Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Reverse (-)

3914122 .. 3915204

Gene Structure 1083 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1083 bp

ATGGCTTATGAGAACGCTCTAATAGAAGATCCCAATCGTTACGAGGTCAAAGACCTCTCTATAGAGGAAGTACAGGAGAAACTTGAAGCTCTCAAGAAAAAATTAGATGATGGGAGCTTTAGTTGCATTTCACGAGACAAGTCCAACGTGACCTATGGTGAGTGTAGCGATGGCGTCAAACGTCTTACAGTGAAGGATATAAATAAACGCTCTAAACCAGGAGATGAAAAAAGAAAAAATATCCGTTTGATGGTTGATCTTATTCTCAAGTTCTTCCAAGCAAACAAGCGAGAAACACATCGTGGGGTGTTTTACGTAGGGAATAATACCAGTTCATTGTTCCGACAAAAAGATGAGTACGAAATTCTTGATGACATCTGTTCTACTATAAGGTGCAGCAGTTCAAGTCTCTACGTAGATGCTAGTGTAAGAGGCGTTGTTGCAGGTCTGCTTTCTTTCGAGCTGGGAGGGCATGAAACCTTTTGTACGAGCCGGGACGATGGGGTACCCATCCCGCTGAATTCAGATATTAAAATGAAGAATCGTGGAGCCAAGTTCATATTGGTGGTGGAAAATAAATCCGCTTTCAATACATTGATGCAAGATAAGTTTTACAATGATTATCCATGTATAATCATCACCGGAATGGGAATGCCGGAGGTGGCGACCAGAAGATTTTTAAAGCTATTGTCGGACAATTTTGGGCTTCCAGTGTACGGCCTTTTCGACTGTGATCCAGAAGGCATCAAAATGTTTACAATTTATACTGTTGGATCATATGAGGATGCCTTCGATAGTGTAAACTTAACTTGGCCGTATATGACGTGGTTGGGTGTTTGGCCGAGTGACCTATGTGCGCTTGATATACCCTGCAAGGATTTGAGTCCGAGTGAGATTGCATTGGTAGATTATCTTTTGAGAGAAGATTTTGTGAAAGAGAATCCGAGGTTGGTTGAGGAGCTGGAACATATGAAAATAACGGAGAAAAAAGCGAATCTTGAAGCTTTGAAGGAATTTGGGCCCACTTGTTTGTCCAAGTACTATTTGCCATATAAGTTGAATTATCTTTTGACCGCGCCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000729 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008134 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0030957 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0042803 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046983 GO:0048285 GO:0050896 GO:0051321 GO:0051716 GO:0061505 GO:0061982 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

360

Amino Acids

41.06

Weight (kDa)

5.24

Isoelectric Point (pI)

41.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	186 - 353	1.3e-47	Topoisomerase 6 subunit A/Spo11, Toprim domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004536)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43731 FvH4_3g43753
rosa_chinensis	RchiOBHm_Chr2g0086091 RchiOBHm_Chr2g0089291 RchiOBHm_Chr2g0089851 RchiOBHm_Chr5g0083311
rosa_laevigata	RLG00000015741 RLG00000016061 RLG00000017209
rosa_multiflora	Rmu_co8293021.1_g000001 Rmu_co8360049.1_g000001 Rmu_sc0000388.1_g000047 Rmu_sc0002384.1_g000009 Rmu_sc0003382.1_g000021 Rmu_sc0017765.1_g000002 Rmu_ssc0000355.1_g000016
rosa_roxburghii	Rroxscaffold_2G00140180 Rroxscaffold_2G00151540
rosa_rugosa	Rorug01G0465600 Rorug01G0488800 Rorug02G0003700
rosa_samantha	Rh2AG015000 Rh2AG045100 Rh2AG048900 Rh2BG047800 Rh2CG016000 Rh2CG016100 Rh2CG045000 Rh2CG049900 Rh5BG561000 Rh5CG583600
rosa_wichuraiana	Rw2G001320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	434
Acc65I	GGTACC	1 cut(s)	505
AccB1I	GGYRCC	1 cut(s)	505
AccII	CGCG	1 cut(s)	1076
AciI	CCGC	3 cut(s)	515, 582, 1074
AclWI	GGATC	3 cut(s)	23, 728, 781
AcoI	YGGCCR	2 cut(s)	812, 839
AcsI	RAATTY	3 cut(s)	363, 520, 1013
AcyI	GRCGYC	1 cut(s)	174
AdeI	CACNNNGTG	1 cut(s)	302
AfaI	GTAC	6 cut(s)	72, 359, 487, 507, 716, 1040
AfiI	CCNNNNNNNGG	2 cut(s)	250, 716
AgsI	TTSAA	6 cut(s)	86, 405, 589, 1001, 1009, 1060
AjiI	CACGTC	1 cut(s)	825
AjnI	CCWGG	1 cut(s)	217
AjuI	GAANNNNNNNTTGG	2 cut(s)	932, 964
AluBI	AGCT	6 cut(s)	89, 117, 463, 685, 961, 1004
AluI	AGCT	6 cut(s)	89, 117, 463, 685, 961, 1004
Alw26I	GTCTC	2 cut(s)	129, 413
AlwI	GGATC	3 cut(s)	23, 728, 781
AoxI	GGCC	4 cut(s)	718, 812, 839, 1019
ApaI	GGGCCC	1 cut(s)	1023
ApeKI	GCWGC	1 cut(s)	396
ApoI	RAATTY	3 cut(s)	363, 520, 1013
Asp718I	GGTACC	1 cut(s)	505
AspLEI	GCGC	2 cut(s)	859, 1078
AspS9I	GGNCC	2 cut(s)	1019, 1020
AsuC2I	CCSGG	1 cut(s)	494
AsuHPI	GGTGA	2 cut(s)	170, 631
BaeGI	GKGCMC	1 cut(s)	1023
BanI	GGYRCC	1 cut(s)	505
BanII	GRGCYC	1 cut(s)	1023
BauI	CACGAG	1 cut(s)	132
BbvI	GCAGC	1 cut(s)	408
BccI	CCATC	5 cut(s)	104, 164, 244, 494, 518
BceAI	ACGGC	3 cut(s)	733, 799, 1063
BciT130I	CCWGG	1 cut(s)	219
BcnI	CCSGG	1 cut(s)	494
BcoDI	GTCTC	2 cut(s)	129, 413
BfaI	CTAG	1 cut(s)	423
BfmI	CTRYAG	1 cut(s)	60
BfuAI	ACCTGC	1 cut(s)	434
BisI	GCNGC	1 cut(s)	397
BlsI	GCNGC	1 cut(s)	398
BmcAI	AGTACT	1 cut(s)	1040
Bme1390I	CCNGG	2 cut(s)	219, 494
BmgBI	CACGTC	1 cut(s)	825
BmgT120I	GGNCC	2 cut(s)	1019, 1020
BmiI	GGNNCC	3 cut(s)	507, 550, 1021
BmrFI	CCNGG	2 cut(s)	219, 494
BmsI	GCATC	4 cut(s)	409, 588, 753, 775
BpuEI	CTTGAG	2 cut(s)	77, 251
BpuMI	CCSGG	1 cut(s)	494
BsaAI	YACGTR	2 cut(s)	316, 415
BsaBI	GATNNNNATC	1 cut(s)	33
BsaHI	GRCGYC	1 cut(s)	174
BsaJI	CCNNGG	1 cut(s)	944
BsaWI	WCCGGW	1 cut(s)	641
BsaXI	ACNNNNNCTCC	2 cut(s)	106, 136
Bsc4I	CCNNNNNNNGG	2 cut(s)	250, 716
Bse1I	ACTGG	2 cut(s)	330, 710
Bse8I	GATNNNNATC	1 cut(s)	33
BseBI	CCWGG	1 cut(s)	219
BseDI	CCNNGG	1 cut(s)	944
BseGI	GGATG	2 cut(s)	510, 790
BseJI	GATNNNNATC	1 cut(s)	33
BseLI	CCNNNNNNNGG	2 cut(s)	250, 716
BseNI	ACTGG	2 cut(s)	330, 710
BseRI	GAGGAG	1 cut(s)	971
BseSI	GKGCMC	1 cut(s)	1023
BseXI	GCAGC	1 cut(s)	408
BseYI	CCCAGC	1 cut(s)	463
BsgI	GTGCAG	1 cut(s)	415
Bsh1236I	CGCG	1 cut(s)	1076
BshFI	GGCC	4 cut(s)	720, 814, 841, 1021
BshNI	GGYRCC	1 cut(s)	505
BsiSI	CCGG	3 cut(s)	493, 642, 656
BslFI	GGGAC	1 cut(s)	509
BslI	CCNNNNNNNGG	2 cut(s)	250, 716
BsmAI	GTCTC	2 cut(s)	129, 413
BsmFI	GGGAC	1 cut(s)	509
BsmI	GAATGC	1 cut(s)	657
BsnI	GGCC	4 cut(s)	720, 814, 841, 1021
Bsp120I	GGGCCC	1 cut(s)	1019
Bsp1286I	GDGCHC	1 cut(s)	1023
Bsp143I	GATC	4 cut(s)	28, 256, 733, 773
BspACI	CCGC	3 cut(s)	515, 582, 1074
BspANI	GGCC	4 cut(s)	720, 814, 841, 1021
BspFNI	CGCG	1 cut(s)	1076
BspLI	GGNNCC	3 cut(s)	507, 550, 1021
BspMI	ACCTGC	1 cut(s)	434
BspPI	GGATC	3 cut(s)	23, 728, 781
BspT107I	GGYRCC	1 cut(s)	505
BsrI	ACTGG	2 cut(s)	330, 710
BssECI	CCNNGG	1 cut(s)	944
BssMI	GATC	4 cut(s)	28, 256, 733, 773
BssNI	GRCGYC	1 cut(s)	174
BssSI	CACGAG	1 cut(s)	132
Bst2BI	CACGAG	1 cut(s)	132
Bst2UI	CCWGG	1 cut(s)	219
Bst4CI	ACNGT	3 cut(s)	190, 731, 769
BstACI	GRCGYC	1 cut(s)	174
BstBAI	YACGTR	2 cut(s)	316, 415
BstF5I	GGATG	2 cut(s)	510, 790
BstFNI	CGCG	1 cut(s)	1076
BstHHI	GCGC	2 cut(s)	859, 1078
BstKTI	GATC	4 cut(s)	31, 259, 736, 776
BstMAI	GTCTC	2 cut(s)	129, 413
BstMBI	GATC	4 cut(s)	28, 256, 733, 773
BstMWI	GCNNNNNNNGC	2 cut(s)	123, 469
BstNI	CCWGG	1 cut(s)	219
BstSCI	CCNGG	2 cut(s)	217, 492
BstSFI	CTRYAG	1 cut(s)	60
BstSLI	GKGCMC	1 cut(s)	1023
BstSNI	TACGTA	2 cut(s)	316, 415
BstUI	CGCG	1 cut(s)	1076
BstV1I	GCAGC	1 cut(s)	408
BstX2I	RGATCY	1 cut(s)	28
BstYI	RGATCY	1 cut(s)	28
BsuRI	GGCC	4 cut(s)	720, 814, 841, 1021
BtgZI	GCGATG	1 cut(s)	183
BtrI	CACGTC	1 cut(s)	825
BtsCI	GGATG	2 cut(s)	510, 790
BtsIMutI	CAGTG	2 cut(s)	195, 717
BveI	ACCTGC	1 cut(s)	434
CfoI	GCGC	2 cut(s)	859, 1078
Cfr13I	GGNCC	2 cut(s)	1019, 1020
CseI	GACGC	1 cut(s)	163
Csp6I	GTAC	6 cut(s)	71, 358, 486, 506, 715, 1039
CviAII	CATG	2 cut(s)	473, 627
CviQI	GTAC	6 cut(s)	71, 358, 486, 506, 715, 1039
DpnI	GATC	4 cut(s)	30, 258, 735, 775
DpnII	GATC	4 cut(s)	28, 256, 733, 773
DraI	TTTAAA	1 cut(s)	681
DraIII	CACNNNGTG	1 cut(s)	302
EaeI	YGGCCR	2 cut(s)	812, 839
Eco105I	TACGTA	2 cut(s)	316, 415
Eco24I	GRGCYC	1 cut(s)	1023
EcoRI	GAATTC	1 cut(s)	520
EcoRII	CCWGG	1 cut(s)	217
EcoT38I	GRGCYC	1 cut(s)	1023
FaeI	CATG	2 cut(s)	476, 630
FalI	AAGNNNNNCTT	2 cut(s)	981, 1013
FaqI	GGGAC	1 cut(s)	509
FatI	CATG	2 cut(s)	472, 626
FauI	CCCGC	1 cut(s)	522
FauNDI	CATATG	2 cut(s)	778, 969
Fnu4HI	GCNGC	1 cut(s)	397
FokI	GGATG	2 cut(s)	497, 797
FriOI	GRGCYC	1 cut(s)	1023
Fsp4HI	GCNGC	1 cut(s)	397
FspBI	CTAG	1 cut(s)	423
GlaI	GCGC	2 cut(s)	858, 1077
GluI	GCNGC	1 cut(s)	397
GsaI	CCCAGC	1 cut(s)	467
HaeIII	GGCC	4 cut(s)	720, 814, 841, 1021
HapII	CCGG	3 cut(s)	493, 642, 656
HgaI	GACGC	1 cut(s)	163
HhaI	GCGC	2 cut(s)	859, 1078
Hin1I	GRCGYC	1 cut(s)	174
Hin1II	CATG	2 cut(s)	476, 630
Hin6I	GCGC	2 cut(s)	857, 1076
HinP1I	GCGC	2 cut(s)	857, 1076
HindIII	AAGCTT	1 cut(s)	1002
HinfI	GANTC	4 cut(s)	541, 883, 940, 994
HpaII	CCGG	3 cut(s)	493, 642, 656
HphI	GGTGA	2 cut(s)	170, 631
Hpy166II	GTNNAC	3 cut(s)	715, 756, 802
Hpy188I	TCNGA	5 cut(s)	344, 526, 694, 888, 945
Hpy188III	TCNNGA	5 cut(s)	94, 132, 368, 737, 998
Hpy8I	GTNNAC	3 cut(s)	715, 756, 802
HpyAV	CCTTC	4 cut(s)	187, 734, 799, 1003
HpyCH4III	ACNGT	3 cut(s)	190, 731, 769
HpyCH4IV	ACGT	5 cut(s)	147, 181, 315, 414, 824
HpyCH4V	TGCA	6 cut(s)	126, 396, 443, 601, 873, 899
HpyF10VI	GCNNNNNNNGC	2 cut(s)	123, 469
HpySE526I	ACGT	5 cut(s)	147, 181, 315, 414, 824
Hsp92I	GRCGYC	1 cut(s)	174
Hsp92II	CATG	2 cut(s)	476, 630
HspAI	GCGC	2 cut(s)	857, 1076
KpnI	GGTACC	1 cut(s)	509
Kzo9I	GATC	4 cut(s)	28, 256, 733, 773
LmnI	GCTCC	3 cut(s)	114, 548, 958
Lsp1109I	GCAGC	1 cut(s)	408
LweI	GCATC	4 cut(s)	409, 588, 753, 775
MaeI	CTAG	1 cut(s)	423
MaeII	ACGT	5 cut(s)	147, 181, 315, 414, 824
MaeIII	GTNAC	3 cut(s)	38, 148, 845
MalI	GATC	4 cut(s)	30, 258, 735, 775
MboI	GATC	4 cut(s)	28, 256, 733, 773
MboII	GAAGA	5 cut(s)	38, 265, 550, 684, 935
MflI	RGATCY	1 cut(s)	28
MhlI	GDGCHC	1 cut(s)	1023
MluCI	AATT	7 cut(s)	101, 363, 520, 697, 759, 1013, 1060
MlyI	GAGTC	1 cut(s)	892
MmeI	TCCRAC	4 cut(s)	168, 367, 672, 751
MnlI	CCTC	9 cut(s)	37, 58, 65, 425, 461, 652, 775, 939, 949
MseI	TTAA	3 cut(s)	531, 680, 806
MslI	CAYNNNNRTG	3 cut(s)	563, 644, 749
MspA1I	CMGCKG	1 cut(s)	517
MspI	CCGG	3 cut(s)	493, 642, 656
MspR9I	CCNGG	2 cut(s)	219, 494
Mva1269I	GAATGC	1 cut(s)	657
MvaI	CCWGG	1 cut(s)	219
MvnI	CGCG	1 cut(s)	1076
MwoI	GCNNNNNNNGC	2 cut(s)	123, 469
NciI	CCSGG	1 cut(s)	494
NdeI	CATATG	2 cut(s)	778, 969
NdeII	GATC	4 cut(s)	28, 256, 733, 773
NlaIII	CATG	2 cut(s)	476, 630
NlaIV	GGNNCC	3 cut(s)	507, 550, 1021
NmeAIII	GCCGAG	1 cut(s)	867
NmuCI	GTSAC	2 cut(s)	148, 845
PcsI	WCGNNNNNNNCGW	1 cut(s)	723
PctI	GAATGC	1 cut(s)	657
PfeI	GAWTC	3 cut(s)	541, 940, 994
PkrI	GCNGC	1 cut(s)	398
PleI	GAGTC	1 cut(s)	891
PpsI	GAGTC	1 cut(s)	891
Ppu21I	YACGTR	2 cut(s)	316, 415
Psp6I	CCWGG	1 cut(s)	217
PspFI	CCCAGC	1 cut(s)	463
PspGI	CCWGG	1 cut(s)	217
PspN4I	GGNNCC	3 cut(s)	507, 550, 1021
PspOMI	GGGCCC	1 cut(s)	1019
PspPI	GGNCC	2 cut(s)	1019, 1020
PsuI	RGATCY	1 cut(s)	28
RsaI	GTAC	6 cut(s)	72, 359, 487, 507, 716, 1040
RsaNI	GTAC	6 cut(s)	71, 358, 486, 506, 715, 1039
RseI	CAYNNNNRTG	3 cut(s)	563, 644, 749
SaqAI	TTAA	3 cut(s)	531, 680, 806
SatI	GCNGC	1 cut(s)	397
Sau3AI	GATC	4 cut(s)	28, 256, 733, 773
Sau96I	GGNCC	2 cut(s)	1019, 1020
ScaI	AGTACT	1 cut(s)	1040
SchI	GAGTC	1 cut(s)	892
ScrFI	CCNGG	2 cut(s)	219, 494
SduI	GDGCHC	1 cut(s)	1023
SfaNI	GCATC	4 cut(s)	409, 588, 753, 775
SfcI	CTRYAG	1 cut(s)	60
SmiMI	CAYNNNNRTG	3 cut(s)	563, 644, 749
SmlI	CTYRAG	2 cut(s)	92, 266
SmoI	CTYRAG	2 cut(s)	92, 266
SnaBI	TACGTA	2 cut(s)	316, 415
Sse9I	AATT	7 cut(s)	101, 363, 520, 697, 759, 1013, 1060
SsiI	CCGC	3 cut(s)	515, 582, 1074
SspMI	CTAG	1 cut(s)	423
StyD4I	CCNGG	2 cut(s)	217, 492
TaaI	ACNGT	3 cut(s)	190, 731, 769
TaiI	ACGT	5 cut(s)	150, 184, 318, 417, 827
TaqI	TCGA	3 cut(s)	459, 726, 792
TasI	AATT	7 cut(s)	101, 363, 520, 697, 759, 1013, 1060
TatI	WGTACW	2 cut(s)	70, 1038
TfiI	GAWTC	3 cut(s)	541, 940, 994
Tru1I	TTAA	3 cut(s)	531, 680, 806
Tru9I	TTAA	3 cut(s)	531, 680, 806
TscAI	CASTG	2 cut(s)	195, 717
TseFI	GTSAC	2 cut(s)	148, 845
TseI	GCWGC	1 cut(s)	396
Tsp45I	GTSAC	2 cut(s)	148, 845
TspDTI	ATGAA	6 cut(s)	240, 324, 489, 547, 551, 986
TspGWI	ACGGA	2 cut(s)	233, 995
TspRI	CASTG	2 cut(s)	195, 717
XapI	RAATTY	3 cut(s)	363, 520, 1013
XcmI	CCANNNNNNNNNTGG	1 cut(s)	559
XspI	CTAG	1 cut(s)	423
ZrmI	AGTACT	1 cut(s)	1040

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.