DreINT0142749 @ danRer10
Intron Retention
Gene
ENSDARG00000004386 | si:dkey-153k10.9
Description
si:dkey-153k10.9 [Source:ZFIN;Acc:ZDB-GENE-030131-3893]
Coordinates
chr4:9681477-9682196:+
Coord C1 exon
chr4:9681477-9681740
Coord A exon
chr4:9681741-9682022
Coord C2 exon
chr4:9682023-9682196
Length
282 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TGTGTTTTGTGTGTATCCAGGAG
3' ss Score
9.29
Exon sequences
Seq C1 exon
GTGCGTCAGTATGTGAATGACATCGCAAAGATCTACTCGATCACGGTGACTAATGCGATGGATGGTTCAGCGTCTGGTTGCCATGCTTGTGCAATGATGAGTCAGCAGGACGGCTCTTCCTGCGTCCCCTGTCCTGCTGGACACTTCATCAACAAAGACACCAACCAGTGCCAGGAGTGCCCGCCAAACACATTCCTCTACGGGCATCACATTTACGGGCACGAGGCCTGTCAGCCATGTGGTCCTGGAAGCAAGAGCAATAAG
Seq A exon
GTATGAGTAAAACAACAGGAAATGCATGGCAATAATCAGAGGTTTCTTCCACATTTATATAATGCATAACATCTTAAAAATGCATTTATATTTGATTGAGGCCAATAATAATTTATATGATAGTAAGACTGAAAAAAATACTAAATACTGTTAAAAGCTATGAGTTATTATTTAATTATTTAAAGTAATTAGTAACCAATAAAATTATGATAACTAATAACTTTTCTGATTTTGATTTCAACATAGTATAACATGTAAAATGTGTGTTTTGTGTGTATCCAG
Seq C2 exon
GAGCACTCTGTGTGTTTTAATGACTGCACCTTCTCACACATGGATCAGAACCGAACGTTGAACTATGACTTGAGTGCCTTAAGTTCAGTTGGATCAATCATGAATGGGCCTAGTTTCACCTCCAAGGGAACTAAATATTACCACCAATTTAATATCAGTCTGTGTGGGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004386:ENSDART00000004604:14
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:
PF076998=GCC2_GCC3=WD(100=56.8),PF075629=NCD3G=WD(100=47.7),PF076998=GCC2_GCC3=PU(80.4=46.6)
A:
NA
C2:
PF076998=GCC2_GCC3=PD(15.7=13.8)
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:
GTGCAATGATGAGTCAGCAGGA
R:
TTGGAGGTGAAACTAGGCCCA
Band lengths:
301-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]