Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Forward (+)

88769923 .. 88771048

Gene Structure 1126 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00151540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 573 bp

ATGAACCTACACAGTGCAATGTACACCAGACTGATGGCTTATGAGGACGCTCCAATAGAAGATCCCAACCGTTATGAGGTCAAAGGCCTCTCTATAGAGGAAGTACAGGAGAAACTTGAAGCTCTCAAGAAAAAATTAGATGATGGGAGCTTTAGTTGGATTTCACGAGACAAGTCCAACGTGACCTATGGTGACTTGTGTATGGCCTTTTCGACTGTGATCCAGAAGGCATCAAAATGCTTACAATTTAATTATACTGTTGGATCATATGAGGTGGCCTTCAATAGTGTACACTTAACTTGGCCGTATATGACGTGGTTGGGTGTTTGGCCGAGTGACCTATGTGCGCTTGATATACCCTGCAAGGATTTGAGTCCGAATGAGATTGGGTTGGTAGATTGTCTTCTGAAAGAAGATTTTGTGAAAGAGCATCCGAGGTTGGTTGAGGAGCTGGAACATATGAAAATAACGGAGAAAAAAGCGAATCTTGAAGCTTTGAAGGAGTTTGGGCCCACTTGTTTGTCCAAGTGCTACTTGCCATATAAGTTGAATTATCTTTTGACCGCCCCGTGA

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

190

Amino Acids

21.8

Weight (kDa)

5.17

Isoelectric Point (pI)

30.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	84 - 183	1.5e-17	Topoisomerase 6 subunit A/Spo11, Toprim domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AciI	CCGC	1 cut(s)	564
AclWI	GGATC	3 cut(s)	56, 214, 271
AcoI	YGGCCR	2 cut(s)	302, 329
AfaI	GTAC	3 cut(s)	23, 105, 291
AfiI	CCNNNNNNNGG	1 cut(s)	76
AgsI	TTSAA	5 cut(s)	119, 283, 491, 499, 550
AjiI	CACGTC	1 cut(s)	315
AluBI	AGCT	4 cut(s)	122, 150, 451, 494
AluI	AGCT	4 cut(s)	122, 150, 451, 494
Alw26I	GTCTC	1 cut(s)	162
AlwI	GGATC	3 cut(s)	56, 214, 271
AoxI	GGCC	6 cut(s)	85, 204, 276, 302, 329, 509
ApaI	GGGCCC	1 cut(s)	513
AspLEI	GCGC	1 cut(s)	349
AspS9I	GGNCC	2 cut(s)	509, 510
AsuHPI	GGTGA	1 cut(s)	203
BaeGI	GKGCMC	1 cut(s)	513
BanII	GRGCYC	1 cut(s)	513
BarI	GAAGNNNNNNTAC	2 cut(s)	387, 419
BauI	CACGAG	1 cut(s)	165
BbsI	GAAGAC	1 cut(s)	395
BccI	CCATC	2 cut(s)	28, 137
BceAI	ACGGC	1 cut(s)	289
BcoDI	GTCTC	1 cut(s)	162
BfmI	CTRYAG	1 cut(s)	93
BmgBI	CACGTC	1 cut(s)	315
BmgT120I	GGNCC	2 cut(s)	509, 510
BmiI	GGNNCC	1 cut(s)	511
BmsI	GCATC	2 cut(s)	239, 439
BpiI	GAAGAC	1 cut(s)	395
BpuEI	CTTGAG	1 cut(s)	110
BsaJI	CCNNGG	1 cut(s)	434
BsaXI	ACNNNNNCTCC	2 cut(s)	139, 169
Bsc4I	CCNNNNNNNGG	1 cut(s)	76
Bse3DI	GCAATG	1 cut(s)	24
BseDI	CCNNGG	1 cut(s)	434
BseGI	GGATG	1 cut(s)	430
BseLI	CCNNNNNNNGG	1 cut(s)	76
BseMI	GCAATG	1 cut(s)	24
BseRI	GAGGAG	1 cut(s)	461
BseSI	GKGCMC	1 cut(s)	513
BshFI	GGCC	6 cut(s)	87, 206, 278, 304, 331, 511
BslI	CCNNNNNNNGG	1 cut(s)	76
BsmAI	GTCTC	1 cut(s)	162
BsnI	GGCC	6 cut(s)	87, 206, 278, 304, 331, 511
Bsp120I	GGGCCC	1 cut(s)	509
Bsp1286I	GDGCHC	1 cut(s)	513
Bsp1407I	TGTACA	2 cut(s)	21, 289
Bsp143I	GATC	3 cut(s)	61, 219, 263
BspACI	CCGC	1 cut(s)	564
BspANI	GGCC	6 cut(s)	87, 206, 278, 304, 331, 511
BspLI	GGNNCC	1 cut(s)	511
BspPI	GGATC	3 cut(s)	56, 214, 271
BsrDI	GCAATG	1 cut(s)	24
BsrGI	TGTACA	2 cut(s)	21, 289
BssECI	CCNNGG	1 cut(s)	434
BssMI	GATC	3 cut(s)	61, 219, 263
BssSI	CACGAG	1 cut(s)	165
Bst2BI	CACGAG	1 cut(s)	165
Bst4CI	ACNGT	4 cut(s)	14, 71, 217, 259
BstAUI	TGTACA	2 cut(s)	21, 289
BstF5I	GGATG	1 cut(s)	430
BstHHI	GCGC	1 cut(s)	349
BstKTI	GATC	3 cut(s)	64, 222, 266
BstMAI	GTCTC	1 cut(s)	162
BstMBI	GATC	3 cut(s)	61, 219, 263
BstSFI	CTRYAG	1 cut(s)	93
BstSLI	GKGCMC	1 cut(s)	513
BstV2I	GAAGAC	1 cut(s)	395
BstX2I	RGATCY	1 cut(s)	61
BstXI	CCANNNNNNTGG	1 cut(s)	34
BstYI	RGATCY	1 cut(s)	61
BsuRI	GGCC	6 cut(s)	87, 206, 278, 304, 331, 511
BtrI	CACGTC	1 cut(s)	315
BtsCI	GGATG	1 cut(s)	430
BtsIMutI	CAGTG	1 cut(s)	19
CfoI	GCGC	1 cut(s)	349
Cfr13I	GGNCC	2 cut(s)	509, 510
CseI	GACGC	1 cut(s)	56
Csp6I	GTAC	3 cut(s)	22, 104, 290
CviQI	GTAC	3 cut(s)	22, 104, 290
DpnI	GATC	3 cut(s)	63, 221, 265
DpnII	GATC	3 cut(s)	61, 219, 263
EaeI	YGGCCR	2 cut(s)	302, 329
Eco147I	AGGCCT	1 cut(s)	87
Eco24I	GRGCYC	1 cut(s)	513
EcoT38I	GRGCYC	1 cut(s)	513
FalI	AAGNNNNNCTT	4 cut(s)	471, 503, 518, 550
FauNDI	CATATG	2 cut(s)	268, 459
FokI	GGATG	1 cut(s)	417
FriOI	GRGCYC	1 cut(s)	513
GlaI	GCGC	1 cut(s)	348
HaeIII	GGCC	6 cut(s)	87, 206, 278, 304, 331, 511
HgaI	GACGC	1 cut(s)	56
HhaI	GCGC	1 cut(s)	349
Hin6I	GCGC	1 cut(s)	347
HinP1I	GCGC	1 cut(s)	347
HindIII	AAGCTT	1 cut(s)	492
HinfI	GANTC	2 cut(s)	373, 484
HphI	GGTGA	1 cut(s)	203
Hpy166II	GTNNAC	3 cut(s)	24, 290, 292
Hpy188I	TCNGA	3 cut(s)	378, 408, 435
Hpy188III	TCNNGA	4 cut(s)	127, 165, 223, 488
Hpy8I	GTNNAC	3 cut(s)	24, 290, 292
HpyAV	CCTTC	3 cut(s)	220, 289, 493
HpyCH4III	ACNGT	4 cut(s)	14, 71, 217, 259
HpyCH4IV	ACGT	2 cut(s)	180, 314
HpyCH4V	TGCA	2 cut(s)	17, 363
HpySE526I	ACGT	2 cut(s)	180, 314
HspAI	GCGC	1 cut(s)	347
Kzo9I	GATC	3 cut(s)	61, 219, 263
LmnI	GCTCC	3 cut(s)	55, 147, 448
LpnPI	CCDG	5 cut(s)	40, 92, 236, 373, 437
LweI	GCATC	2 cut(s)	239, 439
MaeII	ACGT	2 cut(s)	180, 314
MaeIII	GTNAC	3 cut(s)	181, 191, 335
MalI	GATC	3 cut(s)	63, 221, 265
MboI	GATC	3 cut(s)	61, 219, 263
MboII	GAAGA	3 cut(s)	71, 395, 425
MflI	RGATCY	1 cut(s)	61
MhlI	GDGCHC	1 cut(s)	513
MluCI	AATT	4 cut(s)	134, 245, 250, 550
MlyI	GAGTC	1 cut(s)	382
MmeI	TCCRAC	3 cut(s)	137, 201, 241
MnlI	CCTC	7 cut(s)	37, 70, 91, 98, 265, 429, 439
MseI	TTAA	2 cut(s)	249, 296
MslI	CAYNNNNRTG	1 cut(s)	235
NdeI	CATATG	2 cut(s)	268, 459
NdeII	GATC	3 cut(s)	61, 219, 263
NlaIV	GGNNCC	1 cut(s)	511
NmeAIII	GCCGAG	1 cut(s)	357
NmuCI	GTSAC	3 cut(s)	181, 191, 335
PceI	AGGCCT	1 cut(s)	87
PfeI	GAWTC	1 cut(s)	484
PleI	GAGTC	1 cut(s)	381
PpsI	GAGTC	1 cut(s)	381
PspN4I	GGNNCC	1 cut(s)	511
PspOMI	GGGCCC	1 cut(s)	509
PspPI	GGNCC	2 cut(s)	509, 510
PsuI	RGATCY	1 cut(s)	61
RsaI	GTAC	3 cut(s)	23, 105, 291
RsaNI	GTAC	3 cut(s)	22, 104, 290
RseI	CAYNNNNRTG	1 cut(s)	235
SaqAI	TTAA	2 cut(s)	249, 296
Sau3AI	GATC	3 cut(s)	61, 219, 263
Sau96I	GGNCC	2 cut(s)	509, 510
SchI	GAGTC	1 cut(s)	382
SduI	GDGCHC	1 cut(s)	513
SfaNI	GCATC	2 cut(s)	239, 439
SfcI	CTRYAG	1 cut(s)	93
SmiMI	CAYNNNNRTG	1 cut(s)	235
SmlI	CTYRAG	1 cut(s)	125
SmoI	CTYRAG	1 cut(s)	125
Sse9I	AATT	4 cut(s)	134, 245, 250, 550
SseBI	AGGCCT	1 cut(s)	87
SsiI	CCGC	1 cut(s)	564
StuI	AGGCCT	1 cut(s)	87
TaaI	ACNGT	4 cut(s)	14, 71, 217, 259
TaiI	ACGT	2 cut(s)	183, 317
TaqI	TCGA	1 cut(s)	212
TasI	AATT	4 cut(s)	134, 245, 250, 550
TatI	WGTACW	3 cut(s)	21, 103, 289
TfiI	GAWTC	1 cut(s)	484
Tru1I	TTAA	2 cut(s)	249, 296
Tru9I	TTAA	2 cut(s)	249, 296
TscAI	CASTG	1 cut(s)	19
TseFI	GTSAC	3 cut(s)	181, 191, 335
Tsp45I	GTSAC	3 cut(s)	181, 191, 335
TspDTI	ATGAA	2 cut(s)	17, 476
TspGWI	ACGGA	1 cut(s)	485
TspRI	CASTG	1 cut(s)	19

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