Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Forward (+)

13975411 .. 13983362

Gene Structure 7952 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00393780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1239 bp

ATGACATATTATATGTCCACCACCTACTCACACTCTCCTCTCTCATTCCACTCCTGCTCTCTCCCACACCGACACCGCTTCAACGTTCAATCAATGGCGGTCAAAAGGGTCCGCTCTGAGCTCCAAGTAAAAGTCAACGGCTCTCTCTCCGCTGCTGACTCCGACCAACTCTTCCTCGACCGCCAAAAAGCACTGGAGGCGGCCATGAATGATATCAATAGCTCATTCGGCAAGGGAAGTGTTACAAGACTAGGAAGCGCTGGTGGAGCTTTGGTTGAAACTTTCCCCAGTGGTTGCTTGACATTGGACCTTGCCTTAGGTGGCGGCCTCCCAAAAGGGAGAATTGTAGAGATATTTGGACCAGAAAGTAGTGGAAAGACAACTCTAGCACTCCATGCAATCGCAGAGGTGCAGAGGCTTGGAGGAAATGCTATGCTTGTTGATGCAGAACATGCCTTTGATCCAGCATATTCAAAAGCATTGGGAGTAGATGTAGAAAATCTGATTGTCTGCCAGCCTGATCATGGCGAAATGGCACTTGAGATTGCAGATCGTATGTGCAGATCTGGTGCCATTGATCTCATCTGTGTCGATTCTGTCTCGGCTCTCACTCCACGAGCAGAAATTGAAGGTGAGATCGGGATGCAACAAATGGGTTTGCAAGCACGCCTTATGAGCCAAGCTTTGCGCAAAATGTCAGGAAATGCATCTAAAGCTGGATGTACTCTCATATTCTTGAATCAAATAAGATATAAGATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTGGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATCTGTAAAAGAGAGACGAGAAATTGGGGTTCGGGTCCGTGTACGAGTGCAAAAGAGTAAGGTTTCGAGGCCATACAAACAAGCTGAATTTGAAATTGTGTTTGGAGAGGGAGTAAGTCAATTGGGTTGCATTTTGGATTGTGCTGAAATGATGGATGTAGTAGTGAAGAAGGGCTCTTGGTATAGCTATGGGGACCACAGGTTGGGACAAGGAAGAGATAAATCATTGCAGTACTTGAGAGAGAACCCTGTTCTTCTTGATGAGATAGAGAAGATAGTTCGCTCCACAATGACAGATGCAACTGGACAGGTAGGCTCATTGCACACAAGGAACTTGCCAGTAACACATCAGGATGAAGATGATTTTGAAGATGTCCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

RecA

Protein Analysis

412

Amino Acids

45.07

Weight (kDa)

7.13

Isoelectric Point (pI)

39.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	63 - 325	1.6e-114	RecA N-terminal domain
Rad51	PF08423	97 - 281	3.8e-07	Rad51
RecA_C	PF21096	328 - 383	6.1e-22	RecA C-terminal 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: OG0003001)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79050 AT1G79050
fragaria_vesca	FvH4_1g27813
malus_domestica	MD09G1277400.v1.1 MD17G1270800.v1.1
prunus_persica	Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1
pyrus_communis	pycom09g18680 pycom17g26930
rosa_chinensis	RchiOBHm_Chr1g0376401 RchiOBHm_Chr3g0485071 RchiOBHm_Chr3g0485081 RchiOBHm_Chr3g0488901 RchiOBHm_Chr3g0488941 RchiOBHm_Chr3g0488951 RchiOBHm_Chr6g0270261
rosa_laevigata	RLG00000001730 RLG00000022906
rosa_multiflora	Rmu_sc0001208.1_g000006
rosa_roxburghii	Rroxscaffold_5G00371550 Rroxscaffold_6G00393780
rosa_rugosa	Rorug03G0242300
rosa_samantha	Rh2CG293500 Rh3AG266100 Rh3AG290500 Rh3BG327500 Rh3CG324800 Rh3DG323400 Rh3DG323700 Rh3DG329000 Rh5AG166700
rosa_wichuraiana	Rw1G015550 Rw1G026850 Rw3G025730 Rw5G015170 Rw7G021290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	689
AccB1I	GGYRCC	1 cut(s)	569
AccB7I	CCANNNNNTGG	1 cut(s)	1060
AccBSI	CCGCTC	1 cut(s)	114
AciI	CCGC	7 cut(s)	76, 98, 112, 150, 181, 200, 324
AclI	AACGTT	1 cut(s)	84
AclWI	GGATC	1 cut(s)	455
AcoI	YGGCCR	1 cut(s)	201
AcsI	RAATTY	1 cut(s)	944
AfaI	GTAC	3 cut(s)	724, 900, 1091
AfeI	AGCGCT	1 cut(s)	259
AfiI	CCNNNNNNNGG	2 cut(s)	524, 1060
AgsI	TTSAA	8 cut(s)	82, 89, 278, 474, 629, 739, 950, 1226
AjnI	CCWGG	1 cut(s)	828
AjuI	GAANNNNNNNTTGG	2 cut(s)	942, 974
AluBI	AGCT	7 cut(s)	121, 222, 269, 683, 716, 941, 1044
AluI	AGCT	7 cut(s)	121, 222, 269, 683, 716, 941, 1044
Alw21I	GWGCWC	1 cut(s)	123
Alw26I	GTCTC	2 cut(s)	604, 865
AlwI	GGATC	1 cut(s)	455
Aor51HI	AGCGCT	1 cut(s)	259
AoxI	GGCC	3 cut(s)	201, 325, 926
ApeKI	GCWGC	1 cut(s)	152
ApoI	RAATTY	1 cut(s)	944
AspLEI	GCGC	2 cut(s)	260, 690
AspS9I	GGNCC	5 cut(s)	109, 307, 359, 892, 1051
AsuHPI	GGTGA	1 cut(s)	644
AvaII	GGWCC	5 cut(s)	109, 307, 359, 892, 1051
AxyI	CCTNAGG	1 cut(s)	316
BanI	GGYRCC	1 cut(s)	569
BanII	GRGCYC	2 cut(s)	123, 1034
BauI	CACGAG	1 cut(s)	615
Bbv12I	GWGCWC	1 cut(s)	123
BbvI	GCAGC	1 cut(s)	139
BccI	CCATC	1 cut(s)	1003
BceAI	ACGGC	1 cut(s)	154
BciT130I	CCWGG	1 cut(s)	830
BclI	TGATCA	1 cut(s)	520
BcoDI	GTCTC	2 cut(s)	604, 865
BfaI	CTAG	2 cut(s)	251, 386
BfmI	CTRYAG	1 cut(s)	843
BfoI	RGCGCY	1 cut(s)	261
BglII	AGATCT	1 cut(s)	563
BisI	GCNGC	3 cut(s)	153, 201, 325
BlsI	GCNGC	3 cut(s)	154, 202, 326
BmcAI	AGTACT	1 cut(s)	1091
Bme1390I	CCNGG	1 cut(s)	830
Bme18I	GGWCC	5 cut(s)	109, 307, 359, 892, 1051
BmgT120I	GGNCC	5 cut(s)	109, 307, 359, 892, 1051
BmiI	GGNNCC	4 cut(s)	110, 571, 893, 1052
BmrFI	CCNGG	1 cut(s)	830
BmrI	ACTGGG	1 cut(s)	282
BmsI	GCATC	4 cut(s)	433, 633, 716, 1144
BmuI	ACTGGG	1 cut(s)	282
BpmI	CTGGAG	2 cut(s)	215, 813
BpuEI	CTTGAG	2 cut(s)	560, 1114
BsaXI	ACNNNNNCTCC	6 cut(s)	258, 288, 477, 507, 954, 984
Bsc4I	CCNNNNNNNGG	2 cut(s)	524, 1060
Bse1I	ACTGG	4 cut(s)	198, 288, 1165, 1196
Bse21I	CCTNAGG	1 cut(s)	316
Bse3DI	GCAATG	2 cut(s)	1082, 1175
BseBI	CCWGG	1 cut(s)	830
BseGI	GGATG	4 cut(s)	648, 725, 1018, 1216
BseLI	CCNNNNNNNGG	2 cut(s)	524, 1060
BseMI	GCAATG	2 cut(s)	1082, 1175
BseMII	CTCAG	2 cut(s)	108, 834
BseNI	ACTGG	4 cut(s)	198, 288, 1165, 1196
BseRI	GAGGAG	1 cut(s)	27
BseXI	GCAGC	1 cut(s)	139
BsgI	GTGCAG	2 cut(s)	431, 580
Bsh1285I	CGRYCG	1 cut(s)	181
BshFI	GGCC	3 cut(s)	203, 327, 928
BshNI	GGYRCC	1 cut(s)	569
BsiEI	CGRYCG	1 cut(s)	181
BsiHKAI	GWGCWC	1 cut(s)	123
BslFI	GGGAC	2 cut(s)	1064, 1077
BslI	CCNNNNNNNGG	2 cut(s)	524, 1060
BsmAI	GTCTC	2 cut(s)	604, 865
BsmBI	CGTCTC	1 cut(s)	865
BsmFI	GGGAC	2 cut(s)	1064, 1077
BsnI	GGCC	3 cut(s)	203, 327, 928
Bsp1286I	GDGCHC	2 cut(s)	123, 1034
Bsp143I	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
BspACI	CCGC	7 cut(s)	76, 98, 112, 150, 181, 200, 324
BspANI	GGCC	3 cut(s)	203, 327, 928
BspCNI	CTCAG	2 cut(s)	109, 833
BspLI	GGNNCC	4 cut(s)	110, 571, 893, 1052
BspPI	GGATC	1 cut(s)	455
BspT107I	GGYRCC	1 cut(s)	569
BsrBI	CCGCTC	1 cut(s)	114
BsrDI	GCAATG	2 cut(s)	1082, 1175
BsrI	ACTGG	4 cut(s)	198, 288, 1165, 1196
BssMI	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
BssSI	CACGAG	1 cut(s)	615
Bst2BI	CACGAG	1 cut(s)	615
Bst2UI	CCWGG	1 cut(s)	830
Bst6I	CTCTTC	2 cut(s)	176, 1066
BstAPI	GCANNNNNTGC	2 cut(s)	395, 452
BstC8I	GCNNGC	3 cut(s)	515, 663, 667
BstDEI	CTNAG	3 cut(s)	117, 316, 820
BstF5I	GGATG	4 cut(s)	648, 725, 1018, 1216
BstH2I	RGCGCY	1 cut(s)	261
BstHHI	GCGC	2 cut(s)	260, 690
BstKTI	GATC	6 cut(s)	463, 523, 553, 566, 580, 639
BstMAI	GTCTC	2 cut(s)	604, 865
BstMBI	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
BstMCI	CGRYCG	1 cut(s)	181
BstMWI	GCNNNNNNNGC	7 cut(s)	197, 228, 266, 395, 452, 675, 713
BstNI	CCWGG	1 cut(s)	830
BstNSI	RCATGY	1 cut(s)	455
BstSCI	CCNGG	1 cut(s)	828
BstSFI	CTRYAG	1 cut(s)	843
BstV1I	GCAGC	1 cut(s)	139
BstX2I	RGATCY	1 cut(s)	563
BstYI	RGATCY	1 cut(s)	563
Bsu36I	CCTNAGG	1 cut(s)	316
BsuRI	GGCC	3 cut(s)	203, 327, 928
BtsCI	GGATG	4 cut(s)	648, 725, 1018, 1216
BtsIMutI	CAGTG	2 cut(s)	191, 295
Cac8I	GCNNGC	3 cut(s)	515, 663, 667
CfoI	GCGC	2 cut(s)	260, 690
Cfr13I	GGNCC	5 cut(s)	109, 307, 359, 892, 1051
Csp6I	GTAC	3 cut(s)	723, 899, 1090
CviAII	CATG	4 cut(s)	205, 395, 452, 524
CviQI	GTAC	3 cut(s)	723, 899, 1090
DdeI	CTNAG	3 cut(s)	117, 316, 820
DpnI	GATC	6 cut(s)	462, 522, 552, 565, 579, 638
DpnII	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
EaeI	YGGCCR	1 cut(s)	201
Eam1104I	CTCTTC	2 cut(s)	176, 1066
EarI	CTCTTC	2 cut(s)	176, 1066
Ecl136II	GAGCTC	1 cut(s)	121
Eco24I	GRGCYC	2 cut(s)	123, 1034
Eco32I	GATATC	1 cut(s)	214
Eco47I	GGWCC	5 cut(s)	109, 307, 359, 892, 1051
Eco47III	AGCGCT	1 cut(s)	259
Eco53kI	GAGCTC	1 cut(s)	121
Eco81I	CCTNAGG	1 cut(s)	316
EcoICRI	GAGCTC	1 cut(s)	121
EcoRII	CCWGG	1 cut(s)	828
EcoRV	GATATC	1 cut(s)	214
EcoT22I	ATGCAT	1 cut(s)	709
EcoT38I	GRGCYC	2 cut(s)	123, 1034
Esp3I	CGTCTC	1 cut(s)	865
FaeI	CATG	4 cut(s)	208, 398, 455, 527
FalI	AAGNNNNNCTT	2 cut(s)	654, 686
FaqI	GGGAC	2 cut(s)	1064, 1077
FatI	CATG	4 cut(s)	204, 394, 451, 523
FbaI	TGATCA	1 cut(s)	520
Fnu4HI	GCNGC	3 cut(s)	153, 201, 325
FokI	GGATG	4 cut(s)	655, 732, 1025, 1223
FriOI	GRGCYC	2 cut(s)	123, 1034
Fsp4HI	GCNGC	3 cut(s)	153, 201, 325
FspBI	CTAG	2 cut(s)	251, 386
FspI	TGCGCA	1 cut(s)	689
GlaI	GCGC	2 cut(s)	259, 689
GluI	GCNGC	3 cut(s)	153, 201, 325
GsuI	CTGGAG	2 cut(s)	215, 813
HaeII	RGCGCY	1 cut(s)	261
HaeIII	GGCC	3 cut(s)	203, 327, 928
HhaI	GCGC	2 cut(s)	260, 690
Hin1II	CATG	4 cut(s)	208, 398, 455, 527
Hin6I	GCGC	2 cut(s)	258, 688
HinP1I	GCGC	2 cut(s)	258, 688
HincII	GTYRAC	1 cut(s)	136
HindII	GTYRAC	1 cut(s)	136
HindIII	AAGCTT	1 cut(s)	681
HinfI	GANTC	4 cut(s)	158, 593, 739, 775
HphI	GGTGA	1 cut(s)	644
Hpy166II	GTNNAC	3 cut(s)	18, 136, 899
Hpy188I	TCNGA	3 cut(s)	118, 163, 504
Hpy188III	TCNNGA	7 cut(s)	640, 699, 736, 779, 792, 1115, 1208
Hpy8I	GTNNAC	3 cut(s)	18, 136, 899
HpyAV	CCTTC	2 cut(s)	623, 1021
HpyCH4IV	ACGT	2 cut(s)	84, 838
HpyF10VI	GCNNNNNNNGC	7 cut(s)	197, 228, 266, 395, 452, 675, 713
HpyF3I	CTNAG	3 cut(s)	117, 316, 820
HpySE526I	ACGT	2 cut(s)	84, 838
Hsp92II	CATG	4 cut(s)	208, 398, 455, 527
HspAI	GCGC	2 cut(s)	258, 688
Ksp22I	TGATCA	1 cut(s)	520
Kzo9I	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
LmnI	GCTCC	3 cut(s)	126, 266, 1145
Lsp1109I	GCAGC	1 cut(s)	139
LweI	GCATC	4 cut(s)	433, 633, 716, 1144
MaeI	CTAG	2 cut(s)	251, 386
MaeII	ACGT	2 cut(s)	84, 838
MaeIII	GTNAC	3 cut(s)	241, 784, 1198
MalI	GATC	6 cut(s)	462, 522, 552, 565, 579, 638
MbiI	CCGCTC	1 cut(s)	114
MboI	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
MboII	GAAGA	7 cut(s)	163, 1036, 1083, 1103, 1141, 1226, 1238
MfeI	CAATTG	1 cut(s)	977
MflI	RGATCY	1 cut(s)	563
MhlI	GDGCHC	2 cut(s)	123, 1034
MluCI	AATT	7 cut(s)	342, 624, 798, 879, 944, 951, 977
MlyI	GAGTC	1 cut(s)	152
MmeI	TCCRAC	1 cut(s)	186
Mph1103I	ATGCAT	1 cut(s)	709
MseI	TTAA	1 cut(s)	806
MslI	CAYNNNNRTG	1 cut(s)	1209
MspA1I	CMGCKG	1 cut(s)	152
MspR9I	CCNGG	1 cut(s)	830
MunI	CAATTG	1 cut(s)	977
MvaI	CCWGG	1 cut(s)	830
MwoI	GCNNNNNNNGC	7 cut(s)	197, 228, 266, 395, 452, 675, 713
NdeII	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
NlaIII	CATG	4 cut(s)	208, 398, 455, 527
NlaIV	GGNNCC	4 cut(s)	110, 571, 893, 1052
NmeAIII	GCCGAG	1 cut(s)	581
NmuCI	GTSAC	1 cut(s)	784
NsbI	TGCGCA	1 cut(s)	689
NsiI	ATGCAT	1 cut(s)	709
NspI	RCATGY	1 cut(s)	455
PfeI	GAWTC	3 cut(s)	593, 739, 775
PflMI	CCANNNNNTGG	1 cut(s)	1060
PkrI	GCNGC	3 cut(s)	154, 202, 326
PleI	GAGTC	1 cut(s)	152
PpsI	GAGTC	1 cut(s)	152
Psp124BI	GAGCTC	1 cut(s)	123
Psp1406I	AACGTT	1 cut(s)	84
Psp6I	CCWGG	1 cut(s)	828
PspGI	CCWGG	1 cut(s)	828
PspN4I	GGNNCC	4 cut(s)	110, 571, 893, 1052
PspPI	GGNCC	5 cut(s)	109, 307, 359, 892, 1051
PsuI	RGATCY	1 cut(s)	563
RsaI	GTAC	3 cut(s)	724, 900, 1091
RsaNI	GTAC	3 cut(s)	723, 899, 1090
RseI	CAYNNNNRTG	1 cut(s)	1209
SacI	GAGCTC	1 cut(s)	123
SaqAI	TTAA	1 cut(s)	806
SatI	GCNGC	3 cut(s)	153, 201, 325
Sau3AI	GATC	6 cut(s)	460, 520, 550, 563, 577, 636
Sau96I	GGNCC	5 cut(s)	109, 307, 359, 892, 1051
ScaI	AGTACT	1 cut(s)	1091
SchI	GAGTC	1 cut(s)	152
ScrFI	CCNGG	1 cut(s)	830
SduI	GDGCHC	2 cut(s)	123, 1034
SfaNI	GCATC	4 cut(s)	433, 633, 716, 1144
SfcI	CTRYAG	1 cut(s)	843
SinI	GGWCC	5 cut(s)	109, 307, 359, 892, 1051
SmiMI	CAYNNNNRTG	1 cut(s)	1209
SmlI	CTYRAG	2 cut(s)	539, 1093
SmoI	CTYRAG	2 cut(s)	539, 1093
Sse9I	AATT	7 cut(s)	342, 624, 798, 879, 944, 951, 977
SsiI	CCGC	7 cut(s)	76, 98, 112, 150, 181, 200, 324
SspMI	CTAG	2 cut(s)	251, 386
SstI	GAGCTC	1 cut(s)	123
StyD4I	CCNGG	1 cut(s)	828
TaiI	ACGT	2 cut(s)	87, 841
TaqI	TCGA	3 cut(s)	177, 591, 923
TasI	AATT	7 cut(s)	342, 624, 798, 879, 944, 951, 977
TatI	WGTACW	2 cut(s)	722, 1089
TauI	GCSGC	2 cut(s)	203, 327
TfiI	GAWTC	3 cut(s)	593, 739, 775
Tru1I	TTAA	1 cut(s)	806
Tru9I	TTAA	1 cut(s)	806
TscAI	CASTG	2 cut(s)	198, 295
TseFI	GTSAC	1 cut(s)	784
TseI	GCWGC	1 cut(s)	152
Tsp45I	GTSAC	1 cut(s)	784
TspDTI	ATGAA	2 cut(s)	221, 1227
TspGWI	ACGGA	1 cut(s)	884
TspRI	CASTG	2 cut(s)	198, 295
Van91I	CCANNNNNTGG	1 cut(s)	1060
VpaK11BI	GGWCC	5 cut(s)	109, 307, 359, 892, 1051
XapI	RAATTY	1 cut(s)	944
XceI	RCATGY	1 cut(s)	455
XcmI	CCANNNNNNNNNTGG	1 cut(s)	521
XspI	CTAG	2 cut(s)	251, 386
ZrmI	AGTACT	1 cut(s)	1091
Zsp2I	ATGCAT	1 cut(s)	709

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