RnoINT0122543 @ rn6
Intron Retention
Gene
ENSRNOG00000005818 | RGD1563349
Description
similar to RIKEN cDNA 9330182L06 [Source:RGD Symbol;Acc:1563349]
Coordinates
chr4:21609133-21610310:-
Coord C1 exon
chr4:21610047-21610310
Coord A exon
chr4:21609307-21610046
Coord C2 exon
chr4:21609133-21609306
Length
740 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCCTTTGTTTTTCAATGAAGGAT
3' ss Score
7.32
Exon sequences
Seq C1 exon
AACAGACGTCTCATCAATGATGTGGTGAAGATTTATTCAATCTCAGCCACGAATGCAGTTGATGGGGTAGCAGCATCATGTCGGGCCTGTGCCCTGGGTTCTGAGCAGTCGGGATCATCATGTGTGCCCTGCCCCCCAGGCCACTACATCGAGAAAGAAACCAATCAGTGCAAGGAGTGTCCAGCTGACACCTACCTGTCCATCCACCAGGTCTATGGCAAGGAGGCTTGCATTCCATGTGGGCCTGGGAGTAAAAGCACCCAG
Seq A exon
GTAAGTAAGGAGCTTTTCAGTTATCCCCCATGGTGTGGGGAGGTAGACAGGATTGCTTTTGATGTTGGAAAATGCTTTGTAGTTCTCTTTCCCGTTTTTCTATTATGTTAATTGAGCTCCGAATTGATGCTGTGGAAATGTTGGCTACTGGTGACAAAATATGAGGGGAAATGTTCAAATGAAAATGTTTTTTAAAAGTACTAAAATTGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCTAAAAAAAAGAACCAAAAAAAAAAAAAGTACTAAAATTGATATCTTGTTCACTTCCAAGGTAGGAGGAGTCACTGCTCTCATAAACTGGGTGTAGAGTGCTCTGGAAAGCAGTAATCCTAGTGTACAGAATTTCAAGTTTGAAGCAAAACAGCAGACCAGTCGAGGATTCAGAGTAGCTCAATGGAAGGGCTTTATTGTCTGAAAACAGGCTTAATGGAAAGCTTTTAGTATTTCTTAAAAAATATCCTCCCATAAGGAGGTTGTCTGAGAAAAATATCCCCAATTGAAAACATCTTGACTCTTCTGAACATTTTTGTAGAGACACTTTGTGGTTAGGAGTCTTCTACCACTGGTATGACAAGATATAAGACAACAATTACTGAAATATTTTATATCTAGAAATTGTGAAAACATTTTCTTGTCAGCGAATAGTTTTTTCCTTTGTTTTTCAATGAAG
Seq C2 exon
GATCACTCGCTTTGCTACAGTGACTGCTTTTTCTACCATGAAAAAGAAAACCAGAGTCTGCACTATGACTTCCGCAACCTCAGCAGTGTGGGCTCTCTAATGAATGGCCCCAGCTTCACCTCCAAGGGAACCAAATACTTCCATTTCTTCAATATCAGTTTATGCGGGCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005818:ENSRNOT00000007723:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=PU(80.4=46.6)
A:
NA
C2:
PF076998=GCC2_GCC3=PD(15.7=13.8)
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:
CTCAGCCACGAATGCAGTTGA
R:
GTTCCCTTGGAGGTGAAGCTG
Band lengths:
354-1094
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]