DreINT0179308 @ danRer10
Intron Retention
Gene
ENSDARG00000071233 | zgc:158254
Description
zgc:158254 [Source:ZFIN;Acc:ZDB-GENE-070112-2222]
Coordinates
chr23:6849673-6850025:+
Coord C1 exon
chr23:6849673-6849852
Coord A exon
chr23:6849853-6849934
Coord C2 exon
chr23:6849935-6850025
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAC
5' ss Score
7.48
3' ss Seq
CGAGAGTGTCTTCTTCACAGATA
3' ss Score
5.43
Exon sequences
Seq C1 exon
AGTGACCCGTTTAACACGACTGCCATCCTCATTGGTCGATCTCAGCGAGGCAATGGAAGTTGTCCGTTATGAGCAGGGTGGCTTCAGCCACGCCCACCACGACAGCAGCCCCACCCACCCCGACAACAGCTGCACCCACACACATCTGGCAGCAAACACCTCCAACCAGGTGGCATGCAG
Seq A exon
GTATACTCCTGATAAGATATTGTGCCTAATTGAACTGAATGTTTAAAACATTACCAGATATACGAGAGTGTCTTCTTCACAG
Seq C2 exon
ATATCTGACGGTCTTGCTGTATCTGAACTCTGCGGATAGCGGAGGAGAAACCAGCTTCCCCGTCGCTGACAACCGGACTTATGAGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071233:ENSDART00000105179:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.226
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=PU(29.6=68.9)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(21.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTATGAGCAGGGTGGCTTC
R:
AGCTGGTTTCTCCTCCGCTAT
Band lengths:
172-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]