DreINT0179673 @ danRer10
Intron Retention
Gene
ENSDARG00000055370 | zgc:163121
Description
zgc:163121 [Source:ZFIN;Acc:ZDB-GENE-070424-80]
Coordinates
chr2:28236402-28236860:-
Coord C1 exon
chr2:28236745-28236860
Coord A exon
chr2:28236482-28236744
Coord C2 exon
chr2:28236402-28236481
Length
263 bp
Sequences
Splice sites
5' ss Seq
CACGTACAT
5' ss Score
-2.06
3' ss Seq
ACATTTGCTTTCATTATTAGAGT
3' ss Score
7.94
Exon sequences
Seq C1 exon
GAGGCTCCATGTCCAATCTCTACAGTGTGTTGTTGGCTAGGTTTCATCTCTTTCCGGCAGTGAAGACCCACGGGATGTGTGCGATCCCTCGCCTAGCGATGTTCACCTCCGCGCAC
Seq A exon
GTACATGATCTCATTACTGTTTCCTCCACTCTCAGCAGGCGTGCTGTGACAGTCCAACTTACTCAATGAGACACATAGCACAACACATTTCAGCCATTACTTCCTGACCCGTTGATTTGGAGGTCAGACGTTACGTGTCACAGCACCGTTTTTTTAAAAGTCCTGATAAACTGCTGTTAATTCAAATATTTTATGTCTTGTTACGGTAAAACAAAAGGTCAGCTGGTTTCCTGTGCATGTTTAACATTTGCTTTCATTATTAG
Seq C2 exon
AGTCATTATTCAATCAAGAAGTCTGCGGCTGTTCTCGGCATCGGCACTGAAAATGTGATAGTCGTCAGATGTGACGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055370:ENSDART00000077720:5
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(12.4=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(8.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCTCCATGTCCAATCTCT
R:
GTCACATCTGACGACTATCACA
Band lengths:
191-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]