Gene detail

Detail information of GWHGAAZE008620

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	KHG30209.1	0	Structural maintenance of chromosomes 3 [Gossypium arboreum]
Swissprot	tr\|Q56YN8\|SMC3_ARATH	0	Structural maintenance of chromosomes protein 3
trEMBL	tr\|D7LG83\|D7LG83_ARALL	0	Putative uncharacterized protein {ECO:0000313\|EMBL:EFH57143.1}
TAIR10	AT2G27170.2	9E-180	Structural maintenance of chromosomes (SMC) family protein

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000002	gene	85373525	85397536	+
GWHAAZE00000002	mRNA	85373525	85397536	+
GWHAAZE00000002	exon	85373525	85373540	+
GWHAAZE00000002	exon	85374317	85374355	+
GWHAAZE00000002	exon	85374482	85374549	+
GWHAAZE00000002	exon	85374663	85374734	+
GWHAAZE00000002	exon	85379190	85379307	+
GWHAAZE00000002	exon	85379381	85379556	+
GWHAAZE00000002	exon	85381319	85381564	+
GWHAAZE00000002	exon	85381672	85381764	+
GWHAAZE00000002	exon	85382156	85382299	+
GWHAAZE00000002	exon	85384085	85384257	+
GWHAAZE00000002	exon	85384340	85384439	+
GWHAAZE00000002	exon	85384653	85384789	+
GWHAAZE00000002	exon	85385630	85385831	+
GWHAAZE00000002	exon	85395940	85396089	+
GWHAAZE00000002	exon	85396169	85396360	+
GWHAAZE00000002	exon	85396789	85396882	+
GWHAAZE00000002	exon	85396973	85397043	+
GWHAAZE00000002	exon	85397381	85397536	+
GWHAAZE00000002	CDS	85373525	85373540	+
GWHAAZE00000002	CDS	85374317	85374355	+
GWHAAZE00000002	CDS	85374482	85374549	+
GWHAAZE00000002	CDS	85374663	85374734	+
GWHAAZE00000002	CDS	85379190	85379307	+
GWHAAZE00000002	CDS	85379381	85379556	+
GWHAAZE00000002	CDS	85381319	85381564	+
GWHAAZE00000002	CDS	85381672	85381764	+
GWHAAZE00000002	CDS	85382156	85382299	+
GWHAAZE00000002	CDS	85384085	85384257	+
GWHAAZE00000002	CDS	85384340	85384439	+
GWHAAZE00000002	CDS	85384653	85384789	+
GWHAAZE00000002	CDS	85385630	85385831	+
GWHAAZE00000002	CDS	85395940	85396089	+
GWHAAZE00000002	CDS	85396169	85396360	+
GWHAAZE00000002	CDS	85396789	85396882	+
GWHAAZE00000002	CDS	85396973	85397043	+
GWHAAZE00000002	CDS	85397381	85397536	+

Transcript Sequence
>GWHTAAZE008630 ATGCTTCATCCTAGCTTTGGTGCTAATGGATCTGGTAAATCAAACTTTTTCCACGCCATCCGTTTCGTGATAAGCGACCTCTTCCAACACCTGCGCACTGAAGATAGGCATCAATGCCTACATGAAGGTGCGGGCCACCAAGTGTTATCTGCTTTTGTGGAGATTGTGTTTGACAACTCTGACAATCGCATCCCGATAACACAATTGACAGCAATGAAAGATCAAGAGCGTCTAGATCTACTGAAGGAAATTGGTGGGACACGAGTATATGAAGAGAGACGGCGTGAAAGTTTGAAAATTATGCAAGAAACTGGTAATAAGAGAAACCAGATAATTCAAGTTGTTCAATACTTGGATGAGAGATTGAGAGAGCTGGATGAAGAGAAAGCGGAGCTGAAAAAATATCAGCAGCTTGACAAGCAGAGGAAATCACTTGAATACACCATATATGACAAAGAACTTCACGATGCACGACAGAAATTAGCGGAGGTGGAAGATACTCGAAGCAAGGTGTCTGAAAAATCGACCGAGAGGTACAACAATGTGTTGGATGCCCATGAAAAGTCGAAGGAGTTGGACAAGTTAACTAAGGATCTGACAAAAGAAATTCAAAGTTTAAGTAGAGAGAAAGAAACAATAGAGAAGCAACGGACTGAAGCTATTAAAATGCGTACACAGCTTGAGCTTGATGACAAAGATCTTCAAGAGAAGATCTTTGGGAATATTAAAGCCAAGGAAGATGCAATGAAACAGCTTGAGCTTGTACAGAGAGAAATTCAGGAATCTAAAGAGGAGCTTAATCAAATCAAGCCATTGTACAACAAGCAAAATAATGGGCGTGAAAAGCAGCTTAGCATTCTTTATCAAAAGCAAGGTCGTGCTACCCAGTTTGCAAGTAAAGCTGCTCGTGACAAATGGCTTCAAAAGGAAATTGATGAGTACGAACGGGTTTTGTCTTCAAATCTAATGCAGGAGAAAAAACTCATGGATGAAATTGATCAGTTACAAGCTGATCTGGAAGAGAAGGATGCATACATTAAGGGCCGGGAAACTGATATAGCAGCTTTGGGATCCCTTATATCTGGGTATCGTGATGGTTTCAATCAGTATAAGTTGCAAAGAGACAAGCTGCATGATGAGAGGAAGTCCTTGTGGGCTAAAGAAAGTGAACTCTCTTCTGAAATTGACCAGCTTAAACAAGAAGTTATAAAGGCAGAGAAAAGCCTAGATCATGCGACTCCTGGTGATATTAGGAGAGGACTGAATTCTGTTAGGAGGATATGCAGACAGTCTGAAATTTCTGGAGTATGTGGCCCGATTTTTGAGTTGCTGGATTGTGATGAGAAGTTTTTCACTGCTGTTGAAGTTACTGCTGGAAATAGCTTATTTCATGTGGTGGTTGAGAATGACGAAATTTCAACTCTGATAATTAGACGCCTTAATGCAGAGAAGGGGGGACGAGTAACATTTATTCCATTGAATAGGGTGAAGGCCCCACACGTTAATTATCCACAGAGTTCTGATGTGATACCTCTTCTGAAGAAACTGAAATTCTCTCGCAATTATACTCCAGCATTTGCGCAGATAGACCAGAGAATTAATGAACTTGTTGCTGAGCAGCAGAAAAATGATGCCAAGCTGGCACATGACAAATCAGAGTTGGATCAGCTTAAACAAGATTGTGCTAATGCTAATAAGCAGAAGCAATCTATTTCCGTGGTCCTTGAGAAGAAGGGGAAGTTACTTGAAAACGTAAAGGCTCAAATTCGTCAACTTAATTCAAGTATTGATATGAAAAGAGATGAGATGGGGACTGATCTTGTTGATCACTTATCGCCAGAGGAAAAAGACTCCTTGTCTCGATTGAACCCTGAAATTACAGAGTTGAAAGAGAAGCTTATTTCCTGCAGGACTAATCGCATAGAGAGCCCGACATGTTTCACAGTGAAGCAGAACAGAAAGCGGCAGGAACTAAGGGATGCAAAGTTAAGAGTTGAAGATGTGACACAGCAACTGAAAAGAGTTTCTGATAGTATTGAAGAACGAACCAGGAAGCTTAAAAAGATCAAAGATGAAAAAAACAAGTTGAAGACCATAGAAGATGACTATCAAAGGGCCCTTCAGGATGAAGCAAAAGACTTTGAACAACTATTAAGTAAAAGAAATATTCTCGTTGCCAAACAAGAAGAGTACTCAAAGAAAATCAGGGAATTAGGTCCATTGTCTTCCGATGCCTTTGACATGTAA

Network for GWHGAAZE008620

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
PF02463.20	SMC_N	7	67	1.50E-12
PF06470.14	SMC_hinge	434	529	3.30E-19

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K06669	SMC3, CSPG6	Cell cycle	map04110
		Cell cycle - yeast	map04111
		Meiosis - yeast	map04113
		Oocyte meiosis	map04114

Gene Ontology

GO term	Ontology	Name
GO:0051276	biological_process	chromosome organization
GO:0005694	cellular_component	chromosome
GO:0005515	molecular_function	protein binding
GO:0005524	molecular_function	ATP binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	18.399
	SRR3591706	second leaf	9.657
	SRR3591707	mature leaf	9.911
	SRR3591708	Shoot apex	18.984
	SRR3591709	Stem	12.658
	SRR3591710	White floral bud	15.464
	SRR3591711	White flower	16.838
	SRR3591712	Green floral bud	10.126
	SRR3591713	Yellow flower	13.067
SRP173429	SRR8316895	Juvenile bud stage	10.813
	SRR8316896	Juvenile bud stage	11.314
	SRR8316897	Juvenile bud stage	4.336
	SRR8316894	Third green stage	6.555
	SRR8316900	Third green stage	11.027
	SRR8316901	Third green stage	9.077
	SRR8316898	Complete white stage	2.493
	SRR8316899	Complete white stage	13.313
	SRR8316903	Complete white stage	10.822
	SRR8316902	Silver flowering stage	4.757
	SRR8316904	Silver flowering stage	9.176
	SRR8316905	Silver flowering stage	4.511
	SRR8316906	Gold flowering stage	12.078
	SRR8316907	Gold flowering stage	10.201
	SRR8316908	Gold flowering stage	11.917
SRP132670	SRR6706286	Control	11.007
	SRR6706287	Light intensity 50%	10.037
	SRR6706288	Light intensity 20%	10.204
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	3.705
	CNS0095593	Slightly white alabastrum(diploid) 2	4.321
	CNS0095594	Slightly white alabastrum(diploid) 3	3.115
	CNS0095595	Whole white alabastrum(diploid) 2	4.037
	CNS0095596	Whole white alabastrum(diploid) 3	2.040
	CNS0095597	Whole white alabastrum(diploid) 4	3.267
	CNS0095598	Silvery flower (diploied) 1	10.079
	CNS0095599	Silvery flower (diploied) 2	8.354
	CNS0095600	Silvery flower (diploied) 3	13.657
	CNS0095601	Golden flower (diploid) 1	7.650
	CNS0095602	Golden flower (diploid) 2	15.095
	CNS0095603	Golden flower (diploid) 3	12.683
	CNS0095604	Slightly white alabastrum(tetraploid) 1	6.030
	CNS0095605	Slightly white alabastrum(tetraploid) 2	3.524
	CNS0095606	Slightly white alabastrum(tetraploid) 3	20.110
	CNS0095607	Whole white alabastrum(tetraploid) 1	2.969
	CNS0095608	Whole white alabastrum(tetraploid) 2	1.083
	CNS0095609	Whole white alabastrum(tetraploid) 3	9.095
	CNS0095610	Silvery flower (tetraploid) 1	10.996
	CNS0095611	Silvery flower (tetraploid) 2	15.404
	CNS0095612	Silvery flower (tetraploid) 3	12.238
	CNS0095613	Golden flower (tetraploid) 1	4.436
	CNS0095614	Golden flower (tetraploid) 2	12.722
	CNS0095615	Golden flower (tetraploid) 3	8.680
CRA001975	CRR073297	Stem 1	9.454
	CRR073298	Stem 2	9.423
	CRR073299	Stem 3	6.184
	CRR073300	Leaf 1	10.010
	CRR073301	Leaf 2	6.289
	CRR073302	Leaf 3	5.472
	CRR073303	Juvenile bud 1	4.185
	CRR073304	Juvenile bud 2	2.978
	CRR073305	Juvenile bud 3	4.641
	CRR073306	Third green 1	2.230
	CRR073307	Third green 2	1.192
	CRR073308	Third green 3	2.783
	CRR073309	Second white 1	1.095
	CRR073310	Second white 2	2.753
	CRR073311	Second white 3	3.550
	CRR073312	Silver flowering 1	1.902
	CRR073313	Silver flowering 2	1.569
	CRR073314	Silver flowering 3	1.323
	CRR073315	Gold flowering 1	1.547
	CRR073316	Gold flowering 2	4.597
	CRR073317	Gold flowering 3	0.886
	CRR073318	Tawny withering 1	4.855
	CRR073319	Tawny withering 2	4.352
	CRR073320	Tawny withering 3	4.997