DreINT0179697 @ danRer10
Intron Retention
Gene
ENSDARG00000052905 | zgc:165423
Description
zgc:165423 [Source:ZFIN;Acc:ZDB-GENE-070720-11]
Coordinates
chr3:39404162-39404603:+
Coord C1 exon
chr3:39404162-39404381
Coord A exon
chr3:39404382-39404473
Coord C2 exon
chr3:39404474-39404603
Length
92 bp
Sequences
Splice sites
5' ss Seq
AACGTATGT
5' ss Score
7.69
3' ss Seq
TCTCTGTGCTTTCTCTACAGCGA
3' ss Score
11.5
Exon sequences
Seq C1 exon
GGTGACTCCGGAGGTCCAATGGTCATCAAAAGCTTCAATACATGGGTCCAGGCTGGTGTTGTGAGTTTTGGTAAAGGTTGTGCTGACCCGAATTATCCTGGTGTGTACGCCAGAGTTTCTCAGTACCAGAACTGGATCTCTCAGTATGTCAGGGCTAGTTTCATTCCTGTTGATGTCAATGCTCCAATTCAGGATGACAGTGAGACCTGTCCTACAAAAC
Seq A exon
GTATGTTGACAAAGCAACATCAAAAGTAATCATTGAAATGACACTTTAGCCTCCATTCACATTTTCTCTTTCTCTCTGTGCTTTCTCTACAG
Seq C2 exon
CGACCTTGTGTGGAGGCTCCGCCAGCGTATATCCATGGATGGCTGTTGTATCTTTTAACGGTAGCCCAGAGTGTGTAGGAACTTTGGTGTCTGACCAATTCATCTTGACCTCTGCCAGCTGCTTTTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052905:ENSDART00000074848:6
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:
PF0008921=Trypsin=PD(19.6=60.8)
A:
NA
C2:
PF0008921=Trypsin=PU(19.3=88.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGACCCGAATTATCCTGGTG
R:
CATGGATATACGCTGGCGGAG
Band lengths:
176-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]