DreINT0038970 @ danRer10
Intron Retention
Gene
ENSDARG00000052207 | c3a.3
Description
complement component c3a, duplicate 3 [Source:ZFIN;Acc:ZDB-GENE-990415-37]
Coordinates
chr1:55646501-55646752:+
Coord C1 exon
chr1:55646501-55646590
Coord A exon
chr1:55646591-55646671
Coord C2 exon
chr1:55646672-55646752
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTA
5' ss Score
7.04
3' ss Seq
TCTGACTTCTCTGAACACAGAAA
3' ss Score
4.63
Exon sequences
Seq C1 exon
ATGCCCGCTGTAAAAAGTACTACCACCCTGAAAGAGAAGATTCCGCCCTATACAGACTGTGTAAAGGAGACCTGTGTGTGTGTGCTGAAG
Seq A exon
GTATTACCAATGTAAACATTCAGTTATGATTTTATTCATGTTATTGAGAATAATAATAAACTCTGACTTCTCTGAACACAG
Seq C2 exon
AAAACTGCAGTTACCAAAAGAAAAACCATGTTGATGAATCTAAGCGCTTGATTAAAGCCTGTGAACCCCATCTGGATTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052207:ENSDART00000052683:37
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:
PF076779=A2M_recep=PD(7.3=22.6)
A:
NA
C2:
PF0175916=NTR=PU(9.0=35.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCCGCTGTAAAAAGTACTACC
R:
AATCCAGATGGGGTTCACAGG
Band lengths:
167-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]