RnoINT0142829 @ rn6
Intron Retention
Gene
ENSRNOG00000025711 | Spout1
Description
SPOUT domain containing methyltransferase 1 [Source:RGD Symbol;Acc:1563514]
Coordinates
chr3:8743882-8745536:-
Coord C1 exon
chr3:8745389-8745536
Coord A exon
chr3:8744602-8745388
Coord C2 exon
chr3:8743882-8744601
Length
787 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
ACCAACTTCTTTTATTCCAGGAG
3' ss Score
8.61
Exon sequences
Seq C1 exon
GCATGCTCTTGTGGTGTTCGGAGGCCTCCAAGGGCTAGAAGCTGGAGTGGATGCTGACCCGAACCTTGAAGTGGCTGACCCCAGTGTCCTCTTCGACTTTTATGTCAACACATGCCCTAGCCAGGGCAGTCGTACCATCCGCACCGAG
Seq A exon
GTGAGCCGCAGCCACTGGCACCCAGCTCTTGTGACCCACACAGCATGCCTTTTCTAAAAGACACTTAGGGATGTTTTGTCTGCATGTACTTGTGTCCATCTGTACATCGGGAGAGGGCGTTGGATCCCAGGAGACTAGAGTTAGGAACTGTCATGTGCATTCTGAGAATTGAACTCAGGACTTGAGGAAAAGCAGCCAGTGCCCTTATCCACTGAGCCATCTCTCCAGCCCCATTTAAATAGCTTTTCTGAAGCTGGGATCTTTACCACAGCAAACTAGGGGCAGGACCTGGATACAAGAGCACAGGAGTTGCCTTCCTGGCCCTGTAGTAGTCTCACGTGCCTAGGCCAAGGGACCCAGGTGTCCTGTCTGTCCCTCTGCAGGCCCTCTGGCTTCCGTGTGCTTGCCTAGGTCCCTCCGGGTGTTCGGTTCTGTTTTTTTTTAACCCATCCCCCCTCCGAGTGTCCCCTCTGGGTGTTAGACATTTCTGTTCCTGGGGAAAGTGGAACAAGATCCCAGCATCCACAGATCCATGCAACCGTCCTTGAGGCCAGCATGGGCTGTGTCCCTATGGGGATCACAGGGAGGCTCTGTTCCTCCTTCAGCCTCAGGGGCGGTGACTCTGCAGATGAGCAGCCCCAGTCTCCCTGTCTGAAGCCCTGCCCATGTTACTAATTCCTGCCAACCAGTCGTCTTTCCCCTCCTGGCTCTGAGGTAGACCCCACGTGGGGCTCTGAAAAGGAAGGCTGCCTGCCTACCAGGTCACAACCAACTTCTTTTATTCCAG
Seq C2 exon
GAGGCCATACTCATCTCACTGGCCGCTCTGCAGCCTGGCCTCACCCAGGGAGGGGCGCGACCCACCTGACAGCCCTCTGGATCCAGGATGAGAGGAAGCAGCAAGACAAGGAGGATCACAGGGAGTAGAGATGGTCAAGACTTCTCTCCAAAAATAACTGCCTTTAATGCGAGCCGTCTCCCAGAGTCTTGAGTGAGTCCTACTCCATCACTTGCTACCAGCAGTGATGGCCTTGAGGTTTCCAGCTCGAGCCAGAATATTGGGCACGAAGAGCAATCCCGAGGCCCGCTCGATGCTCTCGATGGGCACTAGGAAGCGCTCCAAAGGGAGAGTCTCATCCACCGGGGCATTGGGCATCACATAGGAACGCAGCTCGATTTGCCCACTGGCTGCCTCCAGGATCAACACCTTGAAGAAGTGTGTGGGCACTGCCACGTGGTTCTTCCCAATAACCTGGTACTTCACATAGGACTTCCCATCAGCCTCGGTCCTGTGGATAGACCCAGGCACAGGTGGCCAAGAGGCCTGGTTAGATTCAAGGTCACCTCTTCCAGGAAGCCTCCTCTGACCTAACTTCCAACAAGAAGTTTGTTTGTGCCTGATTCCTCCTTTGGTCTGGGAACTATGTATGGTGGGGACCAATGCTTTTCTGCCCAATGCTGGTTCAGACAGAATGGGTGGCAATAAATGAAGATAGAGGAATGAGTTCTAATGAGTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025711:ENSRNOT00000030623:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.227
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(16.8=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=PD(3.4=43.5)
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:
GAAGCTGGAGTGGATGCTGAC
R:
CAAGGCCATCACTGCTGGTAG
Band lengths:
346-1133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]