RnoINT0142831 @ rn6
Intron Retention
Gene
ENSRNOG00000025711 | Spout1
Description
SPOUT domain containing methyltransferase 1 [Source:RGD Symbol;Acc:1563514]
Coordinates
chr3:8748445-8750395:-
Coord C1 exon
chr3:8750267-8750395
Coord A exon
chr3:8748605-8750266
Coord C2 exon
chr3:8748445-8748604
Length
1662 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CACCCCCCTGCCTCTGCTAGGAC
3' ss Score
8.26
Exon sequences
Seq C1 exon
AGAAAGAGGAGAAAAAAAAGTGGAAGGACCTCAAGATAATGAAAAAACTGGAGCGGCAGCGTGCCCAAGAGAAACAGGCTAAGCGCCAAGAGGAGGAGGAAGAGGCGGCTGCCCAGAGGAGCAACCAAG
Seq A exon
GTAAGCAGCTGGGCCTGGAGAGGACACAGGTTGTGGCCTGCAGCAGACCCTCTCAACGAACCTGCTTCCAGCTCAGACCCCTTGAGCACTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTGGTCTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGGGCTCTACCACTTGAGCTAAATCCCCGGCCCCCTGATTGGCACTTCTAACATCCTGACCTGTGGTGCAGGAGGAGAACGCTGTGTGACAGCATGAGTCCTGGTTGTAAGCTTCTGGACCTGGCTCCCCCTATCTTGTGTTATGCCCTGAGTGGTCTGTGTCAGTGCATTCTCCCTAACAGAATATCTTTTGCTGCCCATGGTGATACACACAGCCACCGCCTCAGCACCAGGGAGCTGAGGTGAGAAGATGGAGAACTCAAGGCTAATCCTGGCAAGTAGTGAGGCCCTGTCTAAAAGTCTCATTGGTGCCTGTTAGTGAGCGATATCACTGTACCTTTGAGGAGCCCAGAGACAAGAACCTGAGACACGAAACATCCATTCATGGTCCCTGGCAGTGATGTCTAAGTGCCTCCTCCTTTTGATCAAGAAACCGCAGGAGGGGACGAATGTGGTGGATCCTCTCCAGCCAGGCCACCAATCTCCTATCTCAGCTACCCACCACTTCTGGGACTGCAGGCGGGATACATACATGGCTTTCCTGGGTGAAGGCCATTGTTTCCAGGATCCTGTGCTTGTCTGGGTACCGGTTTGTCAATGCTCATGTCCTCCAGTTGGTGAGCTTTCACATAGAAATCCTCCTTCCCGTACTGAAAGCCACGTCCAGACTACTGTGACGTCTGGTCCAGTGTAATGCCATGTGAGTGCCTGGTACTTTATTAATAACGAGGACAAGCCTCTTTCCATATTAAACAGATAAAAAGGTGGTTTTTTTTCATAAATATATTCAAATGAGTTCAGCCTGGTACCTTAAATCTGTACTTCCTCTCACTTGGGAAGTTGACACAGGAAGATCATGTTTGAGAGTAACGTGAGGACTACAGTAGGACTCCCCATAGAAAAGGGAAAACAAACAAACAAACAAAACACCAGCCAGTGATTTGTAAATGTTGATTGGATCCCAAGGTGTGGATCCTGCAGGCAGACGGAGGACCTGATGCTTCCTGGAGCTTCTGTAATATCAAATGCTCGTTATACTTTTGCTTTTGTTCTTAAAGATTTGTTCATGTGTTTTACATATCTGGATGTTTTGTCTGCATGTATAACTGAAAACCAGAAGGCACTGGATCCCCTGGGTCTGTAGTTTTAGGGGATTGTGAGCCATCGTGTGGGTGCTGGGAACTGATCTCAGGACCTGTGGAAGAGCAGCCCCAGTTTAGCTCTTCTCATCCACACTTGACAGCTAAGCCAGGAGGTGGATATAGGCCAGTGCTGCTGACTGATGCTTTACCCTGTCCTCTGGGCTTTCTTATTTTAAGAAGCCTTGGGGGCTTTAGTTCCTGAAGAGATTGAAGCCAAGAGGAGCTTGATGATCTCAAAATTCCTCCGTGTCAGACAGTTCTCTTCCCCTGAGCCACGGGACACATGCAAGGGAGGGGAGGCCCACAGCCCATCAGACTGACTAAGGAACACCCCCCTGCCTCTGCTAG
Seq C2 exon
GACGGCCTTACACTCTGAGTGTGGCCCTGCCAGGCTCCATCCTGGACAACGCCCAGTCACCTGAACTCCGCACCTACCTGGCTGGCCAGATCGCCAGAGCCTGCGCCATCTTCTGTGTGGATGAGATTGTGGTGTTCGATGAGGAGGGCCAGGATACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025711:ENSRNOT00000030623:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.661 A=NA C2=0.056
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=PU(16.8=90.7)
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:
AAAAAGTGGAAGGACCTCAAGA
R:
GGTATCCTGGCCCTCCTCATC
Band lengths:
273-1935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]