Gene detail

Detail information of GWHGAAZE026746

Functional Annotation

Database	Orthologs	Annotation
Nr	CDP04324.1	unnamed protein product [Coffea canephora]
Swissprot	tr\|F4IUX6\|RENT2_ARATH	Regulator of nonsense transcripts UPF2
trEMBL	tr\|A0A068U821\|A0A068U821_COFCA	Coffea canephora DH200=94 genomic scaffold, scaffold_12 {ECO:0000313\|EMBL:CDP04324.1}
TAIR10	AT2G39260.1	binding;RNA binding

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000008	gene	9464864	9477592	+
GWHAAZE00000008	mRNA	9464864	9477592	+
GWHAAZE00000008	exon	9464864	9464894	+
GWHAAZE00000008	exon	9465229	9465308	+
GWHAAZE00000008	exon	9466546	9466655	+
GWHAAZE00000008	exon	9466785	9466841	+
GWHAAZE00000008	exon	9466913	9466989	+
GWHAAZE00000008	exon	9468494	9468696	+
GWHAAZE00000008	exon	9469231	9469575	+
GWHAAZE00000008	exon	9470118	9470222	+
GWHAAZE00000008	exon	9470476	9470603	+
GWHAAZE00000008	exon	9470934	9471110	+
GWHAAZE00000008	exon	9471405	9471486	+
GWHAAZE00000008	exon	9472591	9472881	+
GWHAAZE00000008	exon	9473207	9473404	+
GWHAAZE00000008	exon	9473492	9473593	+
GWHAAZE00000008	exon	9473775	9474026	+
GWHAAZE00000008	exon	9474356	9474574	+
GWHAAZE00000008	exon	9474928	9475098	+
GWHAAZE00000008	exon	9475556	9475741	+
GWHAAZE00000008	exon	9476053	9476526	+
GWHAAZE00000008	exon	9477077	9477592	+
GWHAAZE00000008	CDS	9464864	9464894	+
GWHAAZE00000008	CDS	9465229	9465308	+
GWHAAZE00000008	CDS	9466546	9466655	+
GWHAAZE00000008	CDS	9466785	9466841	+
GWHAAZE00000008	CDS	9466913	9466989	+
GWHAAZE00000008	CDS	9468494	9468696	+
GWHAAZE00000008	CDS	9469231	9469575	+
GWHAAZE00000008	CDS	9470118	9470222	+
GWHAAZE00000008	CDS	9470476	9470603	+
GWHAAZE00000008	CDS	9470934	9471110	+
GWHAAZE00000008	CDS	9471405	9471486	+
GWHAAZE00000008	CDS	9472591	9472881	+
GWHAAZE00000008	CDS	9473207	9473404	+
GWHAAZE00000008	CDS	9473492	9473593	+
GWHAAZE00000008	CDS	9473775	9474026	+
GWHAAZE00000008	CDS	9474356	9474574	+
GWHAAZE00000008	CDS	9474928	9475098	+
GWHAAZE00000008	CDS	9475556	9475741	+
GWHAAZE00000008	CDS	9476053	9476526	+
GWHAAZE00000008	CDS	9477077	9477592	+

Transcript Sequence
>GWHTAAZE026780 ATGCAACTAGATGCGGTTTTTCGATCCATAGGTGGGAAGATGGAAAACATGGAACACAGCGAGTATGAGTCCCGTTCTGGAGGTGAAAATCACGGCAAACACAATGATGAGTGGAAACAACTGTGCAAAGAGAAGAATTTTACTTTTCCCCATAACTCTCCCTTTCTGTCACCACTTCTTCAAAGGTTTCCAATTTCCGTCGAACCACCTATTCACCTTAAGGATCAAATTGTTGCATTAGGATACCAAGAGGTTATTGGGGGCATTACTTCTTCAATGAAATTGAAGAAGTTAGAATATTTTGTAAATTATGAGATGAGTAGGAAGGAGAGGGGTAGGGGTTGTGGGGAGACAGACTCAAGTTTTCTCAGAACATTAGATTCCAGCATTAAGCGCAACACGGCTGTTATTAAAAAACTTAAACAGATCAATGAAGAACAGCGGGAAGGTTTGATGGATGACCTGAGATCCGTCAACTTGAGCAAATTCGTCAGTGAAGCTGTTACGGCTATTTGTGATGCCAAGCTGAAAACTGCTGATGTACCTGCTGCAGTACAGATCTGTTCTTTGCTTCATCAGAGGTACAAAGACTTCTCCCCGAGTTTGGTTCAAGGCCTTTTAAAAAGCTTCTTTCCTGGGAAATCTGCAGAGGACTTGGATGCAGACAGGAATTTGAAGGCCATGAAGAAGCGTAGCTCTTTAAAACTCCTCTTGGAACTCTACTTTGTTGGAGTAATAGAAGACAGTGTTATTTTCGTTAATATTATTAAGGATCTCACTAGTGTAGAGCACTTAAAGGATCGAGATGCAGCTCATACAAATTTGTCCCTTCTTGCAAGTTTTGCTCGACAAGGGAGATACTTCCTTGGACTTCCGCAGTCTGGTCAAGAAATTCTTGAAGAGTTTTTTAAGGGCCTAAGTATCACAGCAGATCAGAAGAAATTTTTCAAAAAGGCATTTCACACATATTATGATGCTGCTGCAGAGCTACTTCAGTCAGAACATACTTCACTTCGTCAAATGGAGCATGAAAATTCGAAGATTCTAAATGCTAAAGGCGAGCTCAGTGAGGAAAATGCTTCATCATATGAAAAACTGCGAAAATCTTATGACCATCTGTACCGTGGAGTGTCAGCTTTAGCCGAAGCGCTTGATATGCAGCCTCCTGTAATGCCAGAGGATGGTAACACAACCAGGGTGACTACAGCGGAGGACGTATCTTCTCCTGGTACTGGAAAAGATTCTTCTGCACTTGAAGCCATGTGGGACGATGAAGATACACGGGCCTTTTATGAATGCTTACCGGATCTCAGAGCATTCGTCCCTGCAGTTTTATTGGGAGAAGCTGAGCCTAAGGTGAATGATCAATCTCCAAAGACACCAGAACAACCATCTGATTCGGCACTTGAACCAGAACAAGTTCAGATGGCTACACAAGACTCTGCAGAGGTATCTGCAGATTCTGGAGCATTGCAGGATGTGAAAAATGAGAAAGGAAAGGATAAAGATGAGAAAGATAAAGACAAGACCAAAGATCCAGAGAAGGAGAAAGGAAAAGAGAAGGATGCCGAAAGAAGAGGTGAAATTGAAAAGGAGAAACTCAAAGGTATTGAAGGAACTAATTTGGATGGTCTATTGCAGAGGCTTCCAGGTTGTGTTAGCCGGGACCTAATTGATCAATTGACTGTAGAGTTTTGTTATTTAAATTCTAAGTCCAACCGGAAAAAGCTTGTGAGAGCTTTGTTCAATGTTCCAAGGACTTCTCTGGAACTTCTACCATACTACTCACGCCTAGTTGCGACCCTGTCAACTTGTATGAAGGATGTATCTTCCATGCTCTTACAATTGTTGGAGGAAGAGTTCAACTTTTTGATAAATAAAAAGGATCAAATGAACATTGAAACAAAGATAAGGAATATTCGTTTTATTGGAGAACTCTGCAAGTTCAAAATTGCACCTGCTGGCCTTGTTTTTAGTTGTCTTAAGGCCTGTTTAGATGATTTTACTCATCATAACATTGACGTTGCTTGCACGCTTCTTGAGACATGTGGTCGGTTTCTTTATCGGTCACCCGATACTACCATACGCATGGCTAACATGTTAGAGATATTGATGCGCTTAAAGAATGTTAAAAATTTGGATCCTCGTCACAGCACGCTTGTCGAGAATGCTTATTATCTGTGCAAACCACCAGAAAGATCTGCACGAGTCTCTAAAGTCCGTCCTCCACTGCATCAGTATATCAGAAAACTACTTTTTTCGGATCTTGATAAATCTTCAATCGAGCATGTGTTGAGGCAACTTCGTAAACTACCATGGAGTGAATGTGAGCCCTACCTCTTAAAATGTTTTATGAAGGTTCACAAAGGGAAGTATGGTCAGATTCACTTGATTGCTTCGCTTACTGCTGGCTTGAGTCGCTATCATGATGAATTTGCCGTCGCTGTTGTTGATGAGGTTTTGGAAGAAATCAGGTTGGGACTAGAGTTGAATGACTATGGGATGCAACAACGTTGTCTTGCACACATGCGGTTCTTAGGGGAGCTGTACAACTACGAACATGTCGATTCTTCTGTTATTTTTGATACGCTCTATTTGATTCTCGTTTTTGGCCATGGCACATCAGAGCAAGATGTGTTGGATCCCCAAGAAGATTGTTTTCGCATAAGGATGGTGATTACGCTTCTCGAAACCTGTGGGCACTATTTTGACAGAGGGTCTTCAAAGAGGAAACTGAATAGATTCTTAATTCATTTCCAAAGGTACATACTCAGCAAAGGTGCACTACCACTGGATATTGAATTCGACTTACAGGATTTATTTGCGGATTTACGCCCCAACATGACCCGATATTCATCTATTGAAGAAGTTAATGCAGCTCTAGTTGAACTTGAAGAACATGAACGTTCAGTTTCATCTGACAAGGCCAATAGTGAGAAGCACTCAGATAGCGAAAAAAACCCAAGCAGAACTAGTTCTGGACGCATACCTGTGTATGGCCAAAACCTTGGAAATGGTGTTGAGGAAAATGGTGAAGTGCACGAAGAGGTCACCGGAGCCACTGACAGTGATTCAGGCAGTGGCACCATTGACATGGAAGGGCATGATGATGAGGAAGAGCTGGATGAAGCGAATCACGATGATGGGTGTGACAGTGAGGATGACTATGATGATGGGGGTGGGCCTGCTACTGACGAGGATGATGAAGTCCGCGTTAGGCAGAAGGTGTCTCAAGTTGACCCGCAGGAGGAAGCTGACTTTGATAGAGAATTTAGGGCTTTAATGCAGGAGAGCTTGGATTCCCGAAAACTTGAATTGCGTGCCCGACCAACTCTAAACATGATGATACCAATGAACGTGTTTGAGGGACCCACAAAGGATCATCACAGTAGAGGAGGCGAAGGGGAAAGCGGGGACGAGACATTGGAGGAAGAGGCCAGGGGAACCAAGGAGGTTCAAGTGAAAGTACTAGTGAAGCGAGGGAACAAGCAACAAACGAAGCAGATGCTCATTCCCCGGGATTGTTCGCTTGTGCAGAGCACTAAACAGAAGGAAGCTGCAGAGCTCGAAGAGAAACAGGATATTAAGCGGCTAGTGTTGGAGTATAACGATAGAGAAGAGGAGGAGCTCAATGGGTTGGGTACCCAGCCAGTAAGTTGGATGCAGAGCAGCAGTGGGGGCAGAGTACCGAGCCGAGGCTACACGTGGGAAGGGGGACATGGTGGTCGTTCCTCTGGATCCCGACAACGGCACCACCACCATCACTCGGGTGGTGGGGCACTCTATTATAGCAGAAGAAAGTGA

Network for GWHGAAZE026746

Network category	Network	Top300 PCC genelist
Coexpression Positive	Network	Top300 PCC genelist
Coexpression Negative	Network	Top300 PCC genelist

Functional Module

Module ID	Function Annotation

Protein Structure

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF02854.20	MIF4G	546	730	2.60E-32
PF02854.20	MIF4G	748	942	1.60E-40
PF04050.15	Upf2	1065	1201	2.70E-38

Protein Sequence

>GWHPAAZE026764
MQLDAVFRSIGGKMENMEHSEYESRSGGENHGKHNDEWKQLCKEKNFTFPHNSPFLSPLLQRFPISVEPPIHLKDQIVALGYQEVIGGITSSMKLKKLEYFVNYEMSRKERGRGCGETDSSFLRTLDSSIKRNTAVIKKLKQINEEQREGLMDDLRSVNLSKFVSEAVTAICDAKLKTADVPAAVQICSLLHQRYKDFSPSLVQGLLKSFFPGKSAEDLDADRNLKAMKKRSSLKLLLELYFVGVIEDSVIFVNIIKDLTSVEHLKDRDAAHTNLSLLASFARQGRYFLGLPQSGQEILEEFFKGLSITADQKKFFKKAFHTYYDAAAELLQSEHTSLRQMEHENSKILNAKGELSEENASSYEKLRKSYDHLYRGVSALAEALDMQPPVMPEDGNTTRVTTAEDVSSPGTGKDSSALEAMWDDEDTRAFYECLPDLRAFVPAVLLGEAEPKVNDQSPKTPEQPSDSALEPEQVQMATQDSAEVSADSGALQDVKNEKGKDKDEKDKDKTKDPEKEKGKEKDAERRGEIEKEKLKGIEGTNLDGLLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKKLVRALFNVPRTSLELLPYYSRLVATLSTCMKDVSSMLLQLLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACTLLETCGRFLYRSPDTTIRMANMLEILMRLKNVKNLDPRHSTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSECEPYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLEEIRLGLELNDYGMQQRCLAHMRFLGELYNYEHVDSSVIFDTLYLILVFGHGTSEQDVLDPQEDCFRIRMVITLLETCGHYFDRGSSKRKLNRFLIHFQRYILSKGALPLDIEFDLQDLFADLRPNMTRYSSIEEVNAALVELEEHERSVSSDKANSEKHSDSEKNPSRTSSGRIPVYGQNLGNGVEENGEVHEEVTGATDSDSGSGTIDMEGHDDEEELDEANHDDGCDSEDDYDDGGGPATDEDDEVRVRQKVSQVDPQEEADFDREFRALMQESLDSRKLELRARPTLNMMIPMNVFEGPTKDHHSRGGEGESGDETLEEEARGTKEVQVKVLVKRGNKQQTKQMLIPRDCSLVQSTKQKEAAELEEKQDIKRLVLEYNDREEEELNGLGTQPVSWMQSSSGGRVPSRGYTWEGGHGGRSSGSRQRHHHHHSGGGALYYSRRK

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K14327	UPF2, RENT2	RNA transport	map03013
K14327	UPF2, RENT2	mRNA surveillance pathway	map03015

Gene Ontology

GO term	Ontology	Name
GO:0003723	molecular_function	RNA binding
GO:0005515	molecular_function	protein binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	26.072
	SRR3591706	second leaf	13.566
	SRR3591707	mature leaf	16.868
	SRR3591708	Shoot apex	20.676
	SRR3591709	Stem	29.519
	SRR3591710	White floral bud	32.491
	SRR3591711	White flower	32.121
	SRR3591712	Green floral bud	25.813
	SRR3591713	Yellow flower	27.369
SRP173429	SRR8316895	Juvenile bud stage	11.025
	SRR8316896	Juvenile bud stage	16.637
	SRR8316897	Juvenile bud stage	8.207
	SRR8316894	Third green stage	7.847
	SRR8316900	Third green stage	17.683
	SRR8316901	Third green stage	17.442
	SRR8316898	Complete white stage	6.234
	SRR8316899	Complete white stage	18.051
	SRR8316903	Complete white stage	17.816
	SRR8316902	Silver flowering stage	9.703
	SRR8316904	Silver flowering stage	16.258
	SRR8316905	Silver flowering stage	7.551
	SRR8316906	Gold flowering stage	23.439
	SRR8316907	Gold flowering stage	21.704
	SRR8316908	Gold flowering stage	23.467
SRP132670	SRR6706286	Control	23.099
	SRR6706287	Light intensity 50%	23.127
	SRR6706288	Light intensity 20%	22.721
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	13.168
	CNS0095593	Slightly white alabastrum(diploid) 2	12.754
	CNS0095594	Slightly white alabastrum(diploid) 3	13.520
	CNS0095595	Whole white alabastrum(diploid) 2	12.732
	CNS0095596	Whole white alabastrum(diploid) 3	10.909
	CNS0095597	Whole white alabastrum(diploid) 4	13.260
	CNS0095598	Silvery flower (diploied) 1	16.850
	CNS0095599	Silvery flower (diploied) 2	13.135
	CNS0095600	Silvery flower (diploied) 3	23.454
	CNS0095601	Golden flower (diploid) 1	13.021
	CNS0095602	Golden flower (diploid) 2	23.039
	CNS0095603	Golden flower (diploid) 3	22.801
	CNS0095604	Slightly white alabastrum(tetraploid) 1	14.195
	CNS0095605	Slightly white alabastrum(tetraploid) 2	11.738
	CNS0095606	Slightly white alabastrum(tetraploid) 3	24.071
	CNS0095607	Whole white alabastrum(tetraploid) 1	13.248
	CNS0095608	Whole white alabastrum(tetraploid) 2	13.337
	CNS0095609	Whole white alabastrum(tetraploid) 3	19.128
	CNS0095610	Silvery flower (tetraploid) 1	29.032
	CNS0095611	Silvery flower (tetraploid) 2	25.394
	CNS0095612	Silvery flower (tetraploid) 3	25.311
	CNS0095613	Golden flower (tetraploid) 1	17.156
	CNS0095614	Golden flower (tetraploid) 2	25.359
	CNS0095615	Golden flower (tetraploid) 3	29.085
CRA001975	CRR073297	Stem 1	22.558
	CRR073298	Stem 2	18.871
	CRR073299	Stem 3	14.921
	CRR073300	Leaf 1	23.812
	CRR073301	Leaf 2	21.316
	CRR073302	Leaf 3	11.421
	CRR073303	Juvenile bud 1	14.844
	CRR073304	Juvenile bud 2	9.390
	CRR073305	Juvenile bud 3	22.287
	CRR073306	Third green 1	9.032
	CRR073307	Third green 2	7.338
	CRR073308	Third green 3	10.485
	CRR073309	Second white 1	6.256
	CRR073310	Second white 2	11.663
	CRR073311	Second white 3	11.836
	CRR073312	Silver flowering 1	10.342
	CRR073313	Silver flowering 2	11.535
	CRR073314	Silver flowering 3	10.730
	CRR073315	Gold flowering 1	6.574
	CRR073316	Gold flowering 2	12.232
	CRR073317	Gold flowering 3	6.215
	CRR073318	Tawny withering 1	13.903
	CRR073319	Tawny withering 2	12.151
	CRR073320	Tawny withering 3	11.566