RnoINT0142388 @ rn6
Intron Retention
Gene
ENSRNOG00000006731 | Spc25
Description
SPC25, NDC80 kinetochore complex component [Source:RGD Symbol;Acc:1307811]
Coordinates
chr3:55450616-55451798:-
Coord C1 exon
chr3:55451745-55451798
Coord A exon
chr3:55450769-55451744
Coord C2 exon
chr3:55450616-55450768
Length
976 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
ATGTATGCTCTGTTTTGCAGCGT
3' ss Score
9.63
Exon sequences
Seq C1 exon
TTTCTCCACAGCGGGTCCAATAGGGTGGAGACGGCGGTGTTCCTGGCCGCCCAG
Seq A exon
GTCTGGGAGCCTTTTGAAGGGTTGTGGGGCTTCGCCGGTTGCACGCGCGCGGTGAGGGAAGCCGGTCTGAGCCTGCCGGCATGCGTCCGCAGCGCCTGGAATGCGGGTCTCCGCTGTTAGCCGCGGGGTTCGGGTTCCGGCGCTGGTCCGTCCCGCCCCCCACTCCCCTCTTCCGGCCTGCAGGGGGAGGAGCGGATGGAGATAGCGGTCAGGGGTCCAATGCCGAAAACCGAGTCTCTTGGTCCCCCAATTTCTTTGAGTCTCGGTCTCGTTGTCTGCGAGCAGGTCCTGAGGAGAAGCTGACTGACCCCTGGGTCCTGCTGAAATATGATTTGCAAGCTTCATGCAGCTTGTTTTGGTCATATTCTTTCCTCTCCCCCATGTCCATGCTGTTTCCCTCAGAACAGATGGATGCACATTCACCACAGTTAAGCCCGAGTTGGCTTGAATTATCCTGTTGCTAACTAAAAAAATAAAAAATAAAAATGGGTTACTTTATTTTATCTTAATTGTATGTTTTATTAGGTTCTGGCCTGGAGCGCCCTATGTTGACTGGGCTATCCTTGAACTCAGATACCTTCCTGCCTCTGCCTCCTTAGTGCTGGGACTAAAGGCGTTTGGTCCCACCCTGTTGTTTTTAATTTATTTAGAAAATGTCTCTTATATTAGGCTGGTCTAGCTTTTGACTGAGGATGACCATTACTTCAGATGCACCTGCCCCCCAGCTTCCAAATGGTGGAATTAAAGTCTGCCTTTATGCTAGCTGGTCTAGCTTTTGACTGAGGATGACCATTACTTCAGATGCACCTGCCCCCCAGCTTCCAAATGGTGGAATTAAAGTCTGCCTTTATGCTAGCTGAGTTGCTGAATTATTAACCGTTCTGTAGCAAAGTCAACCTGTGGGCATAAACTCGAAAATGTGGCTTATTTGGTGTCAATAGCAATTAAAATACTGCATGTATGCTCTGTTTTGCAG
Seq C2 exon
CGTCTTAAAACAGAATGGGTGAAGACGAACTGGCAGCCTTCGAGAAAAGCATAAACGAATTTGGGGACAAGTTCCGGTACAGACTCAGTGATAATCGTAGCCAGGTGCTGGGACTTAAAGATGCCTTCAAGGACTCCATTAGAGCGCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006731:ENSRNOT00000008837:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF121283=DUF3584=PU(29.5=93.6),PF083176=Spc7=PU(20.2=87.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCCACAGCGGGTCCAATA
R:
CTGAAAGCGCTCTAATGGAGTCC
Band lengths:
206-1182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]