RnoINT0029382 @ rn6
Intron Retention
Gene
ENSRNOG00000051470 | Card9
Description
caspase recruitment domain family, member 9 [Source:RGD Symbol;Acc:708370]
Coordinates
chr3:3804822-3805539:-
Coord C1 exon
chr3:3805344-3805539
Coord A exon
chr3:3804960-3805343
Coord C2 exon
chr3:3804822-3804959
Length
384 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TCTGTCTCTTCTGCCTGAAGGTG
3' ss Score
9.25
Exon sequences
Seq C1 exon
CCTACAGAGGACATGTCAGACTATGAAAATGACGACGAGTGCTGGAGTGCCCTGGAGAGCTTCCGGGTGAAGCTAATCTCTGTCATTGACCCCTCACGAATCACACCCTATCTGCGCCAGTGCAAAGTCCTGAACCCCGATGATGAGGAGCAGGTGCTCAGTGACCCCAACCTGGTCATCCGCAAGCGGAAAGTGG
Seq A exon
GTGAGGGCTGCTCCCATACCAGCAGGGCCCAGTCCCTCATCATCCCCACAAGACAGCCAGCCAGAGTCTGCTACCTCAGCCCCACCCAGCTCCATCTCCATGTAGGATATGAGTGAGGTCCTCCTCCCCTCTTGTCATGTCTACCTGCTGCTGCCCAGTGGGGGAAGGGAGTCCCCACCATTGTTCAGATCCTCAGAGCCACCAGAGTAAAGACAGCACCCTGTCCCACCTAGACTGAGACCTGCAGGGTGCCTTATGCAATGGCCCAGAAGGGAAGGGGGTGTCTAGAGCTTAGGTTATCTACCCAGAGTAACCATCCTAGCCAGCCCCAAGGGCCTCTACCTACCCAGCCCTGGGCCCTGACTCTGTCTCTTCTGCCTGAAG
Seq C2 exon
GTGTGCTCCTGGACATCCTGCAGCGGACAGGCCACAAGGGCTACGTGGCCTTTCTTGAGAGTCTGGAACTCTACTACCCTCAGTTATACAGGAAAGTCACTGGCAAGGAGCCAGCGCGTGTCTTCTCCATGATCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000051470:ENSRNOT00000091484:2
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:
PF0061916=CARD=PU(58.6=82.3)
A:
NA
C2:
PF0061916=CARD=PD(40.2=74.5)
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:
ACAGAGGACATGTCAGACTATGA
R:
TGATCATGGAGAAGACACGCG
Band lengths:
328-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]