BtaINT0152144 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013475 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr21:69238427-69241128:+
Coord C1 exon
chr21:69238427-69238507
Coord A exon
chr21:69238508-69241053
Coord C2 exon
chr21:69241054-69241128
Length
2546 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACGTCTCTTTCCCGTTGCAGTTG
3' ss Score
10.22
Exon sequences
Seq C1 exon
AAACACGAAGACACGGAGTGTCCCTGCGTGGCAGTGTCCTGCCCACACAAGTGCAGCGTCCAGACCCTCCTGAGGAGCGAG
Seq A exon
GTGAGGGCTGCAGCTGCGCCCCTGCAGGGGCTGGGGGTCCTACGGGTCCCCACTTCCCCCTTGACGCCGAGGCCTGAGGTCATCACAGTCCATGGTGGTAATAGAGTAGAACGATGAAAAACCTCTTGCTGTTATTGAAAATCAGATATTTCAGAAGCAAGCAGTTAAAAGCTACAGAGTGGTGGATTCAGAGCAAAAATATTGAGAACTGAGGAAATGGGAATATATTCAGTACAAGCGTGGGCGACACTTCTTAGGTTTAAATCTGTAGAAGAGGAATTACTCTATGACTGTCTCAGGAAGATCAGTTGACTGAGAGATACTCATGAGCGGTTTCCGCCACACGGGCCGTGCAGGGTCTGCCCTGGGGTGAGAGGGTGGCAGGTGGCGGGGGGCGCCTGGACAGCGGCCCTCGGGCCCACTGTCCCTGAGGCAGGTAGATCCTGCGGTCACCTTGTCTGACCAGGGTATATCCAGGTGGAACAGTTCCAAGACTTTTTGGTGCTCTGCACCTGGCCCTGGCCTGGGTCCCTTTGGCTGCTGTTCTGGGAGCTGGCGGGGCGCCTGTGGGCTTCGGGGTGCCTGCAGGCCTGGTCCCCACACCGAGCGCCCTCGGGCCTGGGCGCTCTGACCTGAGGAGCCTGCTCACCTCAGCCCTTTTCAGCCACCTGGGATTTGACACTGCAGGTACTGCAGTGGTGGAGGAGGTCGGTCTCTCCCGTCCCTGAGGCCAGGGACACGGGTGCAACAGGACCCCGGAGCCCCTCTCACCGAGGTGCCCTGTCCCGGAATGTCCCTGCTGGGAAGGGGCAGGTCTTGCCGGGTGTGATGGTGGTTCCTGGGCCCCTGGCTATGCCTCAGAGAACAGCGAGGGCACTGTCTCCACAGCTAGGAAGCCCCTCTGTTAAAGTGAACGTACGAAGAGGCTGCTGTGGAAATAACTTCCAGGGTTCCATATGCTTTCCTCAGTTTTGACTCAGGCAGGGCTATCTATATTAGGAACAAAATTGTCTCCATTTGCCTTTAAGTTATCTTTATTTTAAAAAATGTTTAAACCTGCATTGATCTCGGGTTTCTGGTGAAAGGTGCCCTTTTACAGATGGTTCTTACTGTAGTCTCGAGCTCCCCTAAATTCTGTAGGGCTCTGAGAGTAATGATGATGAAGCCAATTTAGGGAAAGTACAACCCTGAGCTTATAGTTGTAGAAAATAGTGCTAAACTCGATATGTCCCCAATTTTAACATTACAAGCATTAGCTGGTTAGATTTATGACTGTACCGATGGCAGTGAAAGAAAACGTTTTACGATTTTCAAACTGACGTCACTGCACACACGGCCGCCTGTTGAATTTCTGTGCCTGTCACCCGCCACGTGCCTCCTGGGCGCTTCTTCCAGGTGCGGCCACCACCACCCGCCCAGGCCCAGACCTTCCTCCGGGTTGGCCTTGGCAGCGGGCAGCTGGGTCCCTCGGGCCTGTCCTGTAACTGGCACGGCCGGCAGGAAGGCTGTGCTTTGAGCCTCTCCCTCTCGCCCTGAGTACGGACCTGGCGGGAGGGGACTGTGTCCCAGAGAACAGAGGAAAAGGCATCGTGGCCACCTTCACCCACCAGAGCGAAGTCCTACACGCGCTGGCTCCCGGGAGAACACGCTCCCGGGCCCCCACGCACTGCGCTCACAAGCTGCTCTGCTAATTCAGGGTCTGATCGTTTTCTCTAAAGAAAATCTGTCCCTTGAGTTTCCAATAAAGAAAGAGAGTATCTTTTAGACTGTGTTAGTCTAACGCAAAACTCCGTGTCTATAAAATGCAGATGTTTCCATTCCCTCCTCCCCTGCGGGGCATCCCAAGCGGTGTGTGTTTGGCCATTTGCTGACGTTGAAGCGGAGCACGTGGCTCCTCCTGGTTGTCCTCCCGAAGTGGAGGGGAGCACGTTCAGATCCATGCCATTAGGATGACTCAGGGGTCTCTGAAAGCCACATGAATTTCTGGGCAAACTGAGGGAGGGGAGTCTTTTCAGAAGGAGAGTCCCCTCTGCAGTTGTCGTGAGTGTGGGGGGCCGGGAGCGCCTGTGTGCGCTTCCCTGGAGAGAGAGACACCTACTTCTGTGTACTGTATACAGGCGTGTGGCCCAGCTACATCGGAATGCTTTCTATTTTTTGTGTTTCATGCAGTTTTTTTGTTTATAGTCTTTAAATGTGCTTTTCAGTTTTTTTTTTTTCCTTCTTAAAATTCTGCGGACAGCGTGTCACAAAACAAGTTGTTCTAAAAAAAGCCGCAAGTGTAAGAAATGTTAAAGTAAATGTATTTCTGTATATGGTGTATATATGTGTATGCACGTGATGATACTGTATATTTAGTATATATGTGTATACACGTGATGATGCTGTATATTTACTGGGTAGAAGTCCAGGAAGCAGGTGGTGTAAACACACCTGCTGATGAACCCCATTCGTGATATTAGAACGCAGATGCTACCTGTGCCCTTGATATGTTTGAACATTTTCATGCAAACGTTTGTGCCACAACTCACGTCTCTTTCCCGTTGCAG
Seq C2 exon
TTGAGTGCACACTTGTCAGAGTGTGTCAATGCCCCCAGCACCTGTAGTTTTAAGCGCTATGGCTGCGTTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013475:ENSBTAT00000017918:5
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:
PF0217613=zf-TRAF=PD(1.8=3.7),PF041569=IncA=FE(11.9=100)
A:
NA
C2:
PF041569=IncA=FE(11.0=100),PF101744=Cast=PU(0.7=4.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]