DreINT0011216 @ danRer10
Intron Retention
Gene
ENSDARG00000039665 | FO834840.1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E7F8C1]
Coordinates
chr20:7383992-7384466:+
Coord C1 exon
chr20:7383992-7384234
Coord A exon
chr20:7384235-7384344
Coord C2 exon
chr20:7384345-7384466
Length
110 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
TTGACTGTCTTTACATTTAGTGA
3' ss Score
7.27
Exon sequences
Seq C1 exon
ATGTAAGTGCTTCACTGCTTGCTGAAGATGACTTATGGCCTGGGTTTTACCAAATCACCATGGAAATCAGAGACAAGCAAGGGCTGGCCTGCCCCACAGAGCAAGTCCTCAATTTAGAGGTTTGCACATGCTCAGAAGGGGTGGGTTGTGGTTCAAAAATTGGAGAAGTTCATACAAGTTCATCAGCAAATTTTGGATTACCAGGGATTGGTTTCCTGGTATTAGGATTCCTCTCCCTTATAT
Seq A exon
GTGAGTATGATGACTAAAGTTCACGAGCAAATTTGGTCTGCAACTTTTTTTGTGGTAGCACTAAAAATAAGTCACACATTTAACATGCATTTGACTGTCTTTACATTTAG
Seq C2 exon
TGATGCTCTTGTTCTTGATAAAATGTGAATGTGGAAGCACTGGAAATAAGTTTATTGACTTGCCATTTGAATCCAAGCAACACCTCATCTCCTACAGCACAGAGACAAGAGAAGAACACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039665:ENSDART00000057981:11
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=0.073
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CCCCACAGAGCAAGTCCTCAA
R:
GCTGTAGGAGATGAGGTGTTGC
Band lengths:
250-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]