DreINT0142750 @ danRer10
Intron Retention
Gene
ENSDARG00000004386 | si:dkey-153k10.9
Description
si:dkey-153k10.9 [Source:ZFIN;Acc:ZDB-GENE-030131-3893]
Coordinates
chr4:9682023-9682514:+
Coord C1 exon
chr4:9682023-9682196
Coord A exon
chr4:9682197-9682324
Coord C2 exon
chr4:9682325-9682514
Length
128 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TTACTCTCGCTGTTATGCAGGGG
3' ss Score
6.57
Exon sequences
Seq C1 exon
GAGCACTCTGTGTGTTTTAATGACTGCACCTTCTCACACATGGATCAGAACCGAACGTTGAACTATGACTTGAGTGCCTTAAGTTCAGTTGGATCAATCATGAATGGGCCTAGTTTCACCTCCAAGGGAACTAAATATTACCACCAATTTAATATCAGTCTGTGTGGGGCTGAG
Seq A exon
GTAAGCTCACATGCATCCATCTCTATCTTTAGACTGCTAATATTAGATTGCTTTAATAGGAATTAGAAATAGAAACAGCAGATTTTTTTTAGCTTTTAAGAAATCATTTTACTCTCGCTGTTATGCAG
Seq C2 exon
GGGAGGAAGGTGGCAGTGTGCACTGATAACGTCACAGATATGTCCAGCAAGGACCTTCAGAATGAATCCGCTGACCTCAACAATTTTGTCGAGACTTTTGTGTGCCAATCGACCATCATCCCTGCAGATGGACGCGGCTTCAGATCAGCACTGTCATCTCAGTCCATCAGCCTGGCTGACACTTTTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004386:ENSDART00000004604:15
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=0.016
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=PD(15.7=13.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTAGTTTCACCTCCAAGGG
R:
GAGAAAAGTGTCAGCCAGGCT
Band lengths:
256-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]