DreINT0179674 @ danRer10
Intron Retention
Gene
ENSDARG00000055370 | zgc:163121
Description
zgc:163121 [Source:ZFIN;Acc:ZDB-GENE-070424-80]
Coordinates
chr2:28236257-28236481:-
Coord C1 exon
chr2:28236402-28236481
Coord A exon
chr2:28236312-28236401
Coord C2 exon
chr2:28236257-28236311
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CTCTGGTGTCCCTCTGTGAGGGG
3' ss Score
-3.66
Exon sequences
Seq C1 exon
AGTCATTATTCAATCAAGAAGTCTGCGGCTGTTCTCGGCATCGGCACTGAAAATGTGATAGTCGTCAGATGTGACGAAAG
Seq A exon
GTAAGGCTGATGGACGGAATAATAATATCATAATCTGCAGTGTATCCAGCTGACCAAGATTAACTAAACTCTCTGGTGTCCCTCTGTGAG
Seq C2 exon
GGGGAAGATGATCTCATCAGAACTCAACTCCAGCATTGAGGAAGCAAAGTCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055370:ENSDART00000077720:6
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:
PF0028214=Pyridoxal_deC=FE(8.5=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(5.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCATTATTCAATCAAGAAGTCTGC
R:
CTTCGACTTTGCTTCCTCAATGC
Band lengths:
135-225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]