DreINT0081276 @ danRer10
Intron Retention
Gene
ENSDARG00000105177 | ilf3b
Description
interleukin enhancer binding factor 3b [Source:ZFIN;Acc:ZDB-GENE-030131-587]
Coordinates
chr3:13698380-13700072:+
Coord C1 exon
chr3:13698380-13698455
Coord A exon
chr3:13698456-13699842
Coord C2 exon
chr3:13699843-13700072
Length
1387 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAC
5' ss Score
4.68
3' ss Seq
TCTGTTTGTTTTCCATGAAGCCT
3' ss Score
5.42
Exon sequences
Seq C1 exon
ACCAACTGGAGCAGCTTTCCTCTGCCACATATAGACCTACACTGCCAAACTGAAGACTTACTTTGTACCCATTATG
Seq A exon
GTAAACATGCCTATTTCAGTTATTATGCATATTTTACTAAAACTACATATGATTTGACACTAATGCTAATTAATATACCAGGATTTACTCGCCACATTAATCAGGAAAGGTTTATTTAAAACTAAATCTGAAATAAACAAAGAATCAATAAATTAGCATTTCAAATTTGGTTTGTAAATTTCATAATGTCTGCATAAGTCTTAATTTAACTTTAAAATGCATTTAAATGTAACTTTTAAATGAAAAGAATATTATAAAATATAAGTATGATTAGAAAGTCATGTGTCTGTAAAGACATTGCATTGTTTTTCTGAATGCAAAATTGAATTGACATTGTAAAATTATACTGACTAACAGTAGAATGATGATTAATTAATTTGCCACATTAATTGGTAAATTAAGCTTATTTAATGATTTTTTTTTTTTTTTTACTATTTACTGTTTCTATACTTGAGATCAGTGTAAACTTTAATTGTTACTTTTAGTATATGAATAATAGAGGAAAATATATTTGAATAATAGAAAAATAAATTGAGACATTAAAATATCGATAAAGATATAAAAATATCTTTGAGCTCAAACATTTTTTAGACCGCCATCTCCGTGCCAGATAAATACGATCCATCCCCGGATGCCAGATCTTGTCTGAAAATGTCTGTTTCTCCAGGTATATGGAAAACAAGTCAGCAAAGTTTCCAATATCTAAACCTGTTAACCAGTATTCAACTCAATTTACAGTCTCCATCAATATAAAAGTTGACTGAGAAAACCAGAGAGAAGTAGGAGACAAAGAAATGAAGATAAAGAAAGAGCAGAGTTTATTGAATAATCTTAGTTGCGTATGATTCAATGCTCAGACTTCGTCTGACTCTGATAAATCCAACAAGTGTTATTATACCACAAGCAACAGCAATGGAACATTACTGCTTCACAACATTGTCCAGAGACAATACAGACCTTGAAATGGAGACATTCTCTTATCTCTTACTAATGAAAATAAGCTTTGCTTGAATCCACAGTCATAAGATTATAACAATATGGAAAAAAGGAAACTATAATGAAGCAATAATTTTATAAAAATAGTAATAATAAAATATAAAAAACATAATAAAATGGCAAATAATCAATTAATAATAATCAAATCATTTACTACTAATCAATAAAATCATATGATAATTATATAAATGACTTGGGATCATATGATTAAAAAAGATAATTAAATAAAGAAAAAGGGCATAAAAACAAAAAAAATAATAAAACAACAAATAGTTGCTTTGAAACAACACACTCATAAGTTTGCTACAAGGATTCTCAGATCCTTAGTTAGATTCTTCAATTTGAACTGGCTTTTGTTATTAATGTTTTCCTCTGTTTGTTTTCCATGAAG
Seq C2 exon
CCTCCTCCTCTTCGTCATCGCTCCATGCGCATCTTTGTGAACGACGACCGCCATGTGATGGCCAAACACTCGGCCATCTATCCCACCCAGGAGGAGCTGGAGGGGGTGCAGAACATGGTGTCCCACACAGAGCGTGCTCTCAAGCTTGTGTCTGATTGGCTGGATGACCAGGAGAAGGGAAATGCCAAAGTAAATGCATTGGACACAGATGGAGAAGGGGATAAGGAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000105177:ENSDART00000162317:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.506
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACTGGAGCAGCTTTCCTC
R:
TCCTTATCCCCTTCTCCATCTGT
Band lengths:
302-1689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]