Gene detail

Detail information of MD13G1176900 Annotation

Gene ID	Annotation
MD13G1176900	DNA topoisomerase 1 beta

Network

Network Category	Global Network	Conditional network (different tissues and developmental stages)
Coexpression Positive	Top300 PCC genelist	Top300 PCC genelist
Coexpression Negative	Top300 PCC genelist	Top300 PCC genelist

Functional module

Method	Module ID	Function Annotation
Co-expression network	CFinderM0825	DNA topoisomerase I [EC:5.99.1.2] chromatin DNA binding DNA topoisomerase type I activity DNA topoisomerase type II (ATP-hydrolyzing) activity

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD13G1176900	mRNA	Chr13	14662087	14674215	-

Sequences

CDS:

MD13G1176900

TGAGGCCCAAAGCCGAAACCAATTTTCCTTCACCTACATTCCAGAAATCAGATATCACAAACTGAAGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTAACCCAAAACGGTGACTGCGGTGGCCATCTTTTCCCACATATCAATCCCCCAATCAGCTCAACTAAGAGATCAGAAGCTGCAAACCCAATTATTCTTTGACGAACAAGTGATTTACATGCCAACAGAGTACATTGTTGGATAATGGCTGTTCAGACTTCTACTAAACCGAATGTATATGAAGACGAGGATGATGAACCTTTAGTTTTCAAACGGTGCAGCACGAAATCTAAACCCAATCAATTAAACGCCGAAGCAAAGAAAATACCAGCTCAGAGGCAAGTTGGACAACCAGGGAAGCAGGTATCTGAACACCGTTCTTCAAATGGTCTAAACTCGAGTGTTCAAAAAGGTAAGATGGTTCCATCAACCAAATCACCACCAGTAAAATCTCCGCTAGCAAGCCCAAAAGCTTCAACTTCATCTGCTGGGGCATCAGCAGTGTCAAATTCAAAAGCTTCAACTTCATCTAGGGCATCACCAGTACCCAAATCACCACCGTTGACTACATTAGATGGTCATTCTAAACGGTTATCAGAACAGAATAAGTCTACCACAATTAAGAAGGAAATTAATTCTATTGAGCATCCTGCTCAAGGAAATAGTGATTCTGAAGATGAAAAACCGATAGGTGCCAGACTGGGGAAAGTGAAACCTTCTGAAGATTCAGATGATGATAAACCTTTATCATCAAGGATTGCACCAAAGTCCAAGGTGGGAACATCAGGCAGTCACCCTTATGATTCTAAAGAAAGGAAGCCCGTTGTTTCAAAAGTTCAGAAGAACGGTTCCAGCACAACAGATAAAGGCAAAGCTCCATCTGTGGTCTCTAGTAAGAGGCCTCTGGATAAGGCCAATCCTTCTGAGAACTCATCAGCTAAAAGGCTAAAAGTTTCAGATTCTTCTACATCTGTAAAGAATAAGCCGGTAGCGGCCAAACAAGAACCAAAGGAAGAAGATGATGATGATGACTTCATTCCAATTTCCCAGAGGAGTAAGAAAGTTGCATCGGATAGTAAATCATCTCTGACAAAGCAAACCGTAACCAAAGTTGGTTCATTCTCAATCAAGAAAACGATCAAGAAGAGCCAAAAGGCATCAAAATTTACAAAGTATTCTAAATCGACCACGAAGCCACCGAGCTCTAATGATGGGCAGACAAAATGGACAACTTTAGAACACAATGGTGTCATTTTCCCACCTCCATACAAGCCTCATGGGATAAAGATGCTTTATAATGGGAAGCCAGTCACCTTGACTCCTGAACAAGAGGAGGTTGCAACAATGTATGCAGTGATGAAAGATACAGATTATGTGCAAAAAGAAACTTTCAGAAAAAATTTCTGGGCTGATTGGCATAAGTTGCTTGGGAAGAACCATGTAATTCAGAAATTGGATGCTTGTGATTTTACCCCAATATATGACTGGTATCAGAATGAAAAGGAAAAGAAGAAACAAATGAGTACAGAAGAGAAGAAGGCCTTGAAGGAGGAGAAACTAAAACAAGAGGAGAAGTATATGTGGGCTCGCGTTGATGGTAACCAAGAAAAGGTTGGAAACTTCAGAGTTGAACCACCTGGGTTATTCCGAGGTCGTGGAGAGCATCCAAAGTCGGGAAAGCTGAAAAGACGGATTTGTCCAAGTGATGTTACAATTAATATAGGAAAGAATGCCCCAATTCCAGAGTGTCCCATCCCTGGTGAAAGCTGGAAAGAAGTAAGGCATGACAATACGGTCACATGGTTAGCTTTCTGGAACGATCCAATTAATCCAAGGGAATTCAAATACGTGTTTCTGGCACCTAGTAGTAACTTGAAGGGTTTAAGTGACATGCAGAAATACGAAAAAGCACGGAGATTGAAGGACCATATAGGAAAAATCAGGGCTTCATACACCAAGGATTTTACTAGTAAAGATGTAACTAAGCGGCAGATAGCAGTTGCTACCTATCTCATTGATAAACTTGCTCTCAGGGCGGGTAATGAGAAGGATGATGATGAAGCGGATACTGTTGGTTGCTGCACTTTAAAAGTAGAGAATGTAAAAGCAATTCCCCCTAACTCGTTGGAGTTTAACTTCCTTGGTAAAGACTCAATCAGATATGAAAATACTGTTGAAGTTGAGACTCCTGTTTACAAGGCAATTATACAGTTCCAGTCTGGGAAACGTGGCAGTGATGATCTCTTTGACATGTTGGATACCAGTAGATTGAATGCTCATCTAAAGAATGTGATGGATGGCCTTACAGCAAAAGTGTTCCGTACCTACAATGCATCTATCACATTGGATGACATATTGAACAAGAAAACCAAAGACGGAGATCTTTCAGAGAAACTCGTTGTTTATCAGCATGCAAACAAAGAGGTTGCCATCATTTGTAATCATCAACGGACTGTCTCAAAGACTCACAGTGCACAAATGTCCAAGTTAACAGAAAAGATTGATGACCTTCAGGGCATCGTGAAAGATCTGAAAATAGATTTGGACAGGGCCAAAAAAGGAAAGCCCCCACTGAAAGATGCTGATGGAAAGCAAAAGAAAAATTTGACCCCGGAAGCGTTGGAGAGGAAGATAGCTCAAACAAATGCAAAGATTGAAAAAATGGAACTGGATATGAGAACTAAAGAGGATCTGAAAACAGTGGCATTGGGAACGTCTAAAATCAACTATCTTGACCCGAGGATCACCGTTGCTTGGTGCAAGCGGCATGAAGTTCCAATCGAGAAGATCTTCAACAAGTCACTCCTCGCGAAGTTTTCTTGGGCAATGCCAGTGGAGCCTGACTTCAGATTCTGATACTTGGAGATGTTGCTCGCATTGCCGCCTTCCCCTCCATTCCATATGGAGAAAGAAATCGAGGCAATCGACGCGACCCTTCCTTCTTTGTTCCATTATAGAACTTGACATTTTTGTTCTTCTTTCTTTTTCGTATTTTTCGGCTGAAAATTCTTGTTGTATGTTAATCTAATCTAATGACTGGCTGAGTAACCTTGCCACCACCTTGACCTTTCATTTGTGTTTTCTTTTTCTTGGATCCCAGTAATTGTTTTATTTGAACTCTGAAAACCCTCTGTACTGATTCTAAAGTTATTTAAGCTACATTCAACATGCACCTTTAACATTA

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT5G55300.1	1	MGO1;TOP1;TOP1ALPHA\|MGOUN 1;TOPOISOMERASE 1;DNA topoisomerase I alpha
Arabidopsis thaliana	AT5G55300.2	0.985	MGO1;TOP1;TOP1ALPHA\|MGOUN 1;TOPOISOMERASE 1;DNA topoisomerase I alpha
Prunus persica	Prupe.8G003200.2.p	1	DNA topoisomerase 1 beta
Prunus persica	Prupe.8G003200.5.p	1	DNA topoisomerase 1 beta
Prunus persica	Prupe.8G003200.3.p	1	DNA topoisomerase 1 beta
Prunus persica	Prupe.8G003200.4.p	1	DNA topoisomerase 1 beta
Prunus persica	Prupe.8G003200.1.p	1	DNA topoisomerase 1 beta
Pyrus communis	PCP024981.1	1	-
Pyrus x bretschneideri	Pbr014778.1	1	-
Rosa multiflora	Rmu_sc0001767.1_g000005.1	1	-
Rubus occidentalis	Ro02_G02309	1	-
Fragaria vesca	mrna06650.1	1	DNA topoisomerase 1 beta
Vitis vinifera	GSVIVT01020301001	1	DNA topoisomerase I alpha
Populus trichocarpa	Potri.001G359700.2	1	DNA topoisomerase 1 beta
Populus trichocarpa	Potri.011G092700.1	0.622	DNA topoisomerase 1 beta
Oryza sativa	LOC_Os08g05840.1	1	"DNA topoisomerase 1, putative, expressed"

Gene Ontology

GO term	Description	Category
GO:0003677	DNA binding	molecular_function
GO:0003918	DNA topoisomerase type II (ATP-hydrolyzing) activity	molecular_function
GO:0006265	DNA topological change	biological_process
GO:0005694	chromosome	cellular component
GO:0003917	DNA topoisomerase type I activity	molecular_function

KEGG

KO	Description	Enzyme
K03163	DNA topoisomerase I	EC:5.99.1.2

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF01028.16	Topoisom_I	554	777	1.20E-92

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	15.3048
SRR5252888	dormant buds	no	dormant buds(0 month)	38.229
SRR5252889	dormant buds	no	dormant buds(0 month)	36.4643
SRR5252886	dormant buds	no	dormant buds(1 months)	47.6578
SRR5252887	dormant buds	no	dormant buds(1 months)	39.8445
SRR5252884	dormant buds	no	dormant buds(2 months)	51.1383
SRR5252882	dormant buds	no	dormant buds(3 months)	43.6434
SRR5252883	dormant buds	no	dormant buds(3 months)	45.1848
SRR5252880	dormant buds	no	dormant buds(4 months)	42.5496
SRR5252881	dormant buds	no	dormant buds(4 months)	47.8459
SRR5252878	bud break	no	bud break	40.639
SRR5252879	bud break	no	bud break	41.4064
SRR3744766	flower	no	mature	18.9766
SRR3744767	flower	no	mature	19.4752
SRR3744768	flower	no	mature	19.4089
SRR6308190	stigmas	no	open flowers	19.6163
SRR6308181	styles	no	open flowers	17.886
SRR6308188	filaments	no	open flowers	15.0417
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	17.1472
SRR6308192	pollen	no	open flowers	18.0243
SRR6308191	petals	no	open flowers	16.9691
SRR6308194	sepals	no	open flowers	21.1799
SRR6308193	receptacles	no	open flowers	18.056
SRR6308189	ovaries	no	open flowers	16.2483
SRR3384922	fruit	no	1 week after full bloom	9.02065
SRR3384921	fruit	no	2 week after full bloom	9.4684
SRR3384920	fruit	no	3 week after full bloom	8.33709
SRR3384919	fruit	no	4 week after full bloom	7.22085
SRR3384923	fruit	no	5 week after full bloom	6.26351
SRR3384918	fruit	no	6 week after full bloom	6.41662
SRR3384917	fruit	no	8 week after full bloom	6.15367
SRR3384916	fruit	no	10 week after full bloom	7.38588
SRR3384915	fruit	no	12 week after full bloom	8.27625
SRR3384914	fruit	no	14 week after full bloom	8.02678
SRR3384913	fruit	no	16 week after full bloom	8.51465
SRR3384912	fruit	no	18 week after full bloom	8.37631
SRR3384911	fruit	no	19 week after full bloom	7.58461
SRR3384910	fruit	no	20 week after full bloom	6.93174
SRR768128	whole fruit	no	25 days post anthesis	12.2915
SRR768129	whole fruit	no	35 days post anthesis	10.8641
SRR768130	whole fruit	no	60 days post anthesis	9.9353
SRR768131	whole fruit	no	87 days post anthesis	9.88808
SRR7343308	immature fruit flesh	no	immature	12.4677
SRR7343309	immature fruit flesh	no	immature	10.2391
SRR6320494	ripe fruit flesh	no	mature	12.8409
SRR5405143	ripe fruit peel	no	mature	12.9782
SRR6320572	ripe fruit peel	no	mature	5.17294
SRR7403504	fruit	uninfected	mature	11.8029
SRR7403506	fruit	uninfected	mature	11.4315
SRR7403507	fruit	uninfected	mature	10.9728
SRR7403500	fruit	infected with penicillium expansum	mature	22.3967
SRR7403501	fruit	infected with penicillium expansum	mature	22.1574
SRR7403508	fruit	infected with penicillium expansum	mature	22.0872
SRR7403502	fruit	infected with penicillium expansum	mature	20.6811
SRR7403503	fruit	infected with penicillium expansum	mature	21.6801
SRR7403505	fruit	infected with penicillium expansum	mature	20.3184
SRR1613973	Central seeds	no	20DAPF	11.2942
SRR1613974	Central seeds	no	20DAPF	14.5112
SRR1613975	Central seeds	no	20DAPF	11.4513
SRR1613976	Lateral seeds	no	20DAPF	11.3294
SRR1613977	Lateral seeds	no	20DAPF	11.2435
SRR1613978	Lateral seeds	no	20DAPF	11.7174
SRR3744786	stem	no	mature	19.9514
SRR3744787	stem	no	mature	21.1574
SRR3744772	stem	no	mature	21.2363
SRX765691	seedling shoot apex	no	4-6 week old seedling	22.6629
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	23.07
SRR1089478	leaf	Virus-free	plantlets	20.4296
SRR1089477	leaf	ASGV-infected	plantlets	21.8362
SRR767660	leaf	uninfected	fully developed	10.8053
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	5.55568
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	13.0164
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	3.14321
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	8.95451
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	10.796
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	11.4788
SRR6308182	young leaf	no	immature leaves	21.9451
SRR3744769	leaf	no	mature	19.2719
SRR3744770	leaf	no	mature	21.779
SRR3744771	leaf	no	mature	22.7988
SRR5405145	leaf	no	mature	24.4458
SRR6320561	leaf	no	mature	14.1233