IMP

Process View

Danio rerio

4 genes annotated in zebrafish

nuclear transcribed mrna catabolic process nonsense mediated decay

The nonsense-mediated decay pathway for nuclear-transcribed mRNAs degrades mRNAs in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins.

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Known genes in the process in zebrafish Include functional analogs

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Gene Predictions

Click on a gene's description to view its network relationships with genes known to be involved in "nuclear transcribed mrna catabolic process nonsense mediated decay"

Show only novel predictions Show only unknown genes Highlight genes with functional analogs involved in "nuclear transcribed mrna catabolic process nonsense mediated decay" (in gray)

Name	Description	Probability	Func Analog Organism
upf1	upf1 regulator of nonsense transcripts homolog (yeast)	0.856
smg1	PI-3-kinase-related kinase SMG-1	0.711	Human Worm
upf2	UPF2 regulator of nonsense transcripts homolog (yeast)	0.702
smg5	Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans)	0.638
srsf6a	serine/arginine-rich splicing factor 6a	0.501
sap18	sin3-associated polypeptide	0.490
smg6	Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans)	0.398
snrpd3	small nuclear ribonucleoprotein D3 polypeptide	0.348
snrpd3l	small nuclear ribonucleoprotein D3 polypeptide, like	0.347
zgc:77155	zgc:77155	0.338
smg7	Smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans)	0.321
upf3b	UPF3 regulator of nonsense transcripts homolog B (yeast)	0.305	Worm
lrmp	lymphoid-restricted membrane protein	0.289
zgc:66382	zgc:66382	0.269
acvr2a	activin receptor IIa	0.254
wu:fb39a06	wu:fb39a06	0.230
slc25a3b	solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 3b	0.212
smu1	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	0.205
cpsf6	cleavage and polyadenylation specific factor 6	0.180
ddx19	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 19 (DBP5 homolog, yeast)	0.169
upf3a	UPF3 regulator of nonsense transcripts homolog A (yeast)	0.151	Worm
wu:fb58e05	wu:fb58e05	0.146
otop1	otopetrin 1	0.140
zgc:77052	zgc:77052	0.132
rbbp6	retinoblastoma binding protein 6	0.130
zgc:112425	zgc:112425	0.123
safb	scaffold attachment factor B	0.114
zgc:103697	zgc:103697	0.114
gnb1a	guanine nucleotide binding protein (G protein), beta polypeptide 1a	0.107
wu:fb71f10	wu:fb71f10	0.096
mfap1	microfibrillar-associated protein 1	0.088
sf3b14	splicing factor 3B	0.086
xrn2	5'-3' exoribonuclease 2	0.085
sf3a2	splicing factor 3a, subunit 2	0.084
eif4a3	eukaryotic translation initiation factor 4A, isoform 3	0.081	Human
ppp2cb	protein phosphatase 2 (formerly 2A), catalytic subunit, beta isoform	0.074
hnrnpa0	heterogeneous nuclear ribonucleoprotein A0	0.073
ck2b	casein kinase 2 beta	0.072
mtf2	metal response element binding transcription factor 2	0.072
wu:fc23b05	wu:fc23b05	0.066
eif1b	eukaryotic translation initiation factor 1B	0.066
sf3b5	splicing factor 3b, subunit 5	0.064
strap	serine/threonine kinase receptor associated protein	0.063
eftud2	elongation factor Tu GTP binding domain containing 2	0.062
etf1	eukaryotic translation termination factor 1	0.057
sart1	squamous cell carcinoma antigen recognised by T cells	0.056
api5	apoptosis inhibitor 5	0.056
cpox	coproporphyrinogen oxidase	0.055
zgc:101598	zgc:101598	0.055
prc1a	protein regulator of cytokinesis 1a	0.054
morf4l1	mortality factor 4 like 1	0.053
eif4a1a	eukaryotic translation initiation factor 4A, isoform 1A	0.053
eif4e1c	eukaryotic translation initiation factor 4E family member 1c	0.049
gtf2f2a	general transcription factor IIF, polypeptide 2a	0.048
ddx46	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	0.047
h2afvl	H2A histone family, member V, like	0.045
zgc:86598	zgc:86598	0.045
ppp2r1a	protein phosphatase 2 (formerly 2A), regulatory subunit A (PR 65), alpha isoform	0.045
si:ch211-57k11.10	si:ch211-57k11.10	0.045
ddx39aa	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39Aa	0.044
zgc:110682	zgc:110682	0.044
ilf2	interleukin enhancer binding factor 2	0.043
faf2	Fas associated factor family member 2	0.043
zgc:113159	zgc:113159	0.042
tra2a	transformer-2 alpha	0.041
npepl1	aminopeptidase-like 1	0.040
rtf1	Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)	0.038
cstf1	cleavage stimulation factor, 3' pre-RNA, subunit 1	0.038
elavl1	ELAV (embryonic lethal, abnormal vision, Drosophila)-like 1 (Hu antigen R)	0.038
cbll1	Cas-Br-M (murine) ecotropic retroviral transforming sequence-like 1	0.036
ybx1	Y box binding protein 1	0.036
zmat2	zinc finger, matrin type 2	0.036
ppp2r2d	protein phosphatase 2, regulatory subunit B, delta isoform	0.035
trnau1apl	tRNA selenocysteine 1 associated protein 1, like	0.035
gnb1b	guanine nucleotide binding protein (G protein), beta polypeptide 1b	0.034
psmb6	proteasome (prosome, macropain) subunit, beta type, 6	0.034
ythdf1	YTH domain family, member 1	0.033
wu:fc51d09	wu:fc51d09	0.033
htatsf1	HIV TAT specific factor 1	0.033
wu:fb95b01	wu:fb95b01	0.033
fubp1	far upstream element (FUSE) binding protein 1	0.033
ccnl1	cyclin L1	0.033
ubc	ubiquitin C	0.033
usp10	ubiquitin specific peptidase 10	0.032
khdrbs1a	KH domain containing, RNA binding, signal transduction associated 1a	0.032
ywhabb	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide b	0.032
si:dkeyp-51f11.8	si:dkeyp-51f11.8	0.031
wu:fc18c07	wu:fc18c07	0.030
hmgb2a	high-mobility group box 2a	0.029
zgc:92745	zgc:92745	0.029
ran	ras-related nuclear protein	0.029
wu:fb63c04	wu:fb63c04	0.029
wu:fb80a07	wu:fb80a07	0.029
ube2i2	ubiquitin-conjugating enzyme E2I2	0.028
tmem93	transmembrane protein 93	0.028
rbmx	RNA binding motif protein, X-linked	0.027
zgc:112254	zgc:112254	0.027
prpf39	PRP39 pre-mRNA processing factor 39 homolog (yeast)	0.026
snrpc	small nuclear ribonucleoprotein polypeptide C	0.026
hnrnpa0l	heterogeneous nuclear ribonucleoprotein A0, like	0.026
stau2	staufen, RNA binding protein, homolog 2 (Drosophila)	0.026
cnih	cornichon homolog (Drosophila)	0.026
akt2	v-akt murine thymoma viral oncogene homolog 2	0.025
zgc:55870	zgc:55870	0.025
ddx39b	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39b	0.025
prpf31	PRP31 pre-mRNA processing factor 31 homolog (yeast)	0.025
abcf2	ATP-binding cassette, sub-family F (GCN20), member 2	0.025
zgc:103440	zgc:103440	0.024
erh	enhancer of rudimentary homolog (Drosophila)	0.024
setb	SET translocation (myeloid leukemia-associated) B	0.024
ncl	nucleolin	0.024
zgc:77151	zgc:77151	0.024
sf3a1	splicing factor 3a, subunit 1	0.024
gkap1	G kinase anchoring protein 1	0.023
arf5	ADP-ribosylation factor 5	0.023
buc	bucky ball	0.023
faf1	Fas associated factor 1	0.023
wu:fb80e01	wu:fb80e01	0.023
radil	Rap GTPase interactor	0.023
wdr82	WD repeat domain containing 82	0.023
caprin2	caprin family member 2	0.022
med15	mediator complex subunit 15	0.022
lmo7b	LIM domain only 7b	0.022
ddx5	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	0.022	Yeast
zmpste24	zinc metallopeptidase, STE24 homolog	0.022
tia1l	cytotoxic granule-associated RNA binding protein 1, like	0.022	Yeast
eif4a2	eukaryotic translation initiation factor 4A, isoform 2	0.022
hug	HuG	0.022
si:dkey-181m9.9	si:dkey-181m9.9	0.022
cobra1	cofactor of BRCA1	0.021
u2af1	U2(RNU2) small nuclear RNA auxiliary factor 1	0.021
psmb3	proteasome (prosome, macropain) subunit, beta type, 3	0.021
ccdc6a	coiled-coil domain containing 6a	0.021
rqcd1	RCD1 required for cell differentiation1 homolog (S. pombe)	0.021
ppp6r3	protein phosphatase 6, regulatory subunit 3	0.021
ctnnbl1	catenin, beta like 1	0.020
ogt.2	O-linked N-acetylglucosamine (GlcNAc) transferase (UDP-N-acetylglucosamine:polypeptide-N-acetylglucosaminyl transferase) 2	0.020
ranbp1	RAN binding protein 1	0.020
syf2	SYF2 homolog, RNA splicing factor (S. cerevisiae)	0.020
acin1a	apoptotic chromatin condensation inducer 1a	0.020
eif4a1b	eukaryotic translation initiation factor 4A, isoform 1B	0.020
srpr	signal recognition particle receptor (docking protein)	0.020
vcp	valosin containing protein	0.020
sf3b4	splicing factor 3b, subunit 4	0.019
eif5a2	eukaryotic translation initiation factor 5A2	0.019
ebi3	Epstein-Barr virus induced gene 3	0.019
u2af2b	U2 small nuclear RNA auxiliary factor 2b	0.019
cdc16	cell division cycle 16 homolog (S. cerevisiae)	0.019
clk4a	CDC-like kinase 4a	0.019
arglu1b	arginine and glutamate rich 1b	0.019
si:dkey-205h13.2	si:dkey-205h13.2	0.018
fut8	fucosyltransferase 8 (alpha (1,6) fucosyltransferase)	0.018
atp2a2b	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2b	0.018
calm3b	calmodulin 3b (phosphorylase kinase, delta)	0.018
ube4b	ubiquitination factor E4B, UFD2 homolog (S. cerevisiae)	0.018
nup50	nucleoporin 50	0.018
cx39.4	connexin 39.4	0.018
sfrs3b	splicing factor, arginine/serine-rich 3b	0.017
ppm1aa	protein phosphatase, Mg2+/Mn2+ dependent, 1Aa	0.017
zgc:63721	zgc:63721	0.017
brd3a	bromodomain containing 3a	0.017
rltpr	RGD motif, leucine rich repeats, tropomodulin domain and proline-rich containing	0.017
adar	adenosine deaminase, RNA-specific	0.017
dhx16	DEAH (Asp-Glu-Ala-His) box polypeptide 16	0.017
cpa2	carboxypeptidase A2 (pancreatic)	0.016
waca	WW domain containing adaptor with coiled-coil a	0.016
LOC563072	interferon-induced guanylate-binding protein 2-like	0.016
fkbp4	FK506 binding protein 4	0.016
bub3	BUB3 budding uninhibited by benzimidazoles 3 homolog (yeast)	0.016
nupl1	nucleoporin like 1	0.016
si:dkey-273o13.1	si:dkey-273o13.1	0.016
hist2h2l	histone 2, H2, like	0.016
st13	suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein)	0.016
crtc3	CREB regulated transcription coactivator 3	0.016
zgc:86870	zgc:86870	0.016
wu:fd61a05	wu:fd61a05	0.016
ttc8	tetratricopeptide repeat domain 8	0.016
gatad2a	GATA zinc finger domain containing 2A	0.015
rnps1	RNA binding protein S1, serine-rich domain	0.015	Human
rnpc3	RNA-binding region (RNP1, RRM) containing 3	0.015
itm2ba	integral membrane protein 2Ba	0.015
ube2nb	ubiquitin-conjugating enzyme E2Nb	0.015
fancl	Fanconi anemia, complementation group L	0.015
sumo3a	SMT3 suppressor of mif two 3 homolog 3a	0.015
he2	hatching enzyme 2	0.015
irgq1	immunity-related GTPase family, q1	0.015
si:dkey-33c12.4	si:dkey-33c12.4	0.015
med18	mediator of RNA polymerase II transcription, subunit 18 homolog (yeast)	0.015
thoc4	THO complex 4	0.015
cstf3	cleavage stimulation factor, 3' pre-RNA, subunit 3	0.015
ide	insulin-degrading enzyme	0.015
mphosph8	M-phase phosphoprotein 8	0.014
zgc:111961	zgc:111961	0.014
psmc3	proteasome (prosome, macropain) 26S subunit, ATPase, 3	0.014
nvl	nuclear VCP-like	0.014
pglyrp6	peptidoglycan recognition protein 6	0.014
zgc:91910	zgc:91910	0.014
wu:fc27e05	wu:fc27e05	0.014
atr	ataxia telangiectasia and Rad3 related	0.014
hnrnph1l	heterogeneous nuclear ribonucleoprotein H1, like	0.014
nbas	neuroblastoma amplified sequence	0.014
ck2a1	casein kinase 2 alpha 1	0.014
zgc:92834	zgc:92834	0.014
zgc:171724	zgc:171724	0.014
zgc:101030	zgc:101030	0.014
psma1	proteasome (prosome, macropain) subunit, alpha type, 1	0.014
derl2	Der1-like domain family, member 2	0.014
zgc:77312	zgc:77312	0.014
ndnl2	necdin-like 2	0.014
he1b	hatching enzyme 1b	0.014
nnt	nicotinamide nucleotide transhydrogenase	0.013
rmnd5b	required for meiotic nuclear division 5 homolog B (S. cerevisiae)	0.013
mmp24	matrix metallopeptidase 24	0.013
taf3	TAF3 RNA polymerase II, TATA box binding protein (TBP)-associated facto	0.013
gbp2	guanylate binding protein 2	0.013
polr2i	polymerase (RNA) II (DNA directed) polypeptide I	0.013
il2rgb	interleukin 2 receptor, gamma b	0.013
cyp3c4	cytochrome P450, family 3, subfamily C, polypeptide 4	0.013
zgc:56596	zgc:56596	0.013
LOC567547	5,10-methylenetetrahydrofolate reductase (NADPH)-like	0.013
zgc:66385	zgc:66385	0.013
prmt1	protein arginine methyltransferase 1	0.013
dlat	dihydrolipoamide S-acetyltransferase (E2 component of pyruvate dehydrogenase complex)	0.013
slc6a8	solute carrier family 6 (neurotransmitter transporter, creatine), member 8	0.013
coq6	coenzyme Q6 homolog, monooxygenase (S. cerevisiae)	0.013
wdr24	WD repeat domain 24	0.013
crkl	v-crk sarcoma virus CT10 oncogene homolog (avian)-like	0.013
zgc:56106	zgc:56106	0.013
polr2f	polymerase (RNA) II (DNA directed) polypeptide F	0.013
isca1	iron-sulfur cluster assembly 1	0.013
stk35l	serine/threonine kinase 35, like	0.013
xpnpep1	X-prolyl aminopeptidase (aminopeptidase P) 1, soluble	0.013
arnt	aryl hydrocarbon receptor nuclear translocator	0.013
gpx3	glutathione peroxidase 3 (plasma)	0.013
foxp4	forkhead box P4	0.013
ric8b	resistance to inhibitors of cholinesterase 8 homolog B	0.013
snx9	sorting nexin 9	0.013
p2rx5	purinergic receptor P2X, ligand-gated ion channel, 5	0.013
ubfd1	ubiquitin family domain containing 1	0.012
si:ch211-255d18.1	si:ch211-255d18.1	0.012
mbd3a	methyl-CpG binding domain protein 3a	0.012
luc7l	LUC7-like (S. cerevisiae)	0.012
dvl2	dishevelled, dsh homolog 2 (Drosophila)	0.012
zgc:55886	zgc:55886	0.012
thoc1	THO complex 1	0.012
smc1al	structural maintenance of chromosomes 1A, like	0.012
gipc1	GIPC PDZ domain containing family, member 1	0.012
hmx2	H6 family homeobox 2	0.012
cpsf2	cleavage and polyadenylation specific factor 2	0.012
noc2l	nucleolar complex associated 2 homolog (S. cerevisiae)	0.012
si:dkey-151c10.1	si:dkey-151c10.1	0.012
col19a1	collagen, type XIX, alpha 1	0.012
rdbp	RD RNA binding protein	0.012
cyyr1	cysteine and tyrosine-rich protein 1	0.012
cnot8	CCR4-NOT transcription complex, subunit 8	0.012
golt1b	golgi transport 1 homolog B (S. cerevisiae)	0.012
rbm8a	RNA binding motif protein 8A	0.012	Human
atf4b2	activating transcription factor 4b2	0.012
psmb7	proteasome (prosome, macropain) subunit, beta type, 7	0.012
eif2s3	eukaryotic translation initiation factor 2, subunit 3 gamma	0.012
rprd1b	regulation of nuclear pre-mRNA domain containing 1B	0.012
cdc5l	CDC5 cell division cycle 5-like (S. pombe)	0.012
gtf2f1	general transcription factor IIF, polypeptide 1	0.012
ogt.1	O-linked N-acetylglucosamine (GlcNAc) transferase (UDP-N-acetylglucosamine:polypeptide-N-acetylglucosaminyl transferase) 1	0.012
magoh	mago-nashi homolog, proliferation-associated (Drosophila)	0.012	Human
zc3h10	zinc finger CCCH-type containing 10	0.012
dip2c	DIP2 disco-interacting protein 2 homolog C (Drosophila)	0.012
dock5	dedicator of cytokinesis 5	0.012
nkx2.7	NK2 transcription factor related 7	0.012
rcc2	regulator of chromosome condensation 2	0.012
lman2	lectin, mannose-binding 2	0.012
srsf1a	serine/arginine-rich splicing factor 1a	0.012
tmem110	transmembrane protein 110	0.012
med23	mediator complex subunit 23	0.011
zgc:112095	zgc:112095	0.011
irgq2	immunity-related GTPase family, q2	0.011
akirin2	akirin 2	0.011
wu:fi25h02	wu:fi25h02	0.011
irak3	interleukin-1 receptor-associated kinase 3	0.011
stk36	serine/threonine kinase 36 (fused homolog, Drosophila)	0.011
ctbp1	C-terminal binding protein 1	0.011
rbm39a	RNA binding motif protein 39a	0.011
cul3a	cullin 3a	0.011
mitfb	microphthalmia-associated transcription factor b	0.011
zc3h14	zinc finger CCCH-type containing 14	0.011
fbxw2	F-box and WD repeat domain containing 2	0.011
si:dkeyp-7c9.1	si:dkeyp-7c9.1	0.011
zgc:73265	zgc:73265	0.011
zgc:92878	zgc:92878	0.011
mxtx1	mix-type homeobox gene 1	0.011
rab8a	RAB8A, member RAS oncogene family	0.011
pho	phoenix	0.011
zdhhc16	zinc finger, DHHC domain containing 16	0.011
setdb2	SET domain, bifurcated 2	0.011
frmd8	FERM domain containing 8	0.011
patl1	protein associated with topoisomerase II homolog 1 (yeast)	0.011
msi2b	musashi homolog 2b (Drosophila)	0.011
cdc26	cell division cycle 26 homolog	0.011
zgc:110468	zgc:110468	0.011
dyrk2	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	0.011
arf2	ADP-ribosylation factor 2	0.011
si:dkeyp-69b9.5	si:dkeyp-69b9.5	0.011
nktr	natural killer-tumor recognition sequence	0.011
ano2	anoctamin 2	0.011
map2k2a	mitogen-activated protein kinase kinase 2a	0.011
cdc37	cell division cycle 37 homolog (S. cerevisiae)	0.011
zgc:56064	zgc:56064	0.011
cand1	cullin-associated and neddylation-dissociated 1	0.011
slu7	SLU7 splicing factor homolog (S. cerevisiae)	0.011
crsp6	cofactor required for Sp1 transcriptional activation, subunit 6	0.011
setd2	SET domain containing 2	0.011
ba1	ba1 globin	0.011
zgc:103652	zgc:103652	0.011
zgc:77799	zgc:77799	0.011
hoxc5a	homeo box C5a	0.011
psenen	presenilin enhancer 2 homolog	0.011
akirin1	akirin 1	0.011
arfgap2	ADP-ribosylation factor GTPase activating protein 2	0.011
zgc:56525	zgc:56525	0.011
ppp1cbl	protein phosphatase 1, catalytic subunit, beta isoform, like	0.011
dock1	dedicator of cytokinesis 1	0.010
zcrb1	zinc finger CCHC-type and RNA binding motif 1	0.010
edf1	endothelial differentiation-related factor 1	0.010
prdm5	PR domain containing 5	0.010
tpd52l2b	tumor protein D52-like 2b	0.010
zgc:77056	zgc:77056	0.010
zgc:77724	zgc:77724	0.010
zgc:103568	zgc:103568	0.010
esf1	ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae)	0.010
zgc:114173	zgc:114173	0.010
rasgrp3	RAS guanyl releasing protein 3 (calcium and DAG-regulated)	0.010
ppp1cab	protein phosphatase 1, catalytic subunit, alpha isoform b	0.010
hprt1	hypoxanthine phosphoribosyltransferase 1	0.010
pbx3b	pre-B-cell leukemia transcription factor 3b	0.010
acin1b	apoptotic chromatin condensation inducer 1b	0.010
ccdc47	coiled-coil domain containing 47	0.010
chrdl2	chordin-like 2	0.010
zgc:162298	zgc:162298	0.010
il13ra1	interleukin 13 receptor, alpha 1	0.010
med28	mediator complex subunit 28	0.010
mdm4	transformed 3T3 cell double minute 4 homolog (mouse)	0.010
mllt10	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 10	0.010
sdc4	syndecan 4	0.010
k31	k31 gene	0.010
zc3h7a	zinc finger CCCH-type containing 7A	0.010
g3bp1	GTPase activating protein (SH3 domain) binding protein 1	0.010
tfam	transcription factor A, mitochondrial	0.010
ppil6	peptidylprolyl isomerase (cyclophilin)-like 6	0.010
birc5a	baculoviral IAP repeat-containing 5a	0.010