RnoINT0155184 @ rn6
Intron Retention
Gene
ENSRNOG00000006238 | Traf2
Description
Tnf receptor-associated factor 2 [Source:RGD Symbol;Acc:1310457]
Coordinates
chr3:2764261-2770620:-
Coord C1 exon
chr3:2770606-2770620
Coord A exon
chr3:2764478-2770605
Coord C2 exon
chr3:2764261-2764477
Length
6128 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TGTTTTGTTTTGTTTTTTAGGGC
3' ss Score
12.56
Exon sequences
Seq C1 exon
CGCGAAGACCGTTGG
Seq A exon
GTGAGGCGGCGCGGATCTAAGAGGGGGTCGATTCTCAGCGGCGGCCGGGCCCGGGTCAGGCACCGGGTGGGAGTGGCGATTGGGGTTAGATGCGGGGCCGCCGCCGTCTGGGTGAGGTGGGTGGGTAGACTTTTCGGAGCGGCGGAGCCGGAAACTGAAAGTCGCGGGAGGGGGGGGGGCCGGAAAAGTTCGCGACGTCCGCAGCGGTGCGTGGCAGCGCGCCTACCGCTGTGGCTCGGGGTCACGGCATTACGGTCTATGCCCGGATCTCGGTCCGGGATAGCGGCTGTGGAGCGCACGATCCCCACTTGTGCTTTTCTGGTCTTGAGCGAACACCTGATCTCCCAGGCCACTTTTATAACTCACTTAGGCTTTTTGGATTGTGCAGTTAAATTTGGTCTGACACCCCCCAGTACTCAGGCGTCGCCTTTTCTGATTCTGACACCTGGCTACGCAAACCACGGACACCACCTCCCCGATAAGGCATCTTCCCTGTTGGGGGCTTACCTTCCCTGTCCTGATTTATTCTTTCAGATCTCATCTTTCTGCCCCTCAGAATCTCTGTTTCTCGGGAAACTATCTTGTTTTTGTAAAGCAGCCTGGGCCCAAACTCACACAGATCTGCCTGCCCCTGCCTATCGAGTGCTGGGATTAAAGGCCTGCGCCACCACCACCCTGGAAGCTATCTTGATTGGCTTGTGTCTGGGTGTGGAGTCTGATCCCTGGGTCCTTTCCTTCTTGATGCCTGCCTAGTGGAGGTTGGACCTAGTGTATATTTCTCGGGATTGATATGAAGCTCCAAGTAGGTGGTAAGGACATGAGATTGATTAGAACTCACAGGCATACTCCCTAAAACTGGAGAAACAAACTTTCAGCTCCTTGGACACAGTGCAAGGTCATTATTATCTTGCCTGCAACTCACTTATCTTGGAAGTCCTGGCTACCATTCCCCGGGAGAAGTCACAGTTGGCTTGCCAACTGCCTGTGTGACTGACAGAGAAAGGTGGTATTTAGTGACCCAAAGTTACTGTTATCAGGTGGAGGCCCCAAGCAATCCCAAATTGATGTTTAAGACTTTTTAAAATTTACTTTATTACTGCGTACTTACAGATTTATAAGTACTTGAATTTTAAACAAAAACTGAAGGGGGGTTCTTTATCAAGCCTTGTGTGTACAAGTCTGAGTGCTGTCTGCAGTAGTGTCTCTGGTCTGAACTGGTGGCTCCTTCCCTACCCAACAGGTCTGTGAGGTGTTTATCTATTGGCTCTTTGCCTGGGACCCCCTAGTCTACCTGGACTGACTATCCTCTGACAATACAGGCTCTCTGGAACCCTGCTACTCTTCTCCCATTTGCTAGTCACCATGGGGCAGGGCTTTGTCCTCAGGGTCCTTAGGAGTATCTACACTACCTCCACACACCTGAGCGAGGGCCGTGTGCCTTCATAGCCTAGTCTTACTGGGCTGCAGCACATTGAGCGCTTTCAGTCAGAGCTTGCTGGTAATCTCTGGGCTGTGGTTCCTCCAGCACCCATGAAGTAGCAGCAGACTGGACTGCACAGTGGAAATGGCAGCAGTCAACTTGGAGAAAACTTCCAAGAAGGAAGTGCTTCCTGCCTGTCATCTCACTACTGTTCTGAGCATTGGTTTGGGGTTTCCTTCTTGACAGTGGGATGTCAGGCCCCCACTTCCCATGTGGTTGCTACATGAATTGTCAGTGTAGCTTGGCAGGTGGGTTCCATGGGGTGGGAGCTTTTACAGGCTTGGACAAGATGACCTGGAAAAAGAAAAGAAAATTGTCCATAGATTCTCAGATTACGCCAAAGATGACCCCATGCAACCTCAAGGCTTATGCTGGGCATCTGTCCTCCCTGTGCACTGGCGCTGCTCCCTTTACACAGTGGGTGGAGGCCACCCGGATGCCACACTGGGTATCCATCCCATAATTGTGGTGTGCTTGCCCTGTTCATGTGCGTGGAGGAGGAGACCCAGTGGCTGCTGCACCCGGGACCTGGGACCCAGGTGGGCGGTAGGATCGGTATTTCGGCAGGTTGTAATTTCAGCGCATGGGGACGGTAAACTTGAGCAATAAAGGATGGGACCTGGGCATGTGTCGGGGTTGGGGTGCTTGGTTTAGAGGTGAGTTTGTGACAGGCTGGACAGTTGTGTTACACAAAGGAATTTTGTGCTGTTTACTACTGTGCACCCATGCCAGCTGGTCATTGATGTAGCCACAGACGCCAGTGAAGGGCCCAGGGTGGAGAGCTACAGAAGTTGACATTCCTCCTTCCGCTTTCTAGCTCTGTACTCCTTGCCTTCTGATGGCCGGTTCCTGGGAGTAAGGCATTAGCAGGATGGGCACCGTACAGACCTGTAAAGAACGGCTGGGAGCAGGGACAGGGAAGACAGGTGGAGCTGGGCAGTTTTAGCTTCCATGACTAGAGCTGCTGAGTAGGCCCAGACTTCATGCCGTGGTAGGTCCTTCTGACTCCCAGGAGGCCACGGTGACAGCAAGGAAGCTATGCAGTCAGGGCTGTGCTGGAGTGTAGAGGTTCTAACAGAGCCCTGGCGTGGGAGGGGGGAACGGGCAGACAGATGGACGGACGGACAGAAAAGAAGAGGAGAGATTTAAATTCCAGCCTGTCAGGCATGTGAGATTGAAGCAGAAGAGATTGCTAAGGGACATATCTGGGAGGATAGATGTGGCGTTTAAAGTCCTGCTGTGGGTGTGACCCTTTTTAAATGAAAGGTTTACTTACAGTTATTTTTTATATTTTGTGCTTGTCTGTATGATGTCTGTACACCATGTGAGTGCAGTGTCTGCAGAGGCTACATGAGGACATTGGATCCCCTGAAACTAGTTACAGCTGGATTGTTGACCACCATTGTGTGTGCTGGCTGCTGCGCCATCTCTCCAGCCCTACATTTTCTGTTACTTAGATTACTTTGCTCTTTGGCAGTTGTGTGTATAAGTGCCTTCTGATTACTGGTGCCCCTATGCAGGTCAGTATTCCTGAGAAGACCTGGCCTGCATTCATGTCTCCTTGGAGTTGTTTCTTGCCGTCTGGGGTTCGACATGGCGCCTCACTGAGTTGCTCAGGCTGCCCATAAGCGCCTTGGCTCTGGTGAATTACCCCCCTCTCCCCACAAAGCATAAATGTGATGCCAGGGGATCCATCCATCCACCCCAGAGATGAGGACAGAGCCTGCCCTCCTGACCAGGGCTACTCACCCTGTTGGGCGCTTAGAGCAGATGCAAGCTATATATGTGCTCCATGAGCTTGGACGCAGGGCCATGTAATTATATATGAGGACAGTGACTGACTGTGGGGATGTGCCCCCGTGTCCTGCAGGTGAGACACCCAGCACAGCCTTGTCTTGGTGCTTTCATCACTGTGCAGGTCCCCTTTCAGGAGTCAGCCTTAGACAAGGATGAGCCCCTTCTGCAAAGGGTACCTCCATGAGTGTATGGGGTCACTGTGCTGCTGTTTAGTGGTTCCCAGGGGTGAACAGGAGGAGAGGCCATGCTGTTTGTGGTGCAGAAGTTATGTGTACTTGTCTTAGCTCTCAAGAGTATGGAGTTAAAATGCTTTCTGCTGTGCTCTCCAGTAGATTACCCCATTTTAGGGAACAGGTGAAGTTTTTCTTTGAGACACACAGCAGTTCCGTGTGAGCTCTGCAGGCTGCTGGGCTCCGTCCAGGTAGGACTGACTCTCGCTTTTACATTCAACACCCTCGGCCAAGGGTGGTTCACAGAAACCAGCACAAACAGCAGAAACCAGACGCTAGTTCCAAGCATCTGCAAAACATTTGTTAAATGAAAAGAAGGTGGCAGGTGACAGCTGTTCCCAGCACATCATGAACGGTGTGGGATTGGTTTAACGTGTAATCAGAGTCAGAGTGCCCTGAAGGACTAGTAAGCTGCTTGTCAGTAACAGTTGTCTTGGTAACCAAATGCTGCTCTGAAAGGCCACATTGCTGTTTATTCAGTCATGTGCTGTTGGTGCTTGGGGCTCTGATCTCTTGGGGCTCTGAGCACCTGATTAAGATGATGGAAGACGTAGGGCTGCAGTGTTTGGGAGCACAAGGAAGGCGCGGGTCAAGGGGCAGGAGTCAGGGCATAGTCAGTGTAGGAGTTGTGTTGTTCTTCTGAGTGTGGCTCTACACTGTGGGCAGTGGTGTTTAGGTGTGCACAACAGAGGGCAGGGTGTCCGTCAGAGGAAGCAGGATTGGCAGGGTTGGCCAAGGGTTGGGTGTAGAGTGGACTCAGAACCTATGGGCTTGATGAGTCCTTAGGGCAGGGAGGAGGGAGGTCCAGCCTTGGCAGACTGGCCAGTCACTCATTTTTGCAGGCCAGTACCTAGAGCCAAGTGATTCACTGGCAGCAGACCCACAGCCTTTTTCTACACCTTAGCTTTCCACCAGTGATTTGCTGGACCGGGCCTTGTTCTGCTAGGGTGTGAATGCCCTAAGGCTTTGAGGGACATCAAGACAGCAGAGCAGGCAGGTCAGTGGGGCCAACGAGGTTTAAAGGAGGCAGCAGGGCCCTGTCCAGCAGTTGTGCAGGCATGTTCCTGGAGCCAGGGAATTGCTCTGGAACTTAGGGTTCTGGTAGGTGATTTGTTAAGTGAGTGAAATGTGACTGGTGTTTTGCTGGGAAGAGGACTCTGGGGATGTTGCTGCTTATGGCTTCCTTGCCCTCAGCACATGTCAAATGCCAGATACTTCATTCTGTAAAGCTCAGGACACATAGCCCGCTTCTTCCTCAAGCTCGGCTGAGACTGAACCTCTGCTTCACAGCTACGACCCTGGGAGGTCATGTCCATCCCCCAACCCACATCCCCAGATGCCTCCTTGTCTCACAGGGACTAGCCTGCTCTTTTGTGAGAACCAGCTGTATCCCCACAGCCCTCAAAGGCTCTGAGGAACCCTGGTTGGCAGAAAGTACGGTTAGCACCTTTAGGCTGCCTTGGAGGTGGAAGTACAAAAAGGTTGTCACCGGGAAATGGTATTCTCCAGATGGGAGCGGCCATTGGAAGGCCTAGAGGTACCATGCTGCTGCCTTAGGTACTCCAGGCCTCTCCACACCTGACTCAGCTCAAATAGACTCTTCCTGGGTCCTGAGTGTGAGGGCTCCCTGAGAGCTACTTGAGAAAATTGGTAAGGGGAAAGCCCGCTTGCTGTGTAATTACTCTGGGAGTTGAGAGGGAGCCCAGTAGAGGTTTCTGTGCTAGCGGACGAAGGAGGAGCTTGGCATTGAAGAGCCTAAGTTGGTAGAAAAGGAAAAGAGGATGGACCAGGCAGAGGTGGCTCTTCTGGCTTGCAGGTTAGGTTGAGAGGATGCAGGACGAGTGGGCTCCAGTTGGCTTTGAGTGAAGCATCTTGGAGAGGATGGCAGGTGCAGGATCTAGATGACAGAGCGGCTCGCAGGCTGTGGGCTGTAGTGTGTGGAGAGGGTACCAGAGAGGGAGCACAGTGACCAGTGCCCTACTGGTTGAGTCTCATGCCCAGGCGAGGCCACCCCAGGGTGCTGTCTAGGACCTGCCCTGCTAGCCTACAGTATGCTTCAGAAACCATCCACCATCTTAAACCATGTTTACTGTGGAGACCAAGTGTAGGCTGGAAGACGCCAACTGTTGGTGTCAGCAGCAAGTGCCCCAGCCAGGATTGGCACCAGCAGGAAGGAAGCTCATGAATTAGTTATTGTAGATGCCACCAGGTCTGTCACCCTCGTGGACATCTCTCCCCACATCTGATCTCTGAAGGGTCCCAGAACTCTAAAATCCTGTCTTGAGATGCTCTTTCGAGATCAGTGTAGTGTAACGACCCAGGCACCTCATCAGGTGCCTGCCTTCTTCCTACAGAGCAGTGGTTGGTTCTCAGCCTGTGGGTCAAGACCCTTGGGGGTGAGACAACACTTCCACAGGGGTTGCCTAAGACCATCAGAAAATAGATGTTACACAGCAGCAGCAGCAAAGTTACAGTTGTGACATAGCAATGAAAGAATTGTATGGGGTCACCATAACATGAGGAACTGTATGAAAGGGAAAGGTTAAGAAGGTTGAGTGTACTGCTCTAGAGGACTGGTCTGATTGTGTGACGTGGTCTTTTTGTTTTGTTTTGTTTTTTAG
Seq C2 exon
GGCTTTGTGGTGCGTGGGTTATAACTCACATGGCTGCAGCCAGTGTGACTTCCCCTGGCTCCCTAGAACTGCTGCAGCCTGGCTTCTCCAAGACCCTTCTGGGGACAAGGTTAGAAGCCAAGTACCTGTGTTCAGCCTGCAGAAACATCCTGCGGAGGCCATTCCAGGCCCAGTGTGGGCACCGCTACTGCTCCTTCTGCCTGACCAGCATCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006238:ENSRNOT00000008253:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0009720=zf-C3HC4=PU(74.4=46.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]