DreINT0062599 @ danRer10
Intron Retention
Gene
ENSDARG00000053864 | elmsan1b
Description
ELM2 and Myb/SANT-like domain containing 1b [Source:ZFIN;Acc:ZDB-GENE-131121-13]
Coordinates
chr17:37402706-37403165:+
Coord C1 exon
chr17:37402706-37402852
Coord A exon
chr17:37402853-37403042
Coord C2 exon
chr17:37403043-37403165
Length
190 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TAATGTTTCATTTCCATCAGAGT
3' ss Score
6.31
Exon sequences
Seq C1 exon
GTGAGCTCCAAGACTGTAGCACAGTGTGTGGAGTTTTACTACACATATAAGAAGCAGGTGAAGATCGGCAGGAACGGCACGCTCGTATACGGAGAAACAGAGCCGCTGGAGACTAAACCCACAACAGAGGAGGAAGTGGACAACAAA
Seq A exon
GTGAGTTCCTGTGGCTTTGTGTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTATATATTTAGATGTATATATTTAGATGTATATATTTAGATGTATATACACCTCCAGTCAAGTCCAGTGCAGTGCAGTAATGTTTCATTTCCATCAG
Seq C2 exon
AGTTCACAGAAACTCGAATCACGGAAAGAAGATGAGGAGAGCAGGAAGTGGGAAGGGTCATGTGACAGGAAGCAAGAAGACAGCCCCGGCAGGGTGACACAATCTCTACAGGCCACCGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053864:ENSDART00000157122:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.469 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PD(34.8=32.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGCTCCAAGACTGTAGCAC
R:
GAGATTGTGTCACCCTGCCG
Band lengths:
253-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]