RnoINT0117093 @ rn6
Intron Retention
Gene
ENSRNOG00000023679 | Prdm5
Description
PR/SET domain 5 [Source:RGD Symbol;Acc:1588700]
Coordinates
chr4:96736381-96739957:+
Coord C1 exon
chr4:96736381-96736502
Coord A exon
chr4:96736503-96739877
Coord C2 exon
chr4:96739878-96739957
Length
3375 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
GTCTTTCATCCCTGTCCTAGGTG
3' ss Score
10.17
Exon sequences
Seq C1 exon
TTTTGAGCAGCACCAGAAGGCTTGCCGAGGGGATGCCAGGTTTGTGTGCAAGGTCGACAGCTGTGGGAAGAGGCTGAAAAGCAAGGATGCCCTGAAAAGGCACCGGGAAAATGTCCACACTG
Seq A exon
GTGAGGAGGCGTTGCATAGTCCTTACTAATCCGCCCTGTCCCCAGGCCTCGGATCTGCTTCTAATTCTCTTTTGTGAGGAGGGGGCTGACTTCCATTGTGCGCCACACAGACGCACATCTTACCTGTGAACTTAACACTAAGTTTGCAAGTTGATTTCAGCAGCAGTTATCATTTTCCCCATGTCTGAATTAATCATTACTGTAAACCAGACTCACAATTAGCTGTACTTGTCACTCAGGCATATTCTTCCTTCATTTTGCTGTTTTAGTCTATAAACTTGATTTTTCAGACACTGTTGAAACTGATCATTTGTAGGTATACTTAGAAATTTTTACAAGGACATTCAGTGCCTTTTGTGCTTGCCTTTCTTCTGTACTGGAGAAGATTCCTAAATATTTTTTGCCATGGAGCTGAAAATACTTGACTTTTGAGCAGATGATTTCCTTAATTCCTTGTAACCCCTGGCTAAACAATAAAACAAACATAGTATTTGCTTCTCACCTGGGATTTTGTCTTTCATACTTCCTTGTCCATCAGTGAATATATTTTGGGTTGTGGTACCTTTTGAACTGTGGGGCCTTTTCTTTGCTGTCTGTTTGGCAAGAGAGTTGAGACTTAAGGAAGCTTTCATGTCCTTCTAAGCATGTCTTTTCTCATGCATTTGCTTTTACCCTTCCCTTCTGGGAAGTGAAGAGAAAGGTACCTTTACATAGGCAGGGAACTCTTTTCTTCCTTCTCGGTTCATTCTCACAGTTAGGTGAAAAGAGTTACTGATACCTGGCATCAGGACCTCTGCTGTCTGAAAAAAACTGACTTCAATAATAAGGTGACAGAGGTTATCATGAGTGTGACCGCAGGCCTCACTTCCTCCCTGTCGGAGCCTGCACACTATGAGCCATGATCAACACTCTAGTGGCAGAAGGTGAAGCTTTGTAAGCTAACCTTCAGGGGGTGCCAATCATCGAGGCTTCCCAGCATTGTTTTGTGGCTTTCTTTTTGAAGAACATATGGCTGGTATATGGAAAATGACTTCCCCTGCTGAATTTAAAATGTACTGGTGCTTTTCATATGATGGCAGAAGCAGGCATAACTTTTTGATAGATTTGCTTTCGTAGGTTTTTATTTTTTTTTAAATGCTTTTTTGGTTAAAAATGCTGTTCTTAATTTTCTCCGTCTTTGTCTGCAACGTATTTTAACCAAACTTTTATGTCAGTTTTAAAGTCAACTTTGCTGAACTAAGTAAAAAGCCAGATGGATGCTACAACTCTGGAAACTTTTCCGTCCTCATCACTAGACATATGGTCTTCCTGCTGTGCTTATAAGTGTAGTTTTTGAGTCTTATTGTAATTGGCCTTGGGTTGCTTACTATTGCAGCTTTGGGCATTCGTGGTGATTCTGCAGGAAACAAGTCATTATCCCAAGATGCAGGTTGTGATAAGATGTGAACGCTGCTGTATTTTAGCAGAGGTCTCCGTGCACACCTCTCAGTTGGTCTGGCTCGTGGTATCATTTTCTAATCCATAGGCTCTCTTATGCTCCCTTTCTCCTCTACAGTAGGGATGATGGGAAGAGATACTAGGGCCAGGAGAGCAGCACTGAGTTATGGACGAGGACTCTGTATCCAACACAAAGGTGCTGAAGGAGCTTGGAAACCAAGTTATTTCTATACTGATTGATGAGGAAGGATGTCAGTTAGGTGATCTGATCTGTAGGAGGTAAAGGAAGGGAAGCTGAATATTTAAACTGAGTCAAACTCCTTTTTTTGGTGTGGAAACAATAGCATATGGTGGATACGTTTGTAGGTGAGTGAAGTTGTAGGGCTTCCTTGATCATTGCTTGCATCTGTAATTGTTAGTGTAATTGTTTGCTGTTTGTTTTCCTGGTACTGATGATTTGACCCTCGCCTCACTCTACCACTGAACTTTACCACAATATCCCCAACTCTCCTAAAGTTAAACACCATGCTCACCTGAATATAGGAAGCCAAAATCCTATGGATTCTGTGAATGCTAAAAAAGGCTGTGTTTATGAGAAATAACATTTTCTGTGTCCTCATAAGCCCTTTCTATCTTGCTCTGTATGAATCTAGTTCTCCAGTTGTAAGATGAAAAACAGCTGTGAGGAAGAGATGGTAGGGATGGGAGGTTGGGATTGAAGCCGAGGCTGGAGTAATGAATGGTTGGAGATGTCAACTTCTCTCTCTCTTCTCCCCTCCTTTCACCTGCCTTATGGGAAAACCAGGGCATGGTCTCAATAAAAGGTGTGGTAGGGCCCAGCGAACTATGCCAATCCCAAATAATTGAAGTTGGAAAAGATGGGATGTTATTTGTTTTGGTGTTCTCTGGAGACTGATGAACAAGGACATGCAAGATAATGTCCATTTTGTTGAATGAAGAAGTTTCTCCTTTGAATCCCTAGTGTCACCACCAAACTTATTTTCCTGGCTGTGTAGTCTGCAGAGTGCTTTAAACAATTAAATGTACCTGCTGTTACTGTGACTATCTTGGTATCTTGAAAACCAGGATGAAAATTCCTACCCTTTTTTCTTCTAAATGTCTGTTTCCTTTTATAAATACAGCTCTGAACACAATTACACAGCACTATGGGATTACTTCTGTCTCAGGGCTTCCTGTTGTTTGGGATATGGGTTTTAATCTGTCTGGATGATGTGATGGGCACAGGGTGCTACATTATACTAAATATTTACATTGAGACCTTTCAAATAATTTTTTAAATTATAAAATATTATTTTGAGGCTATTTAAGTTGGTACAGACAATAAGGTTATGACATTTCATTTCAAAATTATTTTGAGTCTTTAAGTGCTGTGAAGTTTGAAATAGAAAACGAGCTTCTATTGTCACTGTAGAAGAAGACAACTTTAGTTCTGGTTTGCCTTTCTAACAGTGTAGATTGCCAGTATAATATACAATTGTATTATAGTATACTACATTATACTATGTACTAGCACTTATTTAATAAGGTATGAGCTCAAATTCTACAGGAATTTAGTTTTGAAAGAATAGTCTGTGAATAACAATGACAAGAAATCACTTGATGAAAGGTAAAGGAAATGTGAAAATTAATTTATGAGTTAACATGTTCATTTTTTCCCCTGTAGAAAAGAACATTTGATTTATTTAAATTTTGTTCTGACTTTTTATGGAAACTTTCTATCTACAGACTATTTTAACACATGGAAATAGTGAAAAGTTTATTTGATATATGTAGAAACTGATGAGCTGGGAACTTGCAAGTTTGAAAAGAAAACTTGTATATAACACATAGAATTCTCAATCATGACAATGAAATTGCGTAGAAGGGATCCTGGGTCAACCTCAGTTAATCTGTGATGGTCTTTCATCCCTGTCCTAG
Seq C2 exon
GTGATCCTAAGAGAAAGCTCATATGCTCGGTGTGCAATAGAAGGTGCACCTCATTGTCGAGCCTGCAGGAGCACAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023679:ENSRNOT00000009569:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=61.9)
A:
NA
C2:
PF128742=zf-met=PU(87.0=74.1)
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:
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]