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Orthologous genes in OrthoFinder**

Species Gene Description
 ath-u.5   UPF3   Smg-4/UPF3 family protein 
 ath-r.7   UPF3   Smg-4/UPF3 family protein 
 ath-m.9   UPF3   Smg-4/UPF3 family protein 
 ath-e.2   UPF3   Smg-4/UPF3 family protein 
 ath-m.4.bio   UPF3   Smg-4/UPF3 family protein 
 ath-m.4.hor   UPF3   Smg-4/UPF3 family protein 
 ath-m.4.lig   UPF3   Smg-4/UPF3 family protein 
 ath-m.4.str   UPF3   Smg-4/UPF3 family protein 
 ath-m.4.tis   UPF3   Smg-4/UPF3 family protein 
 bra-r.6   103840043   regulator of nonsense transcripts UPF3 
 bra-r.6   103868862   regulator of nonsense transcripts UPF3 
 bra-r.6   103833613   regulator of nonsense transcripts UPF3 
 bna-r.1   111208817   regulator of nonsense transcripts UPF3 
 bna-r.1   125574791   regulator of nonsense transcripts UPF3-like 
 bna-r.1   106368359   regulator of nonsense transcripts UPF3-like 
 ghi-r.1   107924373   regulator of nonsense transcripts UPF3 
 ghi-r.1   107928322   regulator of nonsense transcripts UPF3 
 ghi-r.1   107937348   regulator of nonsense transcripts UPF3 
 cit-r.1   102616588   regulator of nonsense transcripts UPF3 
 cit-r.1   102625038   regulator of nonsense transcripts UPF3-like 
 gma-u.5   100799816   regulator of nonsense transcripts UPF3 
 gma-u.5   100801152   regulator of nonsense transcripts UPF3 
 gma-u.5   100798866   regulator of nonsense transcripts UPF3 
 vvi-u.5   100852735   regulator of nonsense transcripts UPF3 
 ppo-u.5   18098334   regulator of nonsense transcripts UPF3 
 ppo-u.5   7475778   regulator of nonsense transcripts UPF3 
 ppo-u.5   18111147   regulator of nonsense transcripts UPF3 
 mtr-u.5   11430328   regulator of nonsense transcripts UPF3 
 mtr-u.5   11419393   regulator of nonsense transcripts UPF3 
 sly-u.5   101264766   regulator of nonsense transcripts UPF3 
 sly-u.5   101263168   regulator of nonsense transcripts UPF3-like 
 sot-r.1   102601432   regulator of nonsense transcripts UPF3-like 
 sot-r.1   102586824   regulator of nonsense transcripts UPF3 
 nta-r.1   107804283   regulator of nonsense transcripts UPF3 
 nta-r.1   107817079   regulator of nonsense transcripts UPF3 
 nta-r.1   107824554   regulator of nonsense transcripts UPF3 
 osa-u.5   4335928   regulator of nonsense transcripts UPF3 
 zma-u.5   103646424   regulator of nonsense transcripts UPF3 
 zma-u.5   103641667   regulator of nonsense transcripts UPF3-like 
 tae-r.2   123189288   regulator of nonsense transcripts UPF3 
 tae-r.2   123045534   regulator of nonsense transcripts UPF3 
 tae-r.2   123053380   regulator of nonsense transcripts UPF3 
 hvu-r.1   123426789   regulator of nonsense transcripts UPF3 
 sbi-r.1   8080328   regulator of nonsense transcripts UPF3 
 bdi-r.1   100844832   regulator of nonsense transcripts UPF3 
 cre-r.1   CHLRE_12g488100v5   uncharacterized protein 

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Top 50 coexpressed genes to UPF3 (ath-u.5 coexpression data)

 KEGG ID   Pathway name   #genes in coex list   #genes in genome   -log10(p)   Link to the KEGG* map 
(Multiple genes)

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Top 50 enrichment test to UPF3 (ath-u.5 coexpression data)

CoexMap"840295"


athUPF3 | Entrez gene ID : 840295      
Species ath bra bna ghi cit gma vvi ppo mtr sly sot nta osa zma tae hvu sbi bdi cre
Paralog 9 3 3 3 2 3 1 3 2 2 2 3 1 2 3 1 1 1 1
Show/Hide Columns:        



CoexMap
Chloroplast
Nucleus

functional annotation
KEGG ath03013 [list] [network] Nucleocytoplasmic transport (105 genes)
ath03015 [list] [network] mRNA surveillance pathway (119 genes)
GO BP
GO:0000184 [list] [network] nuclear-transcribed mRNA catabolic process, nonsense-mediated decay  (7 genes)  IGI IMP  
GO:0048571 [list] [network] long-day photoperiodism  (26 genes)  IMP  
GO:0009863 [list] [network] salicylic acid mediated signaling pathway  (46 genes)  IMP  
GO:0009867 [list] [network] jasmonic acid mediated signaling pathway  (74 genes)  IMP  
GO:0009611 [list] [network] response to wounding  (271 genes)  IMP  
GO:0042742 [list] [network] defense response to bacterium  (363 genes)  IMP  
GO CC
GO:0005730 [list] [network] nucleolus  (394 genes)  IDA  
GO:0005634 [list] [network] nucleus  (10367 genes)  HDA ISM  
GO MF
GO:0003729 [list] [network] mRNA binding  (1514 genes)  HDA  
Protein NP_001117406.1 [sequence] [blastp]
NP_174660.2 [sequence] [blastp]
Subcellular
localization
wolf
nucl 8,  plas 1,  golg_plas 1  (predict for NP_001117406.1)
nucl 8,  plas 1,  golg_plas 1  (predict for NP_174660.2)
Subcellular
localization
TargetP
other 6  (predict for NP_001117406.1)
other 5  (predict for NP_174660.2)
Gene expression
All samples [Expression pattern]
Tissue specificity*
Show Coexpressed Genes
Gene Function KEGG Entrez
Gene
ID		 Other ID Link Target Condition-specific* Reference

ath-u.5
for
UPF3
ath-r.7
for
UPF3
ath-m.9
for
UPF3
ath-e.2
for
UPF3
ath-m.4.bio
for
UPF3
ath-m.4.hor
for
UPF3
ath-m.4.lig
for
UPF3
ath-m.4.str
for
UPF3
ath-m.4.tis
for
UPF3
bra-r.6
for
103840043
bra-r.6
for
103868862
bra-r.6
for
103833613
bna-r.1
for
111208817
bna-r.1
for
125574791
bna-r.1
for
106368359
ghi-r.1
for
107924373
ghi-r.1
for
107928322
ghi-r.1
for
107937348
cit-r.1
for
102616588
cit-r.1
for
102625038
gma-u.5
for
100799816
gma-u.5
for
100801152
gma-u.5
for
100798866
vvi-u.5
for
100852735
ppo-u.5
for
18098334
ppo-u.5
for
7475778
ppo-u.5
for
18111147
mtr-u.5
for
11430328
mtr-u.5
for
11419393
sly-u.5
for
101264766
sly-u.5
for
101263168
sot-r.1
for
102601432
sot-r.1
for
102586824
nta-r.1
for
107804283
nta-r.1
for
107817079
nta-r.1
for
107824554
osa-u.5
for
4335928
zma-u.5
for
103646424
zma-u.5
for
103641667
tae-r.2
for
123189288
tae-r.2
for
123045534
tae-r.2
for
123053380
hvu-r.1
for
123426789
sbi-r.1
for
8080328
bdi-r.1
for
100844832
cre-r.1
for
CHLRE_12g488100v5


Ortholog ID: 3869
Species ath bra bra bra bna bna bna ghi ghi ghi cit cit gma gma gma vvi ppo ppo ppo mtr mtr sly sly sot sot nta nta nta osa zma zma tae tae tae hvu sbi bdi cre
Symbol UPF3 LOC103840043 LOC103868862 LOC103833613 LOC106368359 LOC106425604 LOC106418963 LOC107924373 LOC107928322 LOC107937348 LOC102616588 LOC102625038 LOC100799816 LOC100801152 LOC100798866 LOC100852735 LOC18098334 LOC7475778 LOC18111147 LOC11430328 LOC11419393 LOC101264766 LOC101263168 LOC102601432 LOC102586824 LOC107804283 LOC107817079 LOC107788108 LOC4335928 LOC103646424 LOC103641667 LOC123189288 LOC123045534 LOC123053380 LOC123426789 LOC8080328 LOC100844832 CHLRE_12g488100v5
Function* Smg-4/UPF3 family protein regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3-like regulator of nonsense transcripts UPF3-like regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3-like regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3-like regulator of nonsense transcripts UPF3-like regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3-like regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 regulator of nonsense transcripts UPF3 uncharacterized protein
Coexmap

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Coexpression

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KEGG Info
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ath03015 mRNA surveillance pathway 4
ath03018 RNA degradation 2
ath03013 Nucleocytoplasmic transport 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra03040 Spliceosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra03013 Nucleocytoplasmic transport 2
bra03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bra03015 mRNA surveillance pathway 3
bra03013 Nucleocytoplasmic transport 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna03013 Nucleocytoplasmic transport 7
bna03015 mRNA surveillance pathway 7
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna03013 Nucleocytoplasmic transport 7
bna03015 mRNA surveillance pathway 7
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bna03013 Nucleocytoplasmic transport 7
bna03015 mRNA surveillance pathway 7
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi03018 RNA degradation 2
ghi03013 Nucleocytoplasmic transport 2
ghi03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi03015 mRNA surveillance pathway 7
ghi04382 Cornified envelope formation 5
ghi03013 Nucleocytoplasmic transport 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ghi03018 RNA degradation 4
ghi03013 Nucleocytoplasmic transport 2
ghi03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
cit03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
cit03015 mRNA surveillance pathway 2
cit03040 Spliceosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma03015 mRNA surveillance pathway 6
gma03013 Nucleocytoplasmic transport 2
gma04382 Cornified envelope formation 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma03015 mRNA surveillance pathway 3
gma03040 Spliceosome 3
gma03013 Nucleocytoplasmic transport 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
gma03013 Nucleocytoplasmic transport 4
gma03015 mRNA surveillance pathway 2
gma00562 Inositol phosphate metabolism 2
gma04070 Phosphatidylinositol signaling system 2
gma04148 Efferocytosis 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
vvi03015 mRNA surveillance pathway 3
vvi03022 Basal transcription factors 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo03015 mRNA surveillance pathway 3
ppo03040 Spliceosome 3
ppo03013 Nucleocytoplasmic transport 2
ppo03060 Protein export 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo03015 mRNA surveillance pathway 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
ppo03015 mRNA surveillance pathway 5
ppo03013 Nucleocytoplasmic transport 2
ppo04382 Cornified envelope formation 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
mtr03083 Polycomb repressive complex 3
mtr03018 RNA degradation 2
mtr03040 Spliceosome 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sly03015 mRNA surveillance pathway 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sot04120 Ubiquitin mediated proteolysis 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta03013 Nucleocytoplasmic transport 4
nta03015 mRNA surveillance pathway 4
nta03460 Fanconi anemia pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta03013 Nucleocytoplasmic transport 4
nta03015 mRNA surveillance pathway 4
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
nta03013 Nucleocytoplasmic transport 4
nta03015 mRNA surveillance pathway 4
nta03083 Polycomb repressive complex 2
nta03250 Viral life cycle - HIV-1 2
nta03460 Fanconi anemia pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
zma03013 Nucleocytoplasmic transport 2
zma03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
zma03082 ATP-dependent chromatin remodeling 2
zma03013 Nucleocytoplasmic transport 2
zma03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae03015 mRNA surveillance pathway 6
tae03082 ATP-dependent chromatin remodeling 3
tae03013 Nucleocytoplasmic transport 3
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae03015 mRNA surveillance pathway 4
tae03013 Nucleocytoplasmic transport 3
tae03082 ATP-dependent chromatin remodeling 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
tae03015 mRNA surveillance pathway 4
tae03250 Viral life cycle - HIV-1 3
tae03013 Nucleocytoplasmic transport 3
tae03082 ATP-dependent chromatin remodeling 2
tae03022 Basal transcription factors 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
hvu03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
sbi03015 mRNA surveillance pathway 2
KEGG* ID Title #genes Link to the KEGG* map
(Multiple genes)
bdi03040 Spliceosome 5
bdi03015 mRNA surveillance pathway 2
bdi03082 ATP-dependent chromatin remodeling 2
Expression Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern Expression pattern
Entrez Gene ID* 840295 103840043 103868862 103833613 106368359 106425604 106418963 107924373 107928322 107937348 102616588 102625038 100799816 100801152 100798866 100852735 18098334 7475778 18111147 11430328 11419393 101264766 101263168 102601432 102586824 107804283 107817079 107788108 4335928 103646424 103641667 123189288 123045534 123053380 123426789 8080328 100844832 5716657
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