RnoINT0155193 @ rn6
Intron Retention
Gene
ENSRNOG00000006238 | Traf2
Description
Tnf receptor-associated factor 2 [Source:RGD Symbol;Acc:1310457]
Coordinates
chr3:2747535-2750789:-
Coord C1 exon
chr3:2750612-2750789
Coord A exon
chr3:2747684-2750611
Coord C2 exon
chr3:2747535-2747683
Length
2928 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
GAGCATCTCCACACCTCCAGCCT
3' ss Score
2.93
Exon sequences
Seq C1 exon
GTGCAGCAGCTGGAGAGGAGCATCGGCCTCAAGGACCTGGCCATGGCTGACCTGGAGCAGAAGGTCTCAGAGTTGGAGGTGTCCACCTATGATGGGGTCTTCATCTGGAAGATCTCCGACTTCGCCAGAAAACGTCAGGAAGCCATCGCTGGCCGGACACCTGCTATCTTCTCCCCAG
Seq A exon
GTGCTGTCTGTGGTCCTCCCATTTGTTCCAGAGCCCTAGCTGGGGCAGGGAGGGCATGGAGCTCCCTAACTGGGGCAGGGCATGTGCTCAGCTGGCACCAGGGGGAGTTAGGCAGGAGGCTAACTAACCTACGGGTACAGGTTAGATGTGCAGTGTCCGCTCCTCGTTGCCTGCAGAAGAGCACGGTGCTTTGGAGTGATACTGGAAAACAGACCTTTGCAAACAGGGCCACAGCTTTGGGCTTGTCTGACTCCCGCCGACTGGATTGAGCATTGGTGTTTACTGTAAGCAGGAGTCCTGAGAATGCTCCTCATGCTCCTCAATGTCTACCTACAGGGTCCCTTGAGCTCCTCTAAGAGGGACTGCTGTGTGCTAGAGGTTGTGTGTGCCGTTGCCGGGAACGACTGCTTCTCTTGTACTGCCTGCTTTGCACTTCTTACTGCACCACTTTGGCTTCCTTTCTTTCCCCTGGGGTGCCCACAGATCACGTGAGGGCCCAGGCCTTGTCCCTTGTTAGTCTCTTCTTCCTGCTCAGTATTTAACTTCATAAGCATAGACATCTTGTGTCAGAAGGTGACCTGCACATCACTTATTTCTAGGCTTATTTTATAAAACTGTGTCTATAGTAGAGCTTCTTGGATCAAGCCTGAGCCCTTGGGAGACCCTCCTACTGCACTTGCCTTGACACTGGTGGTCCCTGCCCTTGTATGGGAAGTCTGAGCACTCCACTCATCTCTGTAGCGTATCTTCACAGTGGCTTCAACAAGGGCTAGCAGTAAACAAACCCGGAGACTAGGAGAACCAGTGTCTTAGGTGGGAACTCTTGGGCGGCCTGGGTGCCGGATACCATTTCTAGAGTTCGGTAGTCCATGTGGCACTACCCCCACCCCCACAGGTGATTTGGTAGATGTTAACCTGTGGGGTGTGCAGGCCCAAGTTAACTGAGTTCCACAGTGAGTCTGGTAAGGGTCCAGCATCAGGAGCCCAGGTCCCTTGCAGCAGTCTCCTGGGGCCATAGCCAGGCAAAAGCTGGTCTGCTTTAATATTGTTGGTGAGTCAGGTTCTGTGGTAGGCAAAGGTAGAGGAACAGGAAGGCAGGTTTTAACACTGTGTTTGCAGCCTTGCTGCAGAGGCTTAGAGCTCTGGAACATGAGTGGGAGCATGGGTTAGTCCTGCTGCATGGCTGAGAGCCGCTGGGAAAACCAGCCGACTGCTGTACTGTTGGCTTCCACTGAGAGGACAGACACACTTGTCCCAGCTTAGGTTCTGTCCAAGACTGACTGCTCTGCTTTTCACTTACTGCTGCGCATCGTGGCCCACAGCCTGTGGTGCAGAGCTGTCCACTTCTCAACTAGGAAGCGAGAAAGAGGGGTGCGATGAGTGGAGAATCACTGCCTTCTTCAAGCCACACCTTCCATGATGCAGGCACCTCTTAGGCCCCACACCAGAAAGTTGTACTGCCTGCCAGCCGCATCAGATGTTTAACAAGTGGGCATGGGGTGGGCATTGCAGACGAGTACTACAGAGTGTGCAATGGCAGGTACCTAGGGATGTTGGGGGTTGACACATGTGATTACTGAGGCTGACAATAGACCAATTTTATGTGGAGATGCTGGTATACATTTTGGAATCCAAATACTGAAAAACTTGCTGTCTAACTTTAGAGACAGGTCCTACCCCAGGGCAAGGAGAGCAGTTTGATTTTCTTTGGTATTTGTGTCCTGAGTTTCATTAGATGTACCTGACCAAGGGTGCTGCTCCCATGAGGTTACCACCCATCCACAGTGGCTCAGAGCATGCCCTCAAGGTGCTTAGGGATAGTGCGCCCCAGCCTTCGGTATTCCCTGACCCAGACAGCTTCACAACCAACTATTTACGCTTTGTTTGTACTTAATAGTAGGTATCGTATCGTATTGTTTGTTAGTTTTTGAAACAGGGTTTCATTGCAGCCCAAGGTGGACTCAGATTCATTATGAAGCCCAGGCTGAACTTGAACTCATGTTGGGAAGCTTGTGTTAACACATCCAGTTCTTGTCTTATGCAGTGTTAATCGTGTCCTGGCTGTTGTCTGTTACCTGTAAAACAGTGGCTTTCAACCTTCCCAATGCTGCAACTCTTCATTACGGTGTCTCATGTTACGCTGACCCCCAACCATACGGTTATTTTGTTGCTACTTCGTAACTGTAACTTTACTACAGTTGTGAGTCTTACTGTCCATATCTGACATGCACTTTCCTAAGGGGCCACAAGGTCTCACAAGTTGAGAGCCACTGCTATAGGAAGGTTGACTGTGCTGCTCTGAGTTTCTGCCCCTCAGATGCTTCTGCTGAGGCAGGGTTCCTGTGGCCTGGTTTCCATAGCTTTGATGAGGACCCCAACTACTAGGTTTTTGCTGCCATAGTTTTATAGTTTTACACTTTGTCACTGTGAGGTTATTGAAATTACCGGTTAGCTATTAGTTTAAAGGAGGGGCAGCAAGATGCCTGACTGGATTTATAAGCTCAGTCTCTGGAAGCCACATTGAAGATGGTAGAAGAGACCAGGCAGCGGTGCACAAAGAAGGCAGAAACCAGCCTGGCCTAGAGTGAGCTCCAGAACTATATAGACACCTGTCTCAAAACCAGGACAGAGAACTGGGAGGAGAGAAGCAGCTTACAGAGTCGTCTCCCCTTTGGCTCCCATACACACCCTGGCAGTGTCCACCTGAGTGCACATGCTAACCACTTGCCCGAAGGACTGAGGTTGGAGCCATCCTGAGCTTCATTGGCAAGAACTCCGGGGGGTGGAGGGGGTTGGGAGAAACCTTTTCTTGATACTTCCCAAGAGCTGAGTGATGGTGTATGCTTTCGTCTTTCTGAGGTGGGGGGGGGGGTATGGGGAGCAACTATGTCCTGCCCTGTCCTCACTGGAGCATCTCCACACCTCCAG
Seq C2 exon
CCTTCTTCACAAGCAGATATGGCTACAAGATGTGTCTCCGGGTCTACTTGAATGGCGACGGCACTGGGCGGGGAACTCATCTGTCTCTCTTCTTCGTGGTGATGAAAGGTCCCAATGATGCTCTCTTACAATGGCCTTTTAATCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006238:ENSRNOT00000008253:9
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:
PF045827=Reo_sigmaC=PD(28.9=61.7),PF140731=Cep57_CLD=PD(28.6=46.7)
A:
NA
C2:
PF0091721=MATH=FE(34.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]