DreINT0055707 @ danRer10
Intron Retention
Gene
ENSDARG00000035507 | ddx31
Description
DEAD (Asp-Glu-Ala-Asp) box polypeptide 31 [Source:ZFIN;Acc:ZDB-GENE-030131-3973]
Coordinates
chr5:29126464-29127099:+
Coord C1 exon
chr5:29126464-29126603
Coord A exon
chr5:29126604-29127014
Coord C2 exon
chr5:29127015-29127099
Length
411 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TTGGCTTCTCTATTCCTCAGTTT
3' ss Score
7.33
Exon sequences
Seq C1 exon
TACAATCCTCCAGTTTCTGCAGCAGAATATGTTCATCGTGTGGGCCGCACAGCTCGAATCGGAGCTCAGGGTAGCAGCCTGCTCTTTCTCACCCCCTCCGAGACCGCTTTTGTGGATGTGCTGGCCAATCACAACATCAG
Seq A exon
GTGTGTGACAGGCCTCTCTCTTATCTATCAGGTACTTCTCATTTCAGTGAACTCCTGTGGGACCAGTCCTCTGTGATGGTGGATGAGCTCCAGTCCCTGACAATGTGATTAAAGATGGTCAAACTGCTCTTGTCTCTGTTCCAAAGCCCACAATACAGCAGTCGAGAGCTGGACTGATGAGTCTGTGCTGGTGTGAAGAGAAAACACACTCTCAGTCTCTCTGCGTGAATCTGCTCTGCTGGCACAGGGGCTCTAGCATTTGCCTCATGTTAAGGTTTAGAGTGCTAAAGGAAGGCGTTTGGTTGGGTTACTGTTGCAGAGCATGGTCTGTAAAGCTGACTAGAAAACTAGTGTGTATGTTTTATTTATTTTTAATATATGTCCTCAACTTTTGGCTTCTCTATTCCTCAG
Seq C2 exon
TTTGTCTGAGATGAAGATGGTGGACATCCTGTCCACACTAATGAAAGACGAGCGCTTTAAAGGCAGAGGGAAATGGGACAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035507:ENSDART00000148314:16
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:
PF0027126=Helicase_C=PD(52.6=42.6),PF047579=Pex2_Pex12=PU(2.6=8.5)
A:
NA
C2:
PF047579=Pex2_Pex12=FE(18.2=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:
CAATCCTCCAGTTTCTGCAGCA
R:
TTGCTGTCCCATTTCCCTCTG
Band lengths:
222-633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]