DreINT0041423 @ danRer10
Intron Retention
Gene
ENSDARG00000067672 | card9
Description
caspase recruitment domain family, member 9 [Source:ZFIN;Acc:ZDB-GENE-060531-94]
Coordinates
chr5:50518858-50519640:-
Coord C1 exon
chr5:50519177-50519640
Coord A exon
chr5:50518996-50519176
Coord C2 exon
chr5:50518858-50518995
Length
181 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
ATTTTCTGTTTGTGTTTAAGGTG
3' ss Score
10.93
Exon sequences
Seq C1 exon
GAATGTATTATAGATGGAGCTGGATGTTACACAAAAGCCACTAAGTTCCCTCCAAAAGACCAATATTGCATCACCCATACACCACAGTAAATGTATTATATTGTGAAATACAGGGAAATTTAAACAACTGCTCTGGTGGAAAAAGGGAACTTGTGTCACGCAGCGTTTTGTGAACATTTCCTTTTTACAGATAAGCTGAATGTGTAATGTCCACTTAACCTTAAAAACTTGCTATCAAACAGCTCTTAACAAGCCAACAGCCATGTCTGATGGTCCAGGGGTTTTTGAGGTGGAGGAAGATGATGAGTGTTGGGCTCGGCTGGAGGACTACCGAATGCTTCTCATCAAGACCATTGAGCCCTCAAGGATAACACCTTATCTGAGACAGTGCAAGGTGCTGAGCAGCGAGGATGAGGAGCAGATCTACAATGATCCAAGTTTGGTTATCAGACGCCGCAAAGTTG
Seq A exon
GTAAGAGTTCTGAAGACAATCTGAAGTTCCAAATATTAAGATGCCAAACACATGCATCCAGTTGTTGAAAGTTGGTGATTATTGTATAACCTGAAGCTCTTTGTTTTATTTCTAAGCATATTTTGTATGGCACCTGGTAGATATACAGAGTTCAGGATTTAATTTTCTGTTTGTGTTTAAG
Seq C2 exon
GTGTGCTGTTGGACATATTACAAAGAACTGGGCTCAAAGGATATGAGGCTTTTCTAGAAAGCTTGGAGTTAGACTACCCAGATGTGTACCGCAAGATCACCGGTAAAGAGCCTGCAAGGGTGTTCTCTGTACTTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067672:ENSDART00000097471:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061916=CARD=PU(58.6=57.3)
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:
GATGATGAGTGTTGGGCTCGG
R:
GCGGTACACATCTGGGTAGTC
Band lengths:
258-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]