RnoINT0088089 @ rn6
Intron Retention
Gene
ENSRNOG00000045765 | MGC94207
Description
similar to RIKEN cDNA C030006K11 [Source:RGD Symbol;Acc:1359663]
Coordinates
chr7:117787906-117788550:-
Coord C1 exon
chr7:117788386-117788550
Coord A exon
chr7:117787955-117788385
Coord C2 exon
chr7:117787906-117787954
Length
431 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TGTGTTCCTTCTGTCTGCAGCTT
3' ss Score
11.53
Exon sequences
Seq C1 exon
AGGATGTGGCCGCCTTGCGGGGCAATGCGTAACTTGGCTCTAGTCTTGGCGAGGTCGCAGAGAGCTCGGGCCTGCAGTGGGAACGAACGTGTCTCCTACACACAGGGCCAAAGTCCGGAGCCCAGAACCCGCGAGTATTTCTACTATGTGGATCACCAAGGCCAG
Seq A exon
GTGTGCCTGGCGAGTGACAGAGGGAGGAGTCCCGGGGGAGCAGCGGAATGGGCACCGGGTGGGGAATGGTTCTAGGGACGAGACCTGGGTTAGGTGTTACGTGTAGATTTGGGTTCAAAGCCTAGGCTGGAAGCCGGAAATTCCGGGCCAGCTGCTTACACGGCATCGCAGTCCCGCCCACACTAGTCTGTCCTAGCACCAATCCTAGAGCCAAGTGCTCGTGATTGCTAGTGACAAAGGGCCGTCAAGTCTGCTGTAGAAAAAGGGGTGGGGGCTGCAATGCTGAAAACCTGTCTGTAGAAAGTCCGCAGGGCCCTTTCACATGCCCCCGCCCCGAACAAATCACACAGAAAAGCAAGGACAGCAAACACCACCGGCCTTCGGGCTTTCTTGCCAGGACTTACAGTCCACTGTGTTCCTTCTGTCTGCAG
Seq C2 exon
CTTTTCCTAGATGACTCCAAAATGAAGAACTTTATCACCTGCTTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000045765:ENSRNOT00000021775:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF149561=DUF4505=PU(13.7=46.3)
A:
NA
C2:
PF149561=DUF4505=FE(8.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCGGGGCAATGCGTAAC
R:
TTGAAGCAGGTGATAAAGTTCTTCA
Band lengths:
198-629
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]