RnoINT0131060 @ rn6
Intron Retention
Gene
ENSRNOG00000002104 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:RGD Symbol;Acc:727896]
Coordinates
chr11:30391133-30392125:-
Coord C1 exon
chr11:30391935-30392125
Coord A exon
chr11:30391268-30391934
Coord C2 exon
chr11:30391133-30391267
Length
667 bp
Sequences
Splice sites
5' ss Seq
GTGGTAACT
5' ss Score
5.08
3' ss Seq
TGACACTTGCTAATGTGCAGTGC
3' ss Score
3.65
Exon sequences
Seq C1 exon
GTCACCAAAAAGAAGAAGATCTAGGTCTGGCTCTAGGTCTCGGAGATCCCGCCACCGTCGGTCTCGGTCCCGGTCCAGGGATAGGCGCCGGCACTCGCCTCGCTCTCGCTCTCAAGAAAGACGGGATCGAGAAAAAGAGAGGGAGCGGCGGCAGAAAGGCCTCCCTCAGATCAAGTCAGAGACTGCAAGTG
Seq A exon
GTAACTAGTGAATCTGTCTTCACCCTCCCTTTATTCTTTCTCACGCTGTGGCTTTAAGATAGTTTTATGACTGTTAGCAAAGCCATAAATGGTTCAGTATCGTGGTTGAGTTTTATTCTGAATAGGGTTTGTGTATGTATGTCTGACTTATGTACTGCATGGTCTTTCTAGTGCTTCTGCACATAGGAGGTGTGTCTTTCCACTGGCACACCTACTTCCCTCTTTGATGGAAGATTCTAGACTGGGTTAGCTGGGTTGTCATCATTTTGAGAACATACATAGTAGGCATATTCTTGTACATCATTAACTATTACATTTTAAATCATAACAGTGATCAGTGGGTATTTAAAGCGAGGCTCTTACATAGGAGCCACCATACAGATAAACTGCATGAAAGCTAGGAATGGGCGGCTGCTTGTTAAGGCTGGGTTGTTTGGTTCTAGCCCTTTGTTCTGTTCTTGCTAGCAGATGTCACTGCTGTTAGGGCCTGAGGCTTCATAGCCATTTTTCGGTCTAGTCACAGAGAGACCATTGCTTTTTCAATTCTTGTGTCCTGGTTTAGTTTCTAAATACCTACTTTTAAGTTTATATACTTTATACATGGGGTTTTCTATTTAAACTTTCGGCACCGGGGTGCCCTGTGGTAATGACACTTGCTAATGTGCAG
Seq C2 exon
TGCTGCTGGATTGTAACCACTGATTTACTTTCAGTTTGCAGCACCACACTGTGGGTGGGACAGCTGGACAAAAGGACTACTCAGCAGGATGTTGCCAGTCTCTTAGAAGAGTTTGGTCCAATTGAATCAATTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002104:ENSRNOT00000002881:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.636 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0007617=RRM_1=PU(41.8=62.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCACCAAAAAGAAGAAGATCTAGGT
R:
GTTAATTGATTCAATTGGACCAAACT
Band lengths:
326-993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]