RnoINT0155196 @ rn6
Intron Retention
Gene
ENSRNOG00000008145 | Traf3
Description
Tnf receptor-associated factor 3 [Source:RGD Symbol;Acc:1304633]
Coordinates
chr6:135713641-135717458:+
Coord C1 exon
chr6:135713641-135713815
Coord A exon
chr6:135713816-135714503
Coord C2 exon
chr6:135714504-135717458
Length
688 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGTTCTCTTGCTCGTGGCAGGCT
3' ss Score
7.47
Exon sequences
Seq C1 exon
CGAGTAATAGACAGCCAAGCAGAGAAACTGAAAGAACTCGACAAGGAGATCCGTCCCTTCCGGCAGAACTGGGAGGAAGCAGACAGCATGAAGAGCAGTGTGGAATCCCTCCAGAACCGTGTGACTGAGCTAGAAAGCGTAGACAAAAGTGCAGGGCAGGCAGCTCGCAACACAG
Seq A exon
GTGAGTGGACCTGGGTCTGAGGCAGCTGCTCCCAGTGCAGGCAGTGCATGTGAGGGTCCTCTAATGGGGTCAGGTTTTCACTTAGATTTGTCCTTCTGCAGGAGGCCCAGCTCGGCAGGGTGCAAAGCCCTTCCTTCCACAGGGTAGACTGCAGGTGACCTGCAGGACATGAGGATGTAAGGTGTATTAGTCAGGGTACCCCTAACACACCCTGAAGGCCTAGACCGGGCAGGGGAAATGGGCAACTGAGTATGGCCCAAGTATTTCTGACATTAGGAGCAGGTGTGACCTGTAGCTTTGGGCCTGAATGAGCAGTGAAGGTTTTCATGGAAGGATTCGGGAGGAGGGCGGATTACTGTGCCACATGGGTTGGATTAAACAGATGCAAAGTGTGTGGTTAGGACAGGAGACAGCTTAGAGTCAGAGCCTCATGTCCCTGGGGATGCCAGGACTGTAGGGCAGGGGAACGCAGGCAAATAGGCAGTCAGACTCTGACATTGTGGCCTGGCAGTTGGCACCTTGTGACTACCAGAGGAGAGAGGAGGAAGGATACAGCACAGATGCCCCACGCCTTGGCTGCCCACCCTCTGCAGTCACAGTAGCTGTGGGCTGCTATTGCAGACTCTGGTGCAGGTGTGCTCCAGTGACCACAGGTCTTGTTTGCCAAATGTTCTCTTGCTCGTGGCAG
Seq C2 exon
GCTTGCTGGAGTCCCAGCTGAGCCGGCATGACCAGATGCTGAGTGTCCACGACATCCGCTTGGCCGACATGGACCTGCGCTTCCAGGTCCTCGAGACTGCCAGCTACAATGGTGTGCTAATCTGGAAGATCCGTGACTACAAGCGCCGGAAGCAGGAGGCTGTCATGGGGAAGACCCTATCTCTCTACAGCCAGCCTTTCTACACAGGTTATTTTGGCTATAAGATGTGTGCCCGGGTCTACCTGAACGGGGACGGAATGGGGAAAGGGACACACTTGTCGCTGTTTTTTGTCATTATGCGCGGAGAATATGATGCTCTGTTGCCGTGGCCATTCAAGCAGAAAGTGACACTTATGCTGATGGATCAGGGGTCCTCTCGACGCCATCTGGGAGATGCGTTCAAGCCTGATCCCAACAGCAGCAGCTTCAAGAAGCCCACGGGAGAGATGAACATCGCCTCTGGCTGCCCAGTCTTTGTCGCCCAAACTGTTCTCGAGAACGGGACGTACATTAAAGATGATACAATTTTTATTAAAGTCATAGTGGATACCTCGGATCTGCCTGACCCCTGACAAGAAACCAGGGAGGTGGATTCAGCAGAAGGTAACTCCTCTGGGGGGTTGAACAGGTCTGTCTTCACGAAGGTCCTCGCCCTCAGAAAGGACCTTGTGGGACAGAGGAAGCAGCCGGAGGAGGAGGAGGAGGAGGTCGAGTGGCTGGCAGGAGGAGCCACATGTGAAAACAGACCCCAACGGATTTTATAATAGACTAGCCACACTCACTCTGAAGAATTATTTATCCATCAACAAGATAAATATTGCTGTCAGAGAAGGTTTTCATTTTCATTTTAAAAGATCTAGTTAATTAAGGTGGAAACATATATGCTAAAAAGAAACATGATTTTTCTTCCTTAACTTAAACACCAAAAAAGAAAACACATGTGGAGGTAGCTGGATGGGTCAGCATGTTACCTTACAAGGAGAACTTATGAAATAATAATACAGTTCTGATATATTCATCCTAAAATTCAAGAGTGCAATCTTGTTTCAAATATAGTATATTGTCTATTTTTAAGGCCTCATCTGGTCGCTGTTTTAATAATTTGTTTGTCAGAAGACCCTGAGTAGGCACAAGGTCTCTAAATTCAGAAGTCATTTTTAATTTAAAGTTCTACAAATAATTGTTACTGCAAACATTTTGTTTTAAAACGTTGATAGACTGATATTTCTTGGAAGAAAATGTAAACTATCAAACACTGGTTATCACTTGTGATAGGGAAGAGAATATTGAACCTGTTGTTATTTCTCGTTAGAAATGTAGCCTTCGGTATCTGTCGTAGCTCCGTGACTACTTCACGATGGCGATGAGAGGATCAACGCTCCTGGATGCTGTGCATCATTTCAGACTAAAGTTGTTCTCACCCTAAAGTAGGGCATCAGTTGAACTTTGGAGTTCTAAACAAAATCCTATAGGTTTTTAAAATTCTGCCCCATGTTTAGACAAGCTCTGTGTTGCTGACAGCACCAGCCTTGGTCTCCAGTGTCCGGTGTCGGGGATAGGCAGGTGACCTGTGCCGCAGGAGGCCCCAGCAAGCATCCCATCCTGTCATGCTGCTGCATTCGGCTAGCGCTCTCCGGAAGGAAGCGACGTCTGTGCTCAGAGATGGTGGCATACGGTACATGTGCCTTAGATGTGACATGCTGCTTCTCGTCCCTGGGTTTGCGTTCACCATGATTCTAGAAAGTGGTAGTTTAACCAGATCTCGATATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCACCAGATCTTTATCTCTGCCAGGGCCCTCAGACAACTCTGAGGGAAGCCAGGCCTCTGTTGGCAGCTTCTGAGGCCTCTGCTGCTAAATATCCACAGAGTCCAACTGCAGGCCCCCAAGAGCAGCTCAGTCCCACTCCAAGGGAGGAGGTGTGAGCGAAGCCACACCCTTCCAGGTCTCTACAAGGGCCCTGAAGTCCCCCACAGCATGAAGGAGAAGTGCCCCTGCCCCAAGCATTCCCAAGACCACTGGTCTGGGGGCCTGCCCAGGCTGGCAGCAGTGGCCCTGGCCTCCCTGTTAGGAGGGTGGCCAGCTAACGCCCAGCCTGTTAGTCCGGACGGCACTCTGAACTAGCTCAGTTTCCCCACTGTGACGAGAAGCCTGGAGCCCTGCCCCGGTGCCCCTTTTGCTATGCACCACACTTCATGGTGCTCTACATTGATGGGTGCTACACGCGACGGGTGCTTCTTAGGCAAAACCAATGTGTGCAAACCACCACATCTGTGCCACTTGCCCAAAAGGCGCGCCCACAATTGGCCAACTGGGCCCGCGCTTCAGACTGCCTGCCTCTGGGCTCTCCCCATGGTCGCACGGGGACAGCTGGGTTGGTGCCCGGTAGCCCACCTTGTCTCTGGTGCTGCCATCTGTCCTGGGTGTGCCTTCGCCCCGGTGCCTGCTGGAGGTGCCCTCCTCTCGCACACCTGTCCCCGTGCTTCCATGAGCGGCCTCTTGCTTTCTAGCACTTGCCCTGCCCGTCCATGGCTGAAGCATTTGCTTCTTCCCCCTGCTCCTCCTTTCCATTCTGCTGGGATTGCTTTGGGGTACGTCAGTGACCTTGGTTCTGCTCATAAGGAAAGAGTGCAGAGCCCACGTTCTTCTTCCTCTAGGCCTGTCCGCAGGGTTCCTCCCCCAAAGATCTGGAGTTGGAGGACCACTGGCAAGTCCTCAGCTGGCTTCAGGAAGCTTTCCCATGGCCAGGTGCCAGCAACAGGGACATCCCTGCAGCGCCCCCTTTAGAGACGTCAGTGCAGTACCAATAGGTGTCGGCCAGCAGCATCAGGTCAGACAAAGGCATGCCTGTCTTTAGCTTCAGACCCTGGTATGAGGGTGACCCTGAGGTGTCCTCCCTGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008145:ENSRNOT00000010906:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF041569=IncA=FE(26.5=100),PF101744=Cast=FE(37.9=100),PF0205011=FliJ=FE(42.3=100),PF0149614=V_ATPase_I=FE(32.8=100)
A:
NA
C2:
PF041569=IncA=PD(6.8=7.9),PF101744=Cast=PD(9.2=7.3),PF0205011=FliJ=PD(8.0=5.8),PF0149614=V_ATPase_I=PD(35.0=32.5),PF0091721=MATH=WD(100=73.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCGTAGACAAAAGTGCAGGG
R:
GAGCATCATATTCTCCGCGCA
Band lengths:
358-1046
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]