Special

RnoINT0142835 @ rn6

Intron Retention

Gene
Description
SPOUT domain containing methyltransferase 1 [Source:RGD Symbol;Acc:1563514]
Coordinates
chr3:8746432-8747515:-
Coord C1 exon
chr3:8747385-8747515
Coord A exon
chr3:8746505-8747384
Coord C2 exon
chr3:8746432-8746504
Length
880 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTGTGCTAGCTTCTCTTCAGGAA
3' ss Score
4.88
Exon sequences
Seq C1 exon
GAATCCTCAACCCGTTGGACAGCCCTCACCACATGCGTCAGGATGAAGAATCTGAGTTCAGAGAAGGCGTCGTGGTGGACCGGCCCACCAAGGCTGGCCACGGCTCTTTGGTCAACTGTGGAATGAAGAAG
Seq A exon
GTAGGAGTGGGAAGGCGGCCTGTGGTACACTTGGGGACACTTGCTATCTATGAAAGACAGGTGAGGACACATGAACGAGGAGACCTGGACTCCAGGCCTGCTGTGAAACACTAATGAACCCAAAGTGGGGCTCCAGAGAGGAGCCCCTCGCGGCTGCAGAGGTGGCTCACAGGCTACAGAGCACGGGCTGCTCTTGCAGAGGACCCATGTTCAACACGCAGAACCCTGCTGTGGATCACAAAGCCCTGGAACTCCCTTCTGGGGAATCTGGTGCCCTCTTGTGGCCTCCATGGGCCCCAGACATGAGCATAACTCCCTGGCACACATGCAGCCAAAATACCCACACACCTAAGGAAGCGAGAAGGAACCATGCTCTGGATTTCTTGTTGGCGCTGTGCTGTTTTTCTGTTGATTTCGTTCCTGAGCTTTAATCATGCCCCATGATGGTATGTTCTCAGCTTTGCTGTTTTTGAGGTTAGGTAGATTTAAATTTTTCCACCTTTAATCTGTGTGTGAGAGAGTGTGTGGGTAAATAGGCTCATGCCAAGGAATGAATGTGAGGTCAAAGGGTAACTTGGCAGGTGTCAGTTCTCCCACTGTGTAGGAAGTGAACTCAGGTCCTCAAGCTTGGGGACGGGAGCCTTTACCCGGTGAACCATCTTGCCGGATCCAAGTGTAGCTTCGTAGACACTGTCTCTCTCCATGTTGTAAGCCCTGGGCTTGCATTGCTGACCAATGCCCTGTATAATTGTTCTGCATGAACAGCCCTTCTTAGCAGGTCCCACCCACTGCCAGAAACAGGGTGGCACATTGACCTGGGGTCTCTGAGGACATTGTCCCCTTTGTGTTGTGCCTCTCACTTGTGCTAGCTTCTCTTCAG
Seq C2 exon
GAAGTGAAGATTGATAAGAAACTGGACCCTGGACTTCGGGTGACCGTGCGGCTGAACCAGCAGCAGCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025711:ENSRNOT00000030623:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.409 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0259812=Methyltrn_RNA_3=FE(14.7=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(8.2=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATCCTCAACCCGTTGGACA
R:
TGGTTCAGCCGCACGGTC
Band lengths:
190-1070
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]