RnoINT0129260 @ rn6
Intron Retention
Gene
ENSRNOG00000023639 | Rpusd1
Description
RNA pseudouridylate synthase domain containing 1 [Source:RGD Symbol;Acc:1304934]
Coordinates
chr10:15100517-15102960:+
Coord C1 exon
chr10:15100517-15100618
Coord A exon
chr10:15100619-15101868
Coord C2 exon
chr10:15101869-15102960
Length
1250 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TCCCATCCCTGACTCCGCAGGCC
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTTGTGAGAACCCTAAGCCAAGTCTCACAGAGCTGCTGGTCCTGGAACATGGGTTATATTCTGGTGACCCTGTGTCCAAAGTGCTGCTGAAGCCACTTACAG
Seq A exon
GTATGTCCAGGGCAGGGGTCTGCCATGTAAGAAGGACCTTGGGGTATAGGCATTGAGGCCTGCCTGGGTCTATACCAGGCGTGCGGCCAGAGCCACAGCCAGATCTTTGCTGGTGGTTGCATGGTCCCTGGCAGTCACACTGATCTCTCTAGCTAGACTAAGTGTCTCCCTGGCTGTGCCCTCACAACCCACCCCAGACCAATCCCTTGCCCTGAGTCCCAATATCTGATTTATAGCAAGGGGTATAATGAATCCCATACCAAGGGCCTGTTCTTCCTAGTGGCACATATCTGCAAAGCAGCTGCTCAGGAAATATTCCTTCTTTCCTTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCCTCCTTCCCTCCCTTCTTCCCTCCCTCCCCTTTTTCTTCTTCTTTTCTCTTTTCTCTCTGTGAAGACTTGGCTGCCTTGGAACTTACTCTGTAGACCAGACTGGCCTCAAATTCCACCTTTCTCTGCCTCCCCAGAGGGATTAAAAGTGTGGGCCATGTGTGCCTAGCAAGGGATTCATTCTTTAAAGAAGATCAGGTAAACAGGTGTGGTAGCATAGATACGTATTTCTAGCACTCTAGAGAGAAGAGGCAGGAAGAGCAGAAGTTCACACCCATCTTTGGCTGCATGAGACTGTCTCCAAAAAAAAAGGGGGGGGGGGCGGCCTTCTGCCAAGCCTGACGACCCAGGTTGGAGTCCCAGACAAAAGTGGTGGAAGGAGAGAAGAGACTCTTAGAAGGTGTCTTCTGGGTGGTAAAACGGCGGTGCTTGCCTTTAATCCCAGCACTTTGGAGGCAGAGGCAGGCAGATCTCTGTGAGCTCGAGGCCCATCTGGTCTACAGAGTGAGTTCCAGGACAGCCAAGGCTGCACTCTTATCTCCAAAAAAGAAAAAAAGTTGTCTTCTGCTCAAGAACATGCAGGAACACAACACACACACACACACACACACACACACACACACACACACACACGATTAAAATGTACTTTAAAACGTTTTAAGGGAGAAAGAAGATAATTGGGGTACAGTTGTCTGTAGCATGCTTGCTAGCATGCACAAGGCTCGGGGTTCCTTCCACAGCACTGCAGCACACAACAGAAAGCCCAGGGGCTGCCGGGAGGCTCTAAAGCCAACAGAGAACTTGCTGGATGCTGTCAGAGCGAGGGATGTGACAAAGAATGACTCATCCCAGCCTGACCTCCCATCCCTGACTCCGCAG
Seq C2 exon
GCCGGACACACCAGCTTCGAGTACACTGCAGCGCTCTCGGCCACCCTATCGTGGGCGACCTGACTTACGGACAGGCTGACGACCAGGAGGACCAACCGTTCCGTATGATGCTGCACGCCTTCTACCTGCGCATCCCCACACGGGCCGAGTGCGTGGAGGCCTGTACGCCTGACCCCTTCCTGCCTGCCCTTGATGCCTGCTGGAGTCCCAGTACCTGCATTCAACCCCTTGAACAGCTCATCCAGGCCCTACGGACTGACCCTGACCCTGACCCGATGGCCAGAGGGCCAAGGCCCTGCAGCCCCTCCACCCCACAGCCCAGGCCAGGTCGGCCGCCTCCTGAAACTGAGGCACAGAGAGCGTCGTGCCTGCAGTGGTTATCAGAGTGGACGCTAGAGCCGGACAACTAAGGGCCTCTGAGCTTTGGGGGTCAAGAGCTGCTAGACTCAGCAGCTAGGAAGCCATGATTGCTAGAGGACAGGGTACTCAGGCTGTAGGAGAGATGTCCAGTAGGTAAGTCTTGCCCTCAGCATTCCTCCAGGGGGAGCTAAGGCCGTTCCTTCTGGAATAGCTTTCTGCCTCCTTAGCTTTACCCCAGGCTGGCCCAAGCCCCTAGCCAGGAAGGGCAAAGCCAGGAGCAAGGATCCTCCAGGGCTTCACAGCGCCTGGGAAGGGCCATCCTTCCATTAGCCCACCTGGACTTGGGTCCCCTGCAGCCCCCAGCCTGTCTCTTGCTGCCTGCCACTGTCATGTGCCTTTGCCTTCCTGAACTCTGCCAGGGCCTCACCTCCTCTGCCTGCATCTAGCGCTTGGCCCCAATGCATGGGAGTGCATTGGAGCGTCTACAGAGGCGTCCTCCACACGCGCCCGTCCCTCTAAGCCTGCCCTGGATGCTGCTTCTGCTCTATGGGCTCCTAGTTGGAGCATTGACCATGTCACCACCTGCCTGGCTTCCACATAGCCATAGAGTATCAGCGTCAGCCTTTGGGTCCTCTCCTGGGAGCCTTCTGGGCCTCACCTGACCACCACAACACAGCCACAGCACCCTGGCTGCAGCTAGGGTCTAGGATTAAGAATAAATGTTCAGTGATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023639:ENSRNOT00000015206:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.390
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=FE(20.5=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=PD(6.6=8.0)
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:
ACCCTAAGCCAAGTCTCACAGA
R:
TAGGGCCTGGATGAGCTGTTC
Band lengths:
344-1594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]