DreINT0114938 @ danRer10
Intron Retention
Gene
ENSDARG00000060184 | pkn1a
Description
protein kinase N1a [Source:ZFIN;Acc:ZDB-GENE-061207-17]
Coordinates
chr1:45136645-45136890:+
Coord C1 exon
chr1:45136645-45136720
Coord A exon
chr1:45136721-45136798
Coord C2 exon
chr1:45136799-45136890
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATT
5' ss Score
5.88
3' ss Seq
GTCATATCTGTGTCTATCAGGTG
3' ss Score
8.47
Exon sequences
Seq C1 exon
TAAACAGAAGAAGACTTCTCTGAGCCTGCAGGATTTCCGACTAATTGCAGTTCTTGGCAGAGGCCATTTTGGAAAG
Seq A exon
GTGATTTTCTGCCTTCTTCACCCTCAGCTTCTCTTTCTCTTTGAGTTTAGTTTCTCATGTCATATCTGTGTCTATCAG
Seq C2 exon
GTGCTGCTGGCGGAATATAAGAAGTCAGGGAGTATGTATGCCATTAAAGCTCTAAAGAAAGGAGACATTGTAGCCAGAGATGAAGTAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060184:ENSDART00000132555:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(5.0=50.0)
A:
NA
C2:
PF0006920=Pkinase=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGACTTCTCTGAGCCTGCA
R:
CTTTCTACTTCATCTCTGGCTACA
Band lengths:
160-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]