DreINT0103777 @ danRer10
Intron Retention
Gene
ENSDARG00000035505 | nelfb
Description
negative elongation factor complex member B [Source:ZFIN;Acc:ZDB-GENE-040426-765]
Coordinates
chr5:28957007-28959774:-
Coord C1 exon
chr5:28959504-28959774
Coord A exon
chr5:28957168-28959503
Coord C2 exon
chr5:28957007-28957167
Length
2336 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGA
5' ss Score
5.94
3' ss Seq
TGTATATTGATTTTTAACAGACG
3' ss Score
7.29
Exon sequences
Seq C1 exon
GATGTATCAGAAACAAGAGTCTGTTGACGAGGCTGCACGGCCAGGAAGTGTGCGATTTACAGATAACGAGCAATGCACATCTAGCCAACATTTATGTTATTTCTGCTGTCAATGCATGTAATTTGATATCGTTTTGAAAGTGGAGCCTTCACTTAGAGAGCGTGTGAAAATGTTCGCCGGGTTACCGGAGCTGGGAATATCCAATGGAGAGGATCTGAAAGAAACTCTGACTAACTGTACTGAACCTCTCAAAGCAATCGACCAGTTTCAG
Seq A exon
GTTAGATCTTTACAAACGTACACATGTCCTGTCTGTCATGTTCGTGATTACATTTTTCATCAGATGTCTTGCATTAGCCATAAAGCACCTCACGCTCGTGCTGCAGTCTTCTTCATTGTTTATAATGGGAGGATCTAATGTCTGCCAGCGCAATTCATCATTTGACAACCTGTTACCATACATATTGCCATATATAACATAACTAACATAATATAATATTAATATTAACTAATAATAAAACATATATAATAACCTCCCCGCAATATATCTCTTGAGCTCGTTTTAGTTACGTTACTCCTAAGCAGTTCCTTTTAGGACCTCATAACTTGAACGTACTGATAACTAAAAAAAAAGTATTAATACTTAATGCTTACTCTTGTTAAAAAAAAGTATTTAGGCTTAAGAGGTAAGATTGGGTCTTAATATAAAAAAAGGGGTCCTGCTTTTCTCTTAAAGCTCTTAAATACTTGGTGTCATTGCTTGATAATGGTGATGTTTTATATATGAATGCCTCAACCAAATGTCCTCAGCCTTGACTCTGTTTATCACAGTGCTTTGAGGTTTGTTGCAGCCTGTCGTAGACTAACTCACTATTGTGAACTGTATGCCAAAGCTGAGTGGCCTTCTTTGAATGTAAGAAGGTACACCCCCTGGATGACTATGGTCTACAAGGCTTTTCTGGGTCTGGCGTCTTTTTACCTAAGTTCCCTTTTTTTATAGGTCAAAAAGCCAGTATGCCCTACGTTCAAGTGAATCTTATCATTTGACTGTTTCACGGGTTCGAACTGAAATGGGGAGGCGAGCCTTTATCCTGGAATACTCTTCAGTCTGAACAGAAAATGTCTGAGCTCATCCCAATTAAATCTTTTCGCTCTTTATCTCCATCTTTTTAACAAACATCAACAGTCCATTTCCAATGTATGTGTTTTTAACATATTATAATGTGATATGGCTGAATAACTAAACTGTATTTTTAATATAATCTTTACTTTTTACTTATTATTATTTTTTTTTCATAAGTCGTGTGTTGCTGACATCCTAGCCTGGTCACCCTTGTAAATGATATCTTGATCTCAATTGTTTTTTTTATCTGATTAAATAAAGAAACATATCGTATAAGTGCACTAAACTTGATTAAGCACGCACCTTTTGTCTACTCTTATTTCTGTTGAACAATTAAAAGCTGTACATGCAGATAAAGTAATATTACCATTAAATAAAAGGCCACATCATGCAAGAGAGTAAACTTTATGGCAGCTTTTACATGTCAAATTCAAAGTTTTACTTTAAAGTACACGTTAAATATATGAACATAATTTAGAGTAGTTTTAATATTATTTACATCATAAGCATAATTGATAAACATTTTAAGTCTACTTTGGCAAAAAAAAATTTATTTATTATTATGTTTAAAATAAATATATTAATTGTTCTAACTTCATCGTTTATGATTTTTAATTACAAATATATTTAAATAGAGTAGAACATGCATTCAAGTTTTATGTAAATGATTGTTTACTATAAATCCTTGTCAGTACATTTAGTGCTCTATATTAAGTATACTTCAACCATACCTCAAAAGACAGTGAAAATGATTACAAATTTATTGGTTATTTTCCAATTATTCCTATACCAGTTCTAATAATTTTCAAATTATCCTATTTTGTGCTGGACAGAAGAAACAAACCCGTAAAGGTTTTATTAATTCATATTAATTCTATACATTTATATTTAAAGGTATTTACATGGGCAAATAAGTTTGAGGATGAGATTAAACTTGTTTTGAGATTATTCTAACTGGGGCTGGAAAATATGCATTATTGTTGTTGAGAATCGCATCATTTTTTAAAGACATTTTCCTAGAAAAATGCTATTTTTTAGCTGTTTTAAAATAATTCATTTAGTGTTATTAAAATAAATAGGCAAAAGATATTTAGGTCTAATCAATTCTAATTCAAACTAAAAAAACTGTGTCAAGATGCAAACATTTTAAAACACTATGAATGAGTGAAATCCTCAGCAGATATTCTGACTCTGATTAGCAATAGCATAACTAATAGCAGAACAGCAACTGCTGGGGTGGGCGGTATAAAGTTTTTAAGGCCCCATCTGATTAGTAGAACTTAGATAAATAACCAATGCATAAATTGAAACTAATTGATCTCACATGGATATTTTGGATATGCTGTTATCGCAATAACAATAATTTTGCAATATATTGTGAAGCCCTATTCTTATAGCAACTTGCTGCAAAATAAAGTCTAAGACATACTTATCTATGACATGATGATCTATCAAAAATTACTAATGCCTTTCTGTATATTGATTTTTAACAG
Seq C2 exon
ACGGAAAATGGCATATTGCTGCCAACCCTACAGTCTGCATTGCCTTTTCTGGATCTTCACGGGACTCCACGGCTGGAGTTTCATCAGTCGGTCTTTGATGAACTTCGAGACAAGCTAATGGAGCGTGTTGCCACCATTGCAGAGGGCAAGGAGGAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035505:ENSDART00000133949:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.147 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]