DreINT0167128 @ danRer10
Intron Retention
Gene
ENSDARG00000101036 | traf2b
Description
Tnf receptor-associated factor 2b [Source:ZFIN;Acc:ZDB-GENE-030131-5345]
Coordinates
chr5:53803990-53805860:+
Coord C1 exon
chr5:53803990-53804167
Coord A exon
chr5:53804168-53805711
Coord C2 exon
chr5:53805712-53805860
Length
1544 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GACTTTTCTTTGTTCTTCAGCAT
3' ss Score
8.17
Exon sequences
Seq C1 exon
GTGCGACAGTTGGAACGGACGTTAACCACGCGAGATCTGCAGTTAGCAGAATCTGAGCAGTCTTTGCGGGAGCTGCAGTTTTGTACATATGATGGGGTTTTCATTTGGAAAATTGCAGAATTCTCTCGACGCAGGCAAGACGCAGTGGCAGGCCGAGCACCTGCCATGTTCTCACCTG
Seq A exon
GTAAGATTAAGATCACAATAAAAGGCTGTTACAGGTTCTGTGCAGGTTAAGGTCCACCTGAAATTAAAAATGACAATGTTTAGTTTGCTAGCTCACATTCTTATGTTTTAGGTAAATAATTAATTCATGCAATGTAATCTTTTTTTCGGAAAATGTGTTTGTTTTGGTAATTTAATCAAAATGATCATATTTAAATAAAAGTCTCATGTGAGTTTTAAGCTTAATAATCAGGATTTGTTGCATAATGTTCATTAGCACAGATAAATTTTATGATCAGCTCAGAATGTTGAAAAGAGGTTATGCCATATATATATATATATATATATATTAGAGCATAAAATAATAACTTGACTAGTTGATCATTTGGAAAAGTGGCAGAAAGTAGATTTTTCTGATCAGTCATCTGTTGAACTGCATCACAATCATCACAAATACTGCTGAAGACTTATTTGAACCCGCATGGATCCAAGATTTTCATAGAAATCAGTCAAGTTTGGTGAAAGGAATGTCATGGTTTGGGGTTACATTTAGTATGCGGGCATGGGAGAGATCTGCAGAGTGGATGGCAACTTCAACAGCCCGAGTTATCAAGTCATTTGTGCTGCCCATTACCTTTCAAACCAAAGGAGATGGCAAATTCATCAAGAGGGTAGCCCTCCTTCTCATACTTCAACCTCCACATCAACGTTCCTAAAAGCAAAGAACGTCAATGTGCTCTAGGATTGGCCAGCCCAGTGGCCAGACATGAACATTACTGAGCAAATCTGGGGTAAGATAAAGTAAAGAGTCCTGCATGAACGCTTTCTTTTCCATTCCAGATGACTTTATTAATAAGTTATTTGAGTCATTGCAAAGATGTATGGATGCAGTCCTCCAAGCTCATGGGAGTCAACCACAATAGTAATTCTTTTTTGACTGCACCATGACTTTATATTCTATACTGTACATTATTTCTGTTAAATGAAAAGACTTTAGTATAATCAAAGTTAGACCTTACTGTCCTAATTAAATAATTATTTAATAATTATTATAATCATATTCTGTTTTGGTGAAATAAGCGTCATCTAGAGGTCTTCGCCTTTCATATAAGCCACTTCTGATACCAAATGATCAACTTGAAGTCCAGTTATTATTTGATGTTCCTAAAACTTGGATAAGGTGACCAGAATTTTGTCAGGTAGTTTACATATATCCTGTATTATCAGATGGCCATAAAGTGATTAATTTTTTCTAAATTGTTAAAATATTGGTCAAGTCCAGAGACACCTTGATTTTGAAAAAAAAAAAAAAAAAAAGTAATAAGTGGTCATAAATGACAATTTTTTCAATTCAAATGAGTAGCTACTTGGACAAGTGCATAGTACAGTGATTAACTTGGAAAAAAATTAATGATATTAATTCAAAAGTTTGCCATTCCCACCTTACATATGCCATTTTCAACTTTGTCAGTTGAGGAATTGTGAAATTTAATCAGGTAATTTTTAGTTTATTTGTGCAGTTAACTCATTTTTGATCCTGCCTGATGACTTTTCTTTGTTCTTCAG
Seq C2 exon
CATTTTACTCCAGTAAATATGGGTATAAGATGTGTCTGAGACTGTACCTGAACGGTGATGGCACAGGTCGAGGCTCTCATCTCTCTCTGTTCTTTGTGGTCATGAAAGGCAAATATGATGCTCTGCTGAAGTGGCCCTTCAGCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101036:ENSDART00000169531:9
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:
PF115593=ADIP=PD(28.4=45.0),PF0091721=MATH=PU(15.6=36.7)
A:
NA
C2:
PF0091721=MATH=FE(34.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACAGTTGGAACGGACGTTA
R:
GCCACTTCAGCAGAGCATCAT
Band lengths:
310-1854
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]