DreINT0178104 @ danRer10
Intron Retention
Gene
ENSDARG00000004748 | zgc:100868
Description
zgc:100868 [Source:ZFIN;Acc:ZDB-GENE-040801-33]
Coordinates
chr3:39344595-39345107:-
Coord C1 exon
chr3:39344945-39345107
Coord A exon
chr3:39344864-39344944
Coord C2 exon
chr3:39344595-39344863
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAAGTATAA
5' ss Score
-0.82
3' ss Seq
CAGTTGTTGTCATTTTCCAGCCC
3' ss Score
6.44
Exon sequences
Seq C1 exon
TGTGTGGTACGGCACCTCTCAACTCAAGGATAGTGGGAGGACAGAATGCACCGGTTGGCGCTTGGCCATGGCAGGTCAGTCTTCAAAGAGACGGCAGCCATTTCTGTGGTGGATCTCTCATTAACAACCAATGGATTCTGACTGCAGCCCATTGCTTTCCCAA
Seq A exon
GTATAAAGACAGGCAACAAGTCCTTTCAAAATACTGTATGTCATTTACCTGATGTGGTTAACAGTTGTTGTCATTTTCCAG
Seq C2 exon
CCCTTCGACGACTGGTCTACTTGTATATTTGGGCCTACAAAAACTAGCATCATTTGAATCATACTCGATGTCCAGTGCTGTCTCCAATATCATAAAACATCCAAACTACAATAGTGATACTGAAGACAATGACATCACTCTTCTGCAACTGGCCTCAACAGTGAGCTTTTCGAACTACATCAGACCTATCTGTCTGGCTGCATCCGACAGTACTTTCTTCAATGGAACTTTGGTCTGGATCACTGGATGGGGGAACACTGCCACAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004748:ENSDART00000135192:3
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:
PF0008921=Trypsin=PU(19.2=80.0)
A:
NA
C2:
PF0008921=Trypsin=PU(41.0=97.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCTTCAAAGAGACGGCAGC
R:
AGACAGCACTGGACATCGAGT
Band lengths:
169-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]