DreINT0167131 @ danRer10
Intron Retention
Gene
ENSDARG00000022000 | traf3
Description
TNF receptor-associated factor 3 [Source:ZFIN;Acc:ZDB-GENE-040801-257]
Coordinates
chr17:29219212-29222318:-
Coord C1 exon
chr17:29222062-29222318
Coord A exon
chr17:29219264-29222061
Coord C2 exon
chr17:29219212-29219263
Length
2798 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GACCCATCTTTCTTTTTCAGTAA
3' ss Score
9.66
Exon sequences
Seq C1 exon
GTCATGTCCGCAGGGCGTAATGTGGAACAGCAGATTCCCCTGCAGCAGCGTCCTCCATCTCTTGCCATGCCCTCCATGGCCCAGCGGCCCAGGCCCGAGCCAGGCTTCTCTCCCCTGCACGGCGGTTTCCGGGACCACTTTGTCACGACGCCTGAGCCCAAGTATTGCTGTGAGACCTGCAGGCTAGTGCTCTGTAACCCACGCCAGACTGAGTGTGGACATCGCTTCTGTGAAAGCTGCATCAATGAACTGCTCAG
Seq A exon
GTGGGTGAAGGATTATTAGTGAGGTTTATACAATATCTATAATGTGAATGTTATAATAATGAGGAGCTATCACTAGTCAAGGATTTCGATTTAACCCTAGATTTAGATATTTGATCATAGAGCTGTTTTATGCTCGCATAAAACTTTTTTTAGCTTGATTTTCATTCATACCTTCCTTTCAAGTGTGTCTCCAGTGATAGAGATTTGATTGCACTAACCTGCATGAATGAACAAAAAGAAAGAAAGAAAGAAATAGTTTGTGTTCACACTTATAGTTTGGTTCTGCACTGAAAAAATGCTTTTCCTACATAGAGGTTTTGTCTCGTTTATGGTCTAAATATCTAAATTTTCTTAAATCAAGAAGAACGTTTTAGACGAGCATAAAATACAGTCTTGTTTTCATAAGTAATATGTGAAACTTAAGTGAGTTTTTCCTTAAAACAAGCTCAATAATCTGCCAACAAGGTAAGCAAAATAATCTTGCTTTTGTTTTGAAATACATAAGAGTATTTTGTTCGCCCCATTGGCAGATTATTTTTCTTGCCAGACAATGCTTTTTTCTTATCTAGACAATTCTTCTTAACGTAAGATTTTTTAAATATTTGGATTAGAAAGTTGTTTTAGTTTTTGTAGTATAGTTGGGACGTTTGGTTTGGCCAAAGAAAAAAGAAAAGCTATATTTTAGCTGGTCACATTGTAATTTTTAAGACTGAACCTAATGACACAAACCAAAGCAAACATGATTAACAAAAGTACTTGCTGGACTATTCTGTGTGTACGTAGTGTATTTATATGGTGGTATTTCATCTGAGATCCTTATGTAGGGCCTATATAAAAAGTATAAAAGGATTCAAAACAGAGCTAAGTATTCCTTTTATCAAAAAAAGGAGATGCATTTACTATGTCTGTTGTGAACTTTGATGTGTACTATGATTCAAAAAAATACTTCAGCATTCTGTCCTTTTTATGGTAGCATCTTGTGACACTATGTGCTTTTTTTGGTTAGTTTAGTTGTGTTTGCTCTTTGTTGCATTGATGCATGTCGAACTGCACCTGAGTTTGTTTGGAAGCTGCATGACCTATATTTTTTTACAAATCACAGACTACTAGTTTGGTGCACGCTGCACAGCAGGATTGTGGCATTGTTGTTCGTTTTAAATTAACCAAACTTTCCCTTAACATTTAGAAAAAAAATGTAAATAAGATTTTGGAGAAGAAACATAAAAAAGTGTGCTGTAAGTATATTTTAAGGCCCCCCCCAAAAAATTTACATTGTTAGTGCAAAATTAAGAAATCCAATCATCAAATGTTAGCTAAATGCATTCCTGACCACCACTTAATGAACAGTAGATTCAGTCACTTGAATCTGACCATATAGCTCATCTTGGGTGCTTTTACTCCTTGATTTTAATAAGATAAAGTAGATCATCATGTGATAAAGCCAACTGCTTAATATTATCTAAATCCAATTACTTTAATGAGATGGTTCACTCACTAGTGAAAAATTTCTGGCCATTTATTCATCCTCAGTCCATTCAAATGTTGTTGACTTTTTTTCTTTTCCTGTAAAACATGCAGTTTTTTTTTTTTTTTTTTGCAGAAACTCCTTGGTGATAGTTAAATTCTAGGTGACATCCACCTTTCCTGTGTGAGATTAAAAATATGTACCCAGTGTTAACTGAGAGAACATTATTTAAAAAAAAAATAGTTTTAATAACCTATTTATGTTGTCTTTGACATAATTGCAACATTTCTTTTGTATTTTCAAGATACTAGTATTCACCTTAAAGTGAATAAACTAAATAAAATAAGTCACCTTTATCTCGAATGGCCCTAGAGTGAGTGAAAGCTTTAAAACAAGCATTAAGAAAGAGATATAGCAATCTTACGCAGTTGACTTAATTTTAGTTTTGTTTTTAAACTTATTTTACATGAAAGTTTATGTGGTGTATTAGGGCTGCACAATATCTCCTTTTAGCATCGATATCGCAATGTATGCATCTGCAATAGTCACATCATGAAGATATTCAACATCCAGTCTGAATTATAGTTGACAAGGAACTACAGAAAATGTATTTATTCACTTTTTTAATATAGAATTTATATGATTTATGCAACAACAAAAAACATCTTTCTTGCTTTTCTAGTCTAAGTAAATATCTGCATTTCAAAGCGAAAACATGATGATTTAATTTACCTCACGCGCAGATTATTTCCCTAAAACAAGCAAAAAACTCTTTATTTTTCACTTATTTCTTCTGATGGTAAAAACTAAAGAATGTTTTTACTTGCTCTAAGAATGTTTTTGATATTACGACTAGAAACAAAACTAAACTAAGTAAGAAAAGCAATTTTTTTTTTTTTTTTGTATTTTGATCATTCAATTTCTGTACCCAAATACTGTTAGACTCCCTGGAAGACCATCAAATAAAGCTATTCAAACCATCTTCTGAAACTGTATTCATATCACAATATTTATCGCAGAAAAATATAATACCGCAATATCATACTTTTCCAATATATGTACTGATGTTCGCTTTTTTTTTTTTTTTTTTGGATTACTGGTTTGTATTGTAAAAAGAAATAAACTAAACAAAAAAATAAATAAATAAACTAAAAAGTAAAGCTATCTCTTTCATGTTGAAAAACCTGAATTTCAACACTAACCTTCAAATCACTACTGTAAACATCTTTGCTAAAAAATCTAGGGTATTTCCAGGATTTTATTTATAAAACACCAGTCATTTGAACTACTACTACAAAGTTTGCTTACATTTAGACCCATCTTTCTTTTTCAG
Seq C2 exon
TAAGCCTAACCCAGTGTGTCCAGCTGATCTACTACCACTTTTTGAAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022000:ENSDART00000031458:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.412 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PU(76.3=34.1)
A:
NA
C2:
PF0009720=zf-C3HC4=PD(21.1=44.4)
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:
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]