Special

RnoINT0053390 @ rn6

Intron Retention

Gene
Description
EGF-like-domain, multiple 7 [Source:RGD Symbol;Acc:708507]
Coordinates
chr3:4040087-4040491:+
Coord C1 exon
chr3:4040087-4040211
Coord A exon
chr3:4040212-4040374
Coord C2 exon
chr3:4040375-4040491
Length
163 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GCTGACCCCATTCCCTGTAGCCG
3' ss Score
5.94
Exon sequences
Seq C1 exon
GCCACAAAAAGAAGAAGGCTACCCCACTTACAGATGCAGACCATGTGGGGGTCCGGAGAGCTGCTTGTAGCGTGGTTTCTAGTACTGGCAGCAGGTGGTACTACTGAGCATGTCTACAGACCCAG
Seq A exon
GTGAGGAAGGGCTTGGGCCTTGGGGTACTAGGGTCATGACCAGAGGCCCTTAGCTCTGCCCACAGCATGCCCCAATACTTGGAGAGAATCCCCATGTTTCTACATACCTGGGCTGGAAGAGTCCTGGCTCTAGACCATTCCAAGCTGACCCCATTCCCTGTAG
Seq C2 exon
CCGTAGAGTGTGTACCGTGGGGGTTTCCGGAGGCTCCATCTCAGAGACCTTTGTGCAGCGTGTATACCAGCCTTACCTCACCACTTGTGATGGACACAGAGCCTGTAGCACCTACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019388:ENSRNOT00000026318:3
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:
PF075468=EMI=PU(0.1=0.0)
A:
NA
C2:
PF075468=EMI=PU(52.7=97.5)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACAAAAAGAAGAAGGCTACC
R:
CGGTAGGTGCTACAGGCTCT
Band lengths:
242-405
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]