DreINT0179128 @ danRer10
Intron Retention
Gene
ENSDARG00000104436 | zgc:153426
Description
zgc:153426 [Source:ZFIN;Acc:ZDB-GENE-060929-220]
Coordinates
chr3:45418736-45419851:-
Coord C1 exon
chr3:45419743-45419851
Coord A exon
chr3:45418847-45419742
Coord C2 exon
chr3:45418736-45418846
Length
896 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
ATATTTGTCTGTTCATTTAGGTG
3' ss Score
9.87
Exon sequences
Seq C1 exon
TTCTGGGAGGTTATTAGTGACGAACATGGGATTGATCCAACTGGAACATATCATGGAGACAGCGACCTTCAGCTAGACAGGATCAGTGTTTACTACAATGAGGCCACAG
Seq A exon
GTATTTTTGTAAATATCACATTGGCTTCAGATTCATGAACTATTAGCATGCATAATAGCTAAATAGCAGAATAGCAAATAGCAAAGCAGAAATTTGTAGTTATATATAGGCTGAGACAATCTTGTATTGTGGGATTGTGAAGCATTATTGTTGAAGTAAAAAATTTGGTAACCATTAAAAAAATGGAAAAATAATGACAATAAAAATAAAAATATACTGAACATGTGCATTATTGATAAGAAAACTTTGTAAAAACTGTGCTAGGCAGAAATTAGAATGAAATATGTAAAAGAAATTTGTTTAGGCAATTAACTGAAATTAATAATCAAATCAACCAAAACAAAATGAAATAAAAAAAAATCTATAATAATGAGAACTGTTTAAATATATTTATAAGTAACAAATGAAGTAAAATTTTAAAATGCTGATTTAAAACATGAATTTAATATATAATAAAATAATATAGTTAACATTATAGTAAACAAATAAACAAACATTGTGCCAATATAGACATTTTCAGATACAATTTTTATAATATTAAACAAGACATATTTATAATTATTCTAAATTTTAAATCCATAATAAAATGTATGTTTTATTTTTACATTTTAAACCCTGAAAAAAAAATACACCAAAACAGATTTTAAAAACTTTTAAAATCATGTTATCATCTAGGTTAACACCTTCTTTAGCTTTTACACAAAATTCAAGCAACACAATTACTGCTCCCATCAAAACAAAAGAAGGGCAAAAACACTATTTACTTCTATAAAAACTAAATGGCAACACAGCTTTAATAGACTTTTGAACATGTTTGTGCACAGACAATTACATTTACATAATATAGAAATAAATGTCTCAACCGTATGACTTACTATATTTGTCTGTTCATTTAG
Seq C2 exon
GTGGGAAGTATGTCCCCCGTGCCATCTTGGTGGATCTGGAGCCTGGCACAATGGATTCAGTTCGTTCTGGACCCTTTGGCCAAATTTTCAGACCTGACAACTTTGTGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104436:ENSDART00000161507:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.2=100)
A:
NA
C2:
PF0009120=Tubulin=FE(16.7=100)
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:
TGGGAGGTTATTAGTGACGAACA
R:
ACACAAAGTTGTCAGGTCTGA
Band lengths:
214-1110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]