RnoINT0155203 @ rn6
Intron Retention
Gene
ENSRNOG00000008145 | Traf3
Description
Tnf receptor-associated factor 3 [Source:RGD Symbol;Acc:1304633]
Coordinates
chr6:135701434-135704251:+
Coord C1 exon
chr6:135701434-135701514
Coord A exon
chr6:135701515-135704176
Coord C2 exon
chr6:135704177-135704251
Length
2662 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
ACGTCTCTTTCCCGTTGCAGTTG
3' ss Score
10.22
Exon sequences
Seq C1 exon
AAACATGAAGACACGGATTGTCCCTGTGTGGTGGTGTCCTGCCCTCATAAGTGCAGCGTTCAGACTCTTCTGAGGAGTGAG
Seq A exon
GTAAGGCACAGCCAGGGCCTAGTCAGGAGCCAGTGTACTGTAGGCTCTACCCTTCCGAGTTACAGGCATCTAGAGTCTTCATGATTGTGGCAATGTGTGTGACAGGAAAGGCAAAACTGACAGGCAGTTTGTGGAAGTCAGAAGCAAAAGGTAAATTCAGGGTTGAAAATATTAACAATTGAAAAAATGTGAATACTTTATCTACAAATGTAAAGAAAGGTGATACTTTGTTTTTTTTTTTAAGCACTGTTTTTAAATCTATAAAATAATGGATTTCTTTAAGATTGTCTCAGAAGAATGAATTCAGACCTTTGACCACCTCGAGGGCAGGACAGTGCTAGATGGAATGTTGGTGCTGAGTACAGGGGCGTCTGTGTGTTAGAGCATTCTTAAGAGCCCTGTGAGGAGCCCCAGTGACTACACATTGCACCCTGCCCATGGACTCCTGTAAAATGGGTAGATTTTTATCATTGGTCTTATTTGATCTGCCCATATGGAAAATTCCAGGGATTCCCAACTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAGATTTATATGAGTGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAGATTTATATGAGTTCACTGTCACTGTCTTCATGCACACCAGAAGAGGGCATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTCCAGGCCCAGTTCCCAACACTTTTTACTTGAGACCTGACCTGGAACCCCTGTGGCTGCTCTGGTTTTTGGAGCCTGGTCACTGGAGTCTTCTCCAGCAGCCTGGGCATCCTCCTGGGCAACTGGAGAAAGGAGACCTGTGATGGAAAGGGAAGGCTGGTGTAGCCTAGTCTAGGAGGAGACAGTAAGAACCCTGCTCTCCTAGGTACAGCCTCCCAGGACAGGGTGGGTAAGATGGGTGTCAGAACTGCAAATGTGCTCCAGGGAGGAGCTGGGGGAGAACTCGTAAATGATCCACACCAGGTCACTAGGAGATCCTTTGATCATGTATAAAGAGTCGAACTGCTGAGGCAACTTCCAGAATTTATAACCCTCACTTAAGTTCTGTCTGCTCCGAGCTCTGGATTGAGATAAAAATTTGCCTCTTGGTCACTTTTATTTCAAAATAAGATTTTAGACTACATTTCTCTTAGTTTCTGGTGAAAGGCGCTGCTGGACTGTGCAGTGCTCTCTGCTGTACCGGAGCTTCTGGACATTTTCTAGGGCCGAGTGTACAGATAATGAAACCAGTTAGGGAGAGGTAGGACAGTGTGTTTACTGTGGAAATGCCTGTCAGAACTGCCTGCCCTGGTTGTAGCATTAGAAGAGTTAGTAGGTGGCATCTGTAATAGTAACAGTGGCCCAGTTAGACCTTCAAGGCTTAAACAAACTTGGTGAACAAGAGCCTCCATGTGCAGGTCCATGCTGACCTGCTGGCCTGTGGGACCCTCTGGTGACTTCCTCCAAGTCCAGCCCAGGGCATCCTGGCTGGATTCAGGGACACTTACAAGGATAGGAGGATGCTGGCCTTTACAACTGCCTGGCTAACAGGCCCTTTGCTGTATGGCTGGTTGTGGTGGGGGCCTCAAGGACCTTTTCCAGGCTTCCTTTCCCCTGAGCTGTTGTAGATGAGTCAGTGAGCAGAAGGAAATGGGTCTCTGGCTGCCTCAGTCCTGAACACCAGGCAGAGAGAACAACCACCCTTGTTCTGGGAGACTGGGCGAGACCCCTAAACTATGCAAGCCTGTGCCCAGCCACATCCGCACGGGAGCTGTGAGAAGGCCCCAGGCACAAAGTGCATTCCAGCCGGCAGCCACACCAGCCCAGATACAAGTGTGTCTTCAGACTGCATCTTTCTAGTTCCCTTGTCTCTTGCTTGGGGCATCCTGGAGCTAAACAAGAGGCTGTTTTCTCCCAAGTAGCTTAGATTTTCCAGGCACTCCTAATTTTCCCTGTGTCAGTTGAGACAGCGTAAGACTCCCATTGTTAGACTTGCTGCAGGAATCTTTGGAAGGCTCATAAGCCTCTGAGTGTGCAGGGGAGAGGCTCGGCAGTGCAGGAGTGATCACCTCCAGCCCTTTCGAGTGTCCTGGTATGCATACATCAGCTTGCTCTGGAGATGGCTTATCTTGTAGGCGTGTGACCACTGTAACCCAGATGCTTTCTGATTTTTTTTTTTTTTTGTGTTTCGTACAGTTTTTGTTAATAGTCTTTGAGTGTGCGTACTGTTTTTCCTTTTTCTTTTTTTTTTCCCCCTTTTTAACCTCTGGCACTTCAGACGGCATGTGACAGTTTGAACAATTCGTTCTAAGAGAATTGGAAGTTTAAGAACTGTTGCAGTAAATGTATTTCTGTATATCGGTGTGTACACGTGCATACTTGTGATGAAACTGTATTTTACGCCTGAAGTCCAGCGAGCAGATGATGCGTACACACCTGCAGCTGATAAACAGCCTTCGTACCAGTACCCGGATGCTCTCTGTGCCCTGATATGTTTGAACATTTTCATGCAAACGTTTGTGTCACAACTCACGTCTCTTTCCCGTTGCAG
Seq C2 exon
TTGAGTGCACACTTGTCCGAGTGTGTCAATGCCCCCAGCACCTGTAGTTTTAAGCGCTATGGCTGCGTTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008145:ENSRNOT00000010906:7
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
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]