGGTCTGGCTAGGGTGAGGTGGAGTTCTCCAGTTGTTCACAGGTTGTAAGGTGTAGAGGAATTGTCTGGGGTCATATGTCCCTGGAGGAGCATGGGCTCTGGCTCTTAGAATACTTAGGAATGGCAACAACAGCCCAGTGTTCTCACTCAATCTTTTTGGAAGGCGAGAATTCAGAGGTGTCCCTTGTGGTCCTCAGTGTGCTGTGCACATCCAGCTTGTGGCTGTCCCTGAGAATTCAGTGCTTAGCAAGTTCTTTTCTATTCTGACAACTTCCAGGGGCAATGAGCAAACCCCAATAATGGAAAGAGATTTGGAAATCAACTCTTGCAGTACAGGGGTTTTTTTTTTTTTAAGTTTGGGAGCAGATCGTGTTGGAGACATGGTAGTGTGGTGGTGTGCTAGGGAGGAGATGGCTTTGGAAGACCCAGCATCTGCTTCCATTCTGAGTACTTTAAAAGACTTCTAGCTGGGGGTATTGTTGCCATTTGGTTTTTAGATCCTTAGACTGTATGAACATAGGGGTGATCTGGGCTTGAGGGTTGGAAGAGGAAGTTGCCCTTGGCCTCTGACAGTTTCTTGTATAGGGCAGAATGAGTAATCTGGCTACTTGTTTTCTTACTAACCAG
Seq C2 exon
GGTTGTGTCTGAAGAGAAATCACTCATGTTCATCAGGCCCAAGAAGTACATCGCGTCGTCAGGCTCCGAGCCCCCAGAGCTGGGCTATGTTGATATCCGGACACTGGCAGACAGTGTATGTCGGTATGACCTCAATGATATGGATGCTGCATGGCTGGAACTAACCAATGAAGAATTTAAGGAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014066:ENSRNOT00000018872:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.254 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF105134=EPL1=FE(35.1=100)
A:
NA
C2:
PF105134=EPL1=FE(42.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCTGATCACTGCCATGAA
R:
CCATCTCCTTAAATTCTTCATTGGT
Band lengths:
335-2174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]