RnoINT0076952 @ rn6
Intron Retention
Gene
ENSRNOG00000039837 | Jade3
Description
jade family PHD finger 3 [Source:MGI Symbol;Acc:MGI:2148019]
Coordinates
chrX:1929446-1935741:-
Coord C1 exon
chrX:1935530-1935741
Coord A exon
chrX:1929618-1935529
Coord C2 exon
chrX:1929446-1929617
Length
5912 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CTCCTCATGCCCACCTATAGGCT
3' ss Score
6.6
Exon sequences
Seq C1 exon
GTTATGGCCCAATTGATGAGACTCTTATGGAGAAGACAATAGAAGTTCTGGAACGCCACTGCCATGAAAATATGAACCATGCTATTGAGACAGTGGAAGGGCTAGGAATAGAATATGATGAAGATGTGATCTGTGATGTGTGCCGGTCTCCAGACAGTGAAGAAGGGAATGATATGGTATTCTGTGATAAATGTAACGTCTGTGTGCATCAG
Seq A exon
GTTAGTGCAAATGGAGAACACCCTCTCATACAAGATCAATATTAGTGTCAAAGTCAGAAGACAATGTTTAGGCATTGGCTCTTTTAGTATTGGGACTCAGGGATTCAACTCAGATTATGAGACTTGGCTCAAGTGCCCTTACCTAATCAACAATCAGATTTTTTTGTTATTTATTATTTCTAACACCCATATGTAAATGTCTTACATTTAAAGATGAAAAATAAAAATTAGGCTCTGCTTATAATTCCTAAGCTGCTTCACCTATCCCCAAGAAGCTAAACCTAGTAGGTCTTTATTGTCACAGGGCCCTCCCTATATACTATTTCCAGAAACCTAGGTCAACCCTACCTTTAGAGACCACAGGAGTCTGGAACTCTAAAGGACTGTCTTATGCTGTAGTTTTACAAACAATGTAAGTAAAAGTTAAAGTGACTTTACCCAAGTTATTTGACATTCTTTTTACTACATATTAATAATGACTAATAATGTCATATTAATAATAGTATTAGTGATGTCAGCATGCATTTCAACTCTCTTCCGTATCTGTGTTCTATCTCTGGTAAAACAAAGGTCACTTGATGTATAGTGATGAATATTGCTAAAACTATCCTGTCTCCATTTTATATCCATGTCTGAATTTAAAAATCTCTTCTGAGAGCTAGAGATGGTTCAGTTGATGAAATACTTGCTGCCAAAGCATGAGAACCTAAGTTCCCAAAATACAGTAGAGATCTGAAAGCAAGACCACACATCTGTAACCCCAGCTCTGCAGAGGCAGAGATAGGAGGCTCCCTGGTACTTGCTAGGCAGCCAGCCTAGCTAAATCAAGCTTCATGTCCATTGAGAGACCCTGACTCAGGAGAACCATTGAGGAAGATATTTAGTATTGACTTCTGACTTCCACACACATATACAAGCACCCATGTACATGTGAGTGTACCCATACACAATCTTTTCTTCTACCGCACATTATCACAATGCATATATCTTCCAAGTTGTAGTTCATGTTCATTCTTGATTTCTCCAACCTGTCTGAATATGTTGTATATTTTATTCATATTATGAATTTATTTAAAAAATACTGTATACACACTAAACACCATCCATGAGTCAGGGCTGTGCTGCATTATGGTGACACAGTAATGAAGAACCAGATATGCTTTCTGCCCCTCCTCCAGGTAGACCATGGCATAATGACTAAAAAGAAACAGTCAGTTTACCATAGTGTCCCAGAACTTATAAATCTATGCTGCTGTGGTAATACATGGAAGAGATAAAGGTCAAAAACAACTTTCAGCAAGTAAAATTCACTCTGAATCTTAATGTTTCATGTCAGTATATCCAGAAAGGTCTGTTCAGACTATGTTAATGGCAAGTAGTCAAGAGTGGGCAAAATCTGTTAGAAGCATGCATCTCTGTATTTTAAGAATGAAGGAATAGATGGGGAAATGAAAGGAAGCCAGGGGTAGGAAAAAAGGCACACATAACAAACTGATTTGTTTTTTTCTGATTTATTCCATGAACTCTAAAAAGATACTTGTATTCTAGAAAGATCATTTTGATCAAAGTTAATAGAATAATGAGCCTACATAACATAGGAGATAGAAAACAACCAAGACTTAAGACTTCTCTGGGCCACCTAACCTTAACCTTTTCTATTGTAGGAAGAACTCAAAAGTTTTTTGTCACCAATTACCTTAATCATTGTTCTGTTGTTTTGAAGACACCATGACCAAGGCAACTCTTATGAAAGAAAGCATTAATTGCTTGCAGTTTCAAAGCTTTATTCTTATTATCATCATGGCAGGGAGCACGGTGACAATGTAGGCAGTCATTTGAGCAGTAGATATGAGTGGTATCCTGAGAGAGAGACAGACAGACAGACAGACACACACACACACACACACACACACACACACACTGAGTTTAGCATGGGCTTTTGAAACCTCAAAGCCCACTCCAGTGGCATGTTTCCTCCAACAAGGCCCACTTCTAGTTTTTTATCCTTTTTTTATTCATTCATTTATTTATTCACTAATTTATTTATTCAATTTAGTTATTTAATCACAGTCCCCTCCCTTCTGTCCTCCCAGTCCCACCCTCCCACTCTCATGTCCCCCTGTCATGTCCCTCCCCCTACAACCCCCACTATACCAATATACCCTGGCATATCAAGTCTCACTCAGCAGGACTAAGTGCATCTTCTTCCGCTGAGGCTAGACAAGGCAACCCAGCTAGGGGAAAGGGACCCAAAGGCAGGCAAGAGTTTGAGTCAGAGATGGCCCCCACTACAATTGTTTGGGTACCCACATAAAGACCAAGCTGCACATCTGCTACATTTAAACTACCATACCAATTTATCCTTTTTCTTCATTTAGTTGTATCTTTAAAATAGTGAATTTGGGGGGTTGGGGATTTAGCTCAGTGGTAGAGTGCTTGCCTAGCAAGCACAAGGCCCTGGTTCAGTCCCCAGCTCCAAAAAAAAAAAAAAAGAAAAGAAAAGAAAAGAAAAAAAGAAAAATAGTGAATTTGGAAATTTTATCTTCATTGTATCAATTATTGGCATTGTAATATGTTTTCAGTAGAAGTAAAAGTCTTTTATGACTTAACTATGAATGTAAAGTATTGGATAATACACACCCATAAGTCCTCTCATACAATTAATTCCAAAATTAAAACTTTCTGATGATTTCCCTTTTATCAGAAATTCTGAACTAGAACTAATTTGGAAACAATACCAAAACTTAACTAATATGAGCTTGTTTATAGTCTTTACCCATTTTATTCAAATACTAATATTTTTATAGAAATACTAACATATATGGTATTATCCCAGGTTCCATTGAGATTATATAATAACTTTCCTAAGATCTAAACAGTTTTGGATTTCATAATGTCTCTTACTAAAGAGGTTATAAATAATGATTCAATCTATGGTAGACTTGAAGGAAATAAGACAAAGGTCATCTTTATATATTTTCTATGTTTGTTTTTTACAATTAGAGGAAAATATTAAAGAATTATTTTCAGGTTCTTTGACCTAACTTCAACATACTAATCCCTACCCCCAAATTGGGGTATTTGTTTTAGAAATTCGTTTTAGTGACCAGGTCACTATAAATGATACCCCTCTCACACATTGGCAGTAGCATTTGACTGGGCCTTGCAGACTATAAACTGATATATGTGGATTTTAGAAATTTGTTACAATATGAAATTTCATTAAAAGAGCTTCTTCTAAGCTGGGCATGGCAGTACACTTGAGGCAGGAGATTGGTGAGTTTGAAGGACCAATCTGGAATGGACATATCTGTCTCAGAAAAAAAAAATCCTTGAAAAATACTTGAAATTCTTATATAGTGGATGTAATTTGGATCATAAATAACTATACTTAGGTTAGAGCTCCCTCTATTGACTGTAAAGTCACTTAAATTATAATTTAAAATACTTGTTTACTCTCTGAAAGAATAGTGGCATATTGGCATCCGGATTGGTTAAATATAATTAAATATAATACTTTTTTTTACTCCACTACATCATGTTCATTGTTCTTTAGTGACAATTATACATTCATACTTTAGAAGTGTGTATCACTAGACTTTAGATATTAACATCATTCAACTTTTTTTCTTTAAAACTACGTGAAAGTTAAAACCATGTCAAATCCTTTTTGTATGCATATCCATAGTCTACTTCTTTGTACATATGTTGAATACTTAGATTGATATTAGATTGAATTTGGATAAGTGTACATACTCTTACAGTTTTTATATTTGTCATGAATATTGTTGACATGACACTGAGTCTGGCATCCTGAAATTATGCTTAAAATGTATTAGCATACACGTGCTCTTTTCTCAACTGAAGTCACAACCTTTATCATTTATGATCCATATAGAGTTGAGACTCACTATGACATAAAAGCTTTTATGATCTTATGATGGTTATTTCTATAAAGATACTCCCTCTGTAAATTATTCTGTGCTCTGTAGAAGGACCAGCAGCACTCTTCAAACCAACCACTAGCTCTAAACTGGCTCTAATTTGGGAAGGAATTTTTTTGTCATTACCTTGCAACATTTTAGATCTTAGAGAAAAAGAGGGTTTCAAAAATAGGAACTTTATAAAATGATGCCCTGCTCATATGCGAGCAGCCTAGTTGAAGTCTAGCCTACCTGGAAGTCTAGCTTAGGCTCTTGAGCCATATTATTAATAATTTGTTCTCATAACACACCTACACAAACCAAGCAAGGGGGGGAGCATTTGTTGAAATCTGTGCCTAATGACCTTCCATTCTCACTGAGGTTATGAAGCATAAGAACAAATTAGGGGAGTTGATAAGGGAAATCATATGAAGTAGAAGATGGGAGTCAAGCAGTAGTAGGGCAGATAAAAAAGGCCACCATAACCTGAGTGGAATTTTGGAGTAGGGGCTAGAGTTTAATTCAGGTGTGGAAGGCAAGGTCTTAACTGTACAAAAGGAAGTTGATCTTATAGACTAGGGAAACCTCCTAGCAAGACACATGGATATGAGAACTAAAGTGGACAGTAATGTAGAAAACTGAGAGACCTGCCTATATAAATTAGATCCCGTGTGTTTAACTCTGGTGGGAGGTGAGAAGAAATAATAAGGTATAAGGAAAACTTCAGATCAGAGACCAGCAAACCTTTGCTTTAAAGTATCAGAAATACTTTAGACTTTGCCTATAGTCTCTATTGTGTATTTTCCCTTCCCCCCTTTCATCTTAGAACTCTTAAAAATGTGGGGAAAAAAACATTCTCAATTTGTTAGTCTTATAAAACAAGTCTTAAGCAGTAGCTTGTTAACACCAGTTTAGATGATGGTGGGCAAATGAGATAAGACCAGGAAAAATCCCTGGGGGATCTGCTTCTGTGCTTGATTTGACTGAGAAGAATCTGATAACTAAATAAAGGAAGGATGAAAGCTGTGAAGAATGAATAAACAAATTTAGAAATAAATTTATCCTAGAATAGTGTGACAAGGAGTTGGATAGAGCAGTAGTGGTGAGGATGGGGATAGAAAGGGAGTTCTATCTATCCTCTGGGACTCAGTGTAAGACTCACCTAGAGCCAGTGGATGAAGGTAAGTAAGTAAAAGTCCAGGGACTTGGTCTGGAAGATAAAAAAGGAAAGAAAGATTAGAAATGGATGCTTATGACTCTTAGTGAGTCTCATCTAAGTGTGAATCTCTTCTAACCCACAAAAATTTTGAAGCTGCTAGGTTGAATAAGTTGGTGCTGTAGGGTATATTTAGCCATGTGAGGAACCTAAAGGCAACTAGGTTTCCACTAAAATAGAGTGGAGCCATAAAGAGGGTCAAATGGACAAAATTGAAGATGGGGCAGTCTAGAATAATTCCTAAGTAATCTTCCATCTCTGTGAGTTATCATTTATTTTCCAGTATCATTCAATAAAGAATTGAAAAGGCTCCTAGAATTCATTGTGGATTATTGTAATTCAGTTCACAAGCCCAAGCAAATAATTTCTGTAATTTGCTGAATATTTTTATGCACCAGGTACTACTAGACTATTTATAAACATTAGCTTATTTCACTTTTTTAATCACAATAGTACATGACATGTTGAAAATATTCCATATTGCTTGGAAGCTGTTATATAAACACTGAAAACAGTTTGGAATACAGGAAAAGGATTATTTCAACAATTTTTTTAAATGTCTGTAATCCAACTCTCAGCAGTTGAACTAATCTTGATGTGAATTACCACATAGACTTTTTCTATCTTCATTAAAGTTATTTCTCATAGGTACACATGCTATTCTTAGTTCAGATGATGCTACAAGCTTGGTTTTAGCATTTAAAAATTACTAAATCCTGGATATGAATTTATTCAGCTCTGTGTGCATATCTCCTCCTCATGCCCACCTATAG
Seq C2 exon
GCTTGCTATGGCATCCTCAAGATTCCAGAAGGCAGTTGGCTGTGCCGCTCCTGTGTCCTCGGAATTTATCCACAGTGCGTCTTATGTCCTAAGAAAGGTGGAGCCATGAAGACCACCAGGACAGGGACTAAATGGGCTCATGTCAGCTGTGCCCTGTGGATTCCAGAAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039837:ENSRNOT00000061140:3
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:
PF105134=EPL1=PD(13.7=26.8),PF0013017=C1_1=PU(71.4=49.3),PF138311=PHD_2=PU(42.9=21.1)
A:
NA
C2:
PF0013017=C1_1=PD(24.5=20.7),PF138311=PHD_2=PD(51.4=31.0),PF138321=zf-HC5HC2H_2=PU(29.8=58.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]