DreINT0103781 @ danRer10
Intron Retention
Gene
ENSDARG00000035505 | nelfb
Description
negative elongation factor complex member B [Source:ZFIN;Acc:ZDB-GENE-040426-765]
Coordinates
chr5:28956825-28957167:-
Coord C1 exon
chr5:28957007-28957167
Coord A exon
chr5:28956925-28957006
Coord C2 exon
chr5:28956825-28956924
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
3' ss Seq
AATCTGCTTAATCCACTCAGGTA
3' ss Score
4.78
Exon sequences
Seq C1 exon
ACGGAAAATGGCATATTGCTGCCAACCCTACAGTCTGCATTGCCTTTTCTGGATCTTCACGGGACTCCACGGCTGGAGTTTCATCAGTCGGTCTTTGATGAACTTCGAGACAAGCTAATGGAGCGTGTTGCCACCATTGCAGAGGGCAAGGAGGAGGACAG
Seq A exon
GTGAATAGAAGCTTTGATTTTGAACCTTGAGTTTACATAGCTGATCATAAATAATACCTCTCAATCTGCTTAATCCACTCAG
Seq C2 exon
GTACGTAAAGCTGGAGGAACTACTTGAGAAAAGCTTTCCCCTAGTGAAGATGCCATCCATACAGCCGGTTGTCATGCAAGTTCTGAAGCATCTGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035505:ENSDART00000133949:2
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:
NO
A:
NA
C2:
PF062098=COBRA1=PU(3.4=47.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGGAGTTTCATCAGTCGG
R:
CTTGCATGACAACCGGCTGTA
Band lengths:
171-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]