BtaINT0152142 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013475 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr21:69232839-69233714:+
Coord C1 exon
chr21:69232839-69232943
Coord A exon
chr21:69232944-69233546
Coord C2 exon
chr21:69233547-69233714
Length
603 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCGGATGGTCTGCCTTCCAGGTG
3' ss Score
8.63
Exon sequences
Seq C1 exon
GTGTTTAAGGATAATTGCTGCAAGAGGGAGATTCTGGCCCTTCAGATCTTCTGTCGGAACGAGGGCCGGGGCTGCACGGAGCAGCTGGCCCTGGGGCACCTGCTG
Seq A exon
GTGAGTGCGGCGGGACGCCCAGAAACAACGGCCCCCGGTCAGCACCGTGGAGCCCCAGACCACGCCTGCATCCGCCTCTCAGACACAACCAAATAGGAGAGCAGACAGAGCCACTTGGGTGGCAAGTGTTATTTTTATGATATCACAGGCAGAAATGTCAATTGGTTTTTGAGCACCCTACCCTATTTAGAGTAGAAAGAAATCTGAATTGACTGTTAATTATAGAAGGCCCATTTAAACCTCCTTTTTATAACCATAAAATTCCATGTAACTTCTTATATTTTTTTTTTTTTATTACTGTCATATTTAATCCTGGAAGGATATTTGAATTAGAATAAAACTAAGTCCTTAGCGGATAACCATTTATTTATCCAGGAAGAAAGGTTAATTGACTTAGTTCTTCAAAAGCAATATAGTTTGAGTAATCACTAAATGGAATATGAAATTCAGTATCTCTTGATAGGTTGGTCACTCTTCTCGGTGAGAAACTGGTCTAGCGGCCGATAAGAGACGCTTGCGTAGGATTTGACACCCTAGAGGCTGCGGTTGGTATCTCAGCCTGGAGGCCTGCCGGCTGAGAACTCCGGATGGTCTGCCTTCCAG
Seq C2 exon
GTGCATTTGAAGAATGACTGCCAGTTTGAGGAGCTCCCGTGTGTCCGTGCCGACTGCAAAGAGAAAGTGCTGAGGAAGGACCTGCGTGACCACGTGGAGAAGGCCTGTAAATACCGCGAGGCCACGTGCAGCCACTGCAAGAGCCAGGTCCCCATGGTCACGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013475:ENSBTAT00000017918:3
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:
PF0217613=zf-TRAF=PU(94.7=96.4),PF041569=IncA=PU(6.4=25.0)
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:
TTTAAGGATAATTGCTGCAAGAGGGA
R:
CTGCAGCGTGACCATGGG
Band lengths:
270-873
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]