RnoINT0099514 @ rn6
Intron Retention
Gene
ENSRNOG00000058007 | Nde1
Description
nudE neurodevelopment protein 1 [Source:RGD Symbol;Acc:620038]
Coordinates
chr10:860521-863330:-
Coord C1 exon
chr10:863185-863330
Coord A exon
chr10:861733-863184
Coord C2 exon
chr10:860521-861732
Length
1452 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGT
5' ss Score
5.85
3' ss Seq
GTGGTTTGCTCTGTCTGAAGGTC
3' ss Score
6.95
Exon sequences
Seq C1 exon
GCCCTGGAGTCCAAACTAGCATCATGCAAGAACTTCATGTATGATCAGTCCCCAAGCCGGAAAAGCGGGCCAGCCTTGGGCCGAGGAACCAAAAACAGAGACGGTATTGACAGAAGGCCAGGCAGCACCGCTGTGGGCGATAAAGG
Seq A exon
GTCAGTACTTTTGATACTCTGTCAGAAAATACCAGGCTGCTCTAGATCAGACACTAGCCCTAGCCTTGATGCAGTCTATTTTGTTTTAAGGCTGTAGGATTATTTCAGCGAACTGTAACCTCTACTTCCTTTTCATGAGACAGACTCCCTTGGTAGCCCAGGCTGGCCTTGAATAAACCCCTCACTTGAGGCCAAATTTGATGATATCTGAATTTGGGCATGTAGAGCAATAAAGAGCTGTGTGTGTAATATGATTTGTGCTGTGAGGAGGCCCTGTCTAAATCCCTTGTTTGGGACTTGCACTTCTCTGAGAACATTTTGTGAGTTGGGGTACACCAGATAGTTGTTTAAGTGGTGCTCCTTAGGAATCTCACCTAATGGAACCTACCAAGTATGCTACTAAGTCCCAGGGACCCAACTGTCTCTGCCTCCCTTCAGTGCTGAGATCAAAAGCATGAGCTGTCATGTCTGACTCTTTTCATGGGTACTGGGGATCAAACTTAGGTCCTGATGCTGTAAGGCAAGTGCTTTTGACAGCTGAGCTATCTCCAAACCCTTAGTTTTGAATCTGTAGACTCTTCAAGGATCAGTCCAGCCAGATCAGATTCTCCAAACTAGAAGCCTGCAGCTACCTCTGTATCTAGGAGTTCACTGAAAGGAGCCTGCATTGCCCTTGAGCCCCAGGCCATGTCATAGTGACAAGCATGAGGCAAATGCATGAGGGAAATGGATTGATCTGTGGTGCACACTTAGCTTCTGTACCTTTAAACACACATCTCTAGATGTATGTATTTATTTTTGAGACTAGGCCTGTGTAGCCCTGGCACGGGGGTGGGGGGTGGAGGGAGCGTGGTTGAAGAGCCCGGGGTATATTACCCCCTTTCGTGCTGGGATTAAAGGCATACATACCACCATGCCCAGTCAAAATATTTATTGAAAATAAAATTTTTTTTCAATTATATTTATTGGATGCATGTGCACAGGTGCACATGTGCTTTCTACAGTTACATGTGAAAGTCAGAGGACAACTTGCAAAAGTCAGTTCTTTCCTCCTACTCTGCGGGTTCTGGGATTGTTCTGCTAAGCAACAAGCATCTTTACCTGTTGAGCCATCTCTTCAGCCTAAAAGAATTTTTTTTTAAACCAAGGAGCTGGGAATGTTGCCTAGTAGCAAGCCCCTGCATTCAACTCTAAGTACTCCCTACCCAAATGAAGTGACCAAGAAGTAGGTGCTTCTGTGGGGTCTTCTGAGATTGAGAGCTTTTTCAGCAGCCTTGGGGATCAGGAAACCAGATAGCTAGTAATGTTTTCTTCATTTCACAGGAGAGAAAATTGAGACCCCGTGAGCCTTGTTCCCACTCTTGACATTCACTCTTAAAACCTTGGGGGCCCTGTGCTAGCCACTGGGATACTGCTGTCTCATCTGTTAAATGTGGTTTGCTCTGTCTGAAG
Seq C2 exon
GTCAGGAAAACGCTTGGAGTTTGCGAAGCCGTCCTCACAGCTCTCATCACCAGCGCTGCCATCCACCCAGGGTGTGGTCAAGCTTTTGCTTTAGGACCAGTGGGAACTGCGCCCTCACCTATCTTCCCTACTTTATAGTCAGCTTTTAGTTATTTTTTTTTTCAAGGTAATTTGAGAAATAAGAGACCACATCACCAGCATTTACTTTGTGCTATGCAGCCTAAGCTAAGGCTGTGTGTGGCCCAGTCCCTAGCAGTGGATGTCACTAAAATGAGCTCCCCAACCCCAACCAGGCAGCTCTAAGGTATGATTTCATTGACTACCTAGAGTTTTAATAGCCTCCAGAGGTGCTTTGAATATGCGTAATCTTCAGAGCAGGACTAAAGCCCAGCTCAGGAGCTCTCTGCAGCCTACTTCCAGCTGAAGCTATATTCTGGAACATTTCCTGGTGCTTTTAAAGCATGATTAAATTTTATCTAGGACTGGGAGACTACAGAGGCAAAAGGCTATATTTAAACCATCTGCTAAAAGTACTACTCATGTACCTTTGACACTTCAACACTGTTGGCCTCATAGGTCAGTGGGAGGTTATCCTCTACAGATAAACCCTGACTCGTGTCTCTCCTGAGTCCCCTGCCCTGGTGTTGGGAGTGGCATGTGCATCAGGACCCTGGACAGCTTGCGTTGGACTGGCCTTTGTTACACCATCCCTAAGAACAGAACTTCATCTAGCAGCTTCTTCCAGACACCACAGAGCAACCAGGGTGACTGAAGCACGAGATGGAGATTACCACCAGCTGCTCCATCGGATGTGGAAAAATCAGCACAGGCTCTACAATGCCAGCTCGCCTCATCTCTGGTGTGTGATGCTTGCTGCCTCACACTTCGATCCACAATGAGAAAAGCACACTTATACTAGAGCGTGACACCCTCCACTTGGCTACTAACTTATTTCCTAGTTGATGAGCAAAACTGGCCTAGCATCAGACCTAGAACTTTGTGTGTGCTACTGACATTCACAGGGTGATTTTAAGCTGCTTGGTTATTTGTTCTCCTTAGACATAATAACTGGGGAAAGATGAACTTTATTTTTTATAAAAAATAAAACCAAAAGAAATGCCTGTTCAATAGATGTGTGTGTCAGTCCTTCCATGTCTGTGCACGTGGCCATGAAGTTTGTTTTTGTTCAACCAAGTAATAAAATAATAGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000058007:ENSRNOT00000086392:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.796 A=NA C2=0.645
Domain overlap (PFAM):
C1:
PF048808=NUDE_C=FE(23.8=100)
A:
NA
C2:
PF048808=NUDE_C=PD(10.4=65.6)
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:
GGCCGAGGAACCAAAAACAGA
R:
TGGGGTTGGGGAGCTCATTTT
Band lengths:
356-1808
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]