RnoINT0027333 @ rn6
Intron Retention
Gene
ENSRNOG00000046834 | C3
Description
complement C3 [Source:RGD Symbol;Acc:2232]
Coordinates
chr9:9721105-9722513:+
Coord C1 exon
chr9:9721105-9721257
Coord A exon
chr9:9721258-9722323
Coord C2 exon
chr9:9722324-9722513
Length
1066 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
CTCCCACATCCCACGGCCAGGTA
3' ss Score
6.49
Exon sequences
Seq C1 exon
TGGCCACAGCCCTGGCTTACCACTGCCCACCCCTACCCCTTACCCCTCACTCCTTCCACCTTTGTCCTTTACCATGGGACCCACGTCAGGGTCCCAGCTACTAGTGCTACTGCTGCTGTTGGCCAGCTCCCTGCTAGCTCTGGGGAGCCCCAT
Seq A exon
GTAAGTAGTTACCTTCTTGGGGTGCAGTTTCTTATAGAATTTAGGAAGCACCTGGGTGAGTGTGGCTTATGTGGGGGGGAGACAGGGATGTTAGGAATTTGTGCTGGGGGCTAAAAGATGGCTCAGTGGGTAAGAAGTACTGCTACGTGATCACAACAACCTTAGTTCAAACTCCTAGCGCCCATGGAAAAGCCAGGAGTGGCCTCAAGAGCCTGTGACCCCACACTGTGGGGCTGGAGACAGGATACTGGAGCTTGCTGGCTGGCAGCTCAGTGGAAGGTGCAGAAAGAGGAGATGTTGGCTCAAGGTGTGTGTGTGTGTGGGGGGGGTTATAGAACAGGGCACCTGACAGCCTCCTGTGGCCTCTACACTGTGTACACACACATGCACACATACAGAGGGGGGGGGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAATATGTTTGCTTGCTGTTTATACAGTCTTATGTTCATAGAACCCAGGCATTGTAGCATTGGTGTGCCTACTTATGGAAAAGGAGGTCTATAGATTTTAGGGTCTCTGCGGTGTCTTGTGGTTTAGGCAGTGGTAAGTTTGGAGGACTGGAGGGTTGTTGGAGTCTGTAGTCCTTGTGTGGACTATCAAGAGCCAAGCTCAACATTGGGCCTGATTACATGGACCTGTTATTCTGGCTACTCTGGAAGCCCAGGCAGGAATTGTACATATTCCAGCCAAGCCTGGGCTACCTGAACAACTTACCGAGATGCTGTTTCCAAAAAGAAAAGTGAGAAGAGGCTGAGGTGTAGCTTAGTGGTAGAGAGAGCACTTTCTCAGCTCAAGCAAAGTCTTTATGGCTGGTACCCAGTGCTGAAGCCAGGGAAAGCCAGCTTCTGGTGGCTGAGGGAAAGTGGGCTGACGCTTGGTACCTCGGTGCTTCACGTGGGGAGGAACGTGCATCGGGTGTCTGCTCTGGCAGGTGTCCCAGTCAGCACTGAGAACTCTCTGGAACTAGGAAATGGGCTGAAGCCTCAAGCCCTGAGGTGACATCTGCTCCCACATCCCACGGCCAG
Seq C2 exon
GTACTCCATCATTACTCCCAATGTCCTGCGGCTGGAGAGTGAAGAGACTTTCATACTAGAGGCCCATGATGCTCAGGGTGATGTCCCAGTCACTGTCACTGTGCAAGACTTCCTAAAGAAGCAAGTGCTGACCAGTGAGAAGACAGTGTTGACAGGAGCCACTGGACATCTGAACAGGGTCTCCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046834:ENSRNOT00000073042:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGGCTTACCACTGC
R:
CTTGATGGAGACCCTGTTCAGA
Band lengths:
335-1401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]