RnoINT0090105 @ rn6
Intron Retention
Gene
ENSRNOG00000027596 | Mbd5
Description
methyl-CpG binding domain protein 5 [Source:RGD Symbol;Acc:1562961]
Coordinates
chr3:33440191-33444248:+
Coord C1 exon
chr3:33440191-33440496
Coord A exon
chr3:33440497-33444145
Coord C2 exon
chr3:33444146-33444248
Length
3649 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTTCTAAACTGTCTTACAGCCC
3' ss Score
8.88
Exon sequences
Seq C1 exon
ATAATGGGAAACACTTTCACAATGGCTGATTTCAAGGACTTGGTTCCAAACTGAGCCGAACTTTCCCGATGTACTTCGTAGTCCGGGAAAACTGTGCTATGCTGGCCCAGTTTTGAAAGGCCACCATGCTCGGTAATAGAAGGATATCATCTTATTGCTGATATCTTTGGAGCACCCCAAGCAGACACAGAAAATGAATGGAGGCAAAGAGTGTGACGGAGGAGACAAGGAAGGCGGTCTTCCGGCTATCCAGGTTCCCGTGGGTTGGCAGCGTCGTGTGGACCATAATGGCGTGCTTTACATCAG
Seq A exon
GTGAGCTCTCATTATCTCTTACCTCCAAGTGTGCAGTTTCAAGATGAAGGCAGTAAAAGACGATCCTCTGTAAGGGAACAAAAGGTTTTGACTGACAGCACCTAACATAGACGAATAAATGACCTCTGTGCTAGAAATACACAAGAATTTTTCCTCTGTGCTCTTTAGCAACGTAAATTTCCTTAGATTATTGAAGAGAATCTTTATGTATTACTTTTGTCTATGTGAAGTTATCTTTCTGCTTCTCTGTAATAATGATAAAGAAAATGCAAAGCTTTCTAAAAGGAATCTAAACAAGAATACTATATTCACAGGAGAATGTAAAATACTGGAAATAGACCCAACATCTCATTTTAAAAGTCATCCTGCTACAGAATACTCCATCTAGCCTTTCTGAAGCTAATTAGCAATTTTCATTGTTAGACCTTTTAGCTTAAAGTAACTTTTACCTTTTCTGTAAGATTTTTAATCATTTTTCTTACTGTAATAGCAAAAACAAAGTCATGATGCTCATGTTTTTGGCAAGCATATAAATGCATGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAACGAGAAGAAAATGAATGGAATAAATTGTCTGGCTGTTAATAAAGTTTTAGCTCCCTACCTAGGAATGGTGACCCACTTCTTTAACCCTAGTGTTTGGGAAGGAGAGGCAGGTGAACTCTCTGTGAGTTCAAGACTACCTTGGTCTACATAGCAAGTTCTAGACCATCCAGGGCTACACAATGAGTCCAATTCTTAAAAAAAAAAAAATTAGCCTTCTTTATTTAGCTGTTGATGCCTAAATTTATTTATAGTTTTTTAATAAGTAATGACAGATTGGATATATACATTTTTGTGATACACTTCAAAATGGAAATATTTACAAGATACAGCACATAGTGGTGATATGGGTTTCAGTGTGGCTTTTGTAACCTAACTTCAACAGAATTCTTCAGTTCTACAAAGATATATATATTTGGTGGGCATTATGGTGCATGCCTATAATCTTAAAATTTATGATATAGAGGTAGGAAGACTAGGGCGTTAGAACAGGCTTTGGCTACACAGTGAGTTAAATCAGTCGGGGATACCAGAAACCCTATCCTTACAAAGACAAAGTAAAAACCAAAAATATACGAATGCAATATTCTTTGAATGAATGAGATATTCTTTGATATATAAATATTAAAAAATCATATGCCATAACTCAAGAAGGCAGTTTAGATATGGATTTGTTTGGTTTGGGTAAGAAGTTTCTTGAGATAAACTTAATTCCAATTGAAATTTCTTTGTCGGATATATTTCTTTTTTTTTCTGTACTTTTAAAGGTGTTCCCTGTTCATTTACTGAAAGGAATAAAAAAAAGTAGGGAATGTGTAGTCTAGCCCATGAAAATAAGATACACAAACACTCATGATTAATTTCCTCAAAGTATTCCTACTATCACCATTGTTCATAGATTGCCAGAAATATCTTATTACTAATACAACACTGCACATTATCAGAGACATGTTTGTATTCATGTTGTTCAAGATCTATAAAGAAAAAAAATTACATACAACCTGGACCAAGTGATTCAAAGTCTTGATAACTATTATGAAATCAACTTTTCACATCACTTTGACCAAAAGTCAGGTTAAGTCTAGGAGTAAAAAAGAAACAAATTGAAGTCTAAGAATTCACAGTGACCTTGTGCATGAGTTTCCAAATCTCCCTAGTCTTGAATGTCTGATAATCCTCTCAGTATAATGTCTTCAAATCAAATCTGAACACCAAGAATTCTTAGAGAACTTTCCAGATAAGGTAAATGTTTTCCAGTTAAATCAAGCCAACATGGATCTGATCTGTTTGGCTGATGCCAGTTAAATCACTGCTGGAACGTTAGTGGGAAGTTAGCCCACCTTCTGCTGCTCCCGTCCACACACAGCTGCCTGCACACACCTGCTGCCTGCACACAGCCCTGCACGCACAGCTGCCTGCACACAGCCCTGCACACAGCTGCCTGCACACAGTCCTGCACACAGCCCTGCACACAGCTGCTGCCTGCACACAGTCCTGCACACAGCCCTGCACACAGCTGCTGCCTGCACACAGTCCTGCACACAGCCCTGCACACACCTGCTGCCTGCACACAGTCCTGCACACAGCCCTGCACACAGCTGCTGCCTGCACACAGCCCTGCACACAGCTGCTGCCTGCACACAGCCCTGCACACAGCTGCTGCCTGCACACAGCCCTGCACACAGCTGCTGCCTGCACACAGCCCTGCACACAGTCCTGCACACAGTCCTGCACACACAGCTGCCTGCACACAGTCCTGCACACAGTCCTGCACACAGTCCTGCACACAGCTGCTGCCTGCACACACCTGCTGCCTGCACACAGTCCTGCACACAGCCCTGCACACAGCCCTGCATACAGCCCTGCACACAGCCCTGCACACAGTCCTGCACATAGTCCTGCACACACAGCTGCCTGCACACAGCTCATCTCTGGATTAGTTTCCAGCCTTTCCTGCCTCGTGGCACAGAGGCTTCATGTTAGTTAAGCTTGCCACCTGTTTCCGATCCTTTAAGTGTTATCTGTGATTCAAGACATAACTATTTTTACATTAATTATTACTACCAAAAGTTAATTAAAGAGCTACAACTGAAGAAAAAAGACTGAACTGAGTGTTAGGGAAGTATTTTTAAAGTGTCTGGAGTATTCTTAATAGACTTTAGGAATTCTTCACTTTAGGCTAAATTTTACAATTAATTCTCTCTAGGTTGCCATCCATACACTTTGTTTTAAGTAAAATATTGAGCGGTTTCTTTGTATTCAACATACTAATTCTTCATGAGAGAAAAACAATATCTTTTAGTTACATTGTTTATCAAAATTATCAGACCTATAAAGGCATCTGTGCCTCTGTCTGCTACAGTGAAATTCCAGTCTACAATGTGAAATTATTATTTTTTCTTGTCATCTAAAACACCCTAAATAGGTCACTTAAGATGGAGAATTTTTTTAGGCTTTTTCTTTGTGCCAAAGTAACTTGTATAATTTTTTATGAACACAACATAAAGTTGCCTCTTAACATAGCCCATTTCAAGTACTGTTTCAGTGGAGGCAGAATAGACTCTATCCAGGAGTGATGGTTTGCATGCTGCCATTTCCCTTTTTCCTCAGCCAGCCTAAAGCAGATCTCATGGTTCAAATGAAAAACATTACCTTTGCATCTTTTTCCTCTTCCTTTCTTACTTGTTAATGCCCTTTCCTAAGTATAGGAGTTTCCCTTTAATCCAACCCAAGGTTTACAAAATACATTGTCTCATTTTCTATGAAAATATGTATTTTCCTGAAAAATATTTCAGTTACAAAGAAAGAAACAGTGTTAACATCTGTAATTTAGTAGCTAACATAATATTGGAAATAAAATAACTTTCTATACTAGGAAAATACTATCTTATAAAGGACCAATAAGTCTATCGATTTTACTTTCTTTAAAAAAAAGCATATACATTTTTCTTTAAAAAGCATGTGCACTCATGTATGTAGTCAGATTGTTTGCTGATGTTTTTCTAAACTGTCTTACAG
Seq C2 exon
CCCCAGTGGGTCTCTGTTATCTTGCTTGGACCAGGTTAAGACATACCTGCTTACTGATGGAACATGCAAGTGTGGCTTGGAGTGTCCTCTTATTCTTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027596:ENSRNOT00000034632:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.158 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]