RnoINT0027435 @ rn6
Intron Retention
Gene
ENSRNOG00000018899 | C5
Description
complement C5 [Source:RGD Symbol;Acc:2237]
Coordinates
chr3:14051419-14053023:-
Coord C1 exon
chr3:14052940-14053023
Coord A exon
chr3:14051558-14052939
Coord C2 exon
chr3:14051419-14051557
Length
1382 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
AGCTGCCTTGTGTGTCTTAGGGG
3' ss Score
8.08
Exon sequences
Seq C1 exon
CTTATAAGGTCAGGATCACGTCGGCCACGGAAGAAAACATTTTTGTCAAGTACACTGCGACGCTTCTGGATATTTACAAAACAG
Seq A exon
GTGAGAACTCCTCCTTCCTTCGAACACTTGGTGCACCACACGAACCAGGCGCTGTACGGGAGCAGAGATGACTTGACTACTTGAGCAGAGGTCTCACCTTCATGAAGCCTCTTTTTCTCATTGAATTCTCTTATCACAGATGTCAGCAAATGCTTTTTGTATGTCAGCAAAAGCCACAACCACCTTTCGACTTCAGCATTTCGCTTTAAGAAACTTAAATCACATTTATTCGTGTGCGCATGCGCGCGTATCTGTGGTCTATGTGGGGGTCAGAGGGCAACTTGCAGGGGTTGGCTTTCTCCTTCTGCCATGTGGCACCTGGGCATTGAGCTCAGGCCATCAGGCTTGGAACCATGTACCTTTCCCTGCCGAGCCAACTTACTGGCCCTTCAAACACATTTAAAATGGAATCAGTGAATTTATTAAATAACTTAGGCTTATTGCCCTATTGATATCTTCCAATCAACCTCTCATTTCAATGACGATGAATTCTCCAATAGGTGGGGCTGTAAGTCTAAATCATAATGCATTTTTATTGACATGTATCTTCTTGGTAAATTCTGTTAAGAATTTCAAGTCAGAAAACACTTTGTCCTTGGAGAGAGACAGAGGGGGGTGGGAGGCAGGGGGAGGAGGAGATTAGATTGAGGTATAGAGATACAAAAGAAGTGGGGAGGGGCCAGGGTATAGCTCAGGGCTAGAATGTTTCCCGACTTATATAAGACCTCAGATTCAGTCTCTGTTGCTACTACAACGGAAGTGAACAGAGGGCTTAGCCCATACTCTGAGAAGTGAAGGTAGGCTTAAACACACATGAAACTCAACAGGCTTCATGTGGAAGACTGCATTCAAGACAGAAGTATCAACTCATGGCTACTTCTGAGTCCCTTAGGCATCCCAAAGTTATCTTCCCTTAAATTTGTGATCCCTTCATACTGTGTGCCTTTCTAGAAAGCTGACCACCGCCAGCTACCGAACACTTTGTTAATTAGGTTAATTAATTAACACAGAGAGATAAGTAGTGCCTTGCCTATGAACCGTGGTCCTGGGTCTTTGAGCCACTCCGTGGCTCTTGCTTTGCTCTCGGCACTTTCCTGTGGTATAACCCGTTCAGCTTCCCTAGTAGTTCTGCAGTCATACCAAGTCGGCAATCAGAGGAGGGGCTGAGGCCTTACTCCAGGGAGTATAAATCAGTGTCCAGAACCACACAGTGGGAACAGGCACTGCTGGGCTTCAACCCGGACGGTCTGGCTCCAGAGTCGCAGTCAACCACAGGAAGAGAACATCTTCAGCCATACTCACCTCTCTGAGGATCAGAGTGGCTCAAGAGGGTTCATAACTAACATTATTGTGACAGTGATAAGCTGCCTTGTGTGTCTTAG
Seq C2 exon
GGGAAGCCGCTGCTGAGAAGGACTCTGAGATCACCTTCATTAAAAAGATAAGCTGTACCAACGCCAACCTGGTGAAAGGAAAGCAATATTTAATCATGGGCAAAGAGGCTCTGCAGATCAAACACAATTTCAGTTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018899:ENSRNOT00000025534:46
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:
PF0175916=NTR=FE(25.2=100)
A:
NA
C2:
PF0175916=NTR=FE(41.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTATAAGGTCAGGATCACGTCGG
R:
TGAAACTGAAATTGTGTTTGATCTGC
Band lengths:
222-1604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]