Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0009243

Physical Location & Seq

Genomic Coordinates Forward (+)

2099042 .. 2102662

Gene Structure 3621 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010493

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGGAGGAATACAATAATAGTAATGAAATGGATCATGAGAATCAAGGCACTCCTAGAGGAAATTTTCTTTACGCTTCTCCAAATCTTGGAGGCAACTATGGTAGAGCTGCTGCTGCTGCAGGTGATCATAATCAGCAGATCAACACCTTTCATCTTCAATCAAGCGGTGGTGAGTGTTTTCCGTCAACACAACCAACCGTGAAGACCGAAGCAGCCGGTAGTACTTCCCAGCATGCTCATCACCACCACCACAAATTTCATCATCCTCAGTTTCCTCCTCCTTCATTAATATTGTCAAGAGGACACAATGATCAGATACCGGTTCAGCAGCAGCAGCAGCACATAGAAAACGAGAATGAAGTAGAGGCCATCAAAGCTAAGATCATCGCTCACCCTCACTACTCTAACCTTTTGCAAGCTTACATGGATTGCCAAAGGGTGGGAGCTCCTTCTGAAGTTGTGGCTCGTCTCTCAGCTGCGCGCCAAGAGTTTGAAGCACGACAGCGATCTTCAGTCAGTTCGAGAGATGCTTCTTCAAAAGACCCCGAACTCGATCAGTTCATGGAAGCTTACTATGATATGCTGGTTAAGTATCGGGAGGAACTAACAAGGCCCATACAGGAAGCAATGGATTTCATGAGGAAGATTGAAACTCAGCTTAACATGCTTGGCAATAATAGCAACACTACTCCTCTGCGCATCTTCTCGGCCTCTGCACTAGAGGACAAGTGTGACGGAAATGGTTCATCTGAAGAGGACCAAGACAACAACAGCGGTGGAGAAACAGAAGTAGCCGAGATTGATCCGAGAGCTGAAGACAGAGAGCTTAAGAACCACCTGTTAAGAAAGTATAGTGGTTACTTGAGTAGCCTCAAGCAAGAGCTTTCCAAGAAAAAGAAGAAAGGAAAATTGCCCAAAGACGCCCGGCAGAAGCTTCTCAGTTGGTGGGAGTTGCATTACAAGTGGCCATATCCTTCGGAATCGGAGAAGGTGGCACTGGCAGAGTCAACAGGTTTGGATCAGAAGCAGATAAACAACTGGTTCATAAATCAAAGGAAGAGGCACTGGAAACCATCGGAGGACATGCAGTTCATGGTGATGGATGGGTTGCATCCACAGAATGCAGCAGCCCTCTATATGGATGGCCACTACATTGGTGATGGTCATTACCGTCTCGGTCCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001708 GO:0003002 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009888 GO:0009889 GO:0009987 GO:0010051 GO:0010087 GO:0010089 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045165 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

395

Amino Acids

44.87

Weight (kDa)

6.09

Isoelectric Point (pI)

51.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	123 - 165	6.8e-23	KNOX1 domain
KNOX2	PF03791	179 - 223	1.7e-24	KNOX2 domain
ELK	PF03789	275 - 296	4e-10	ELK domain
Homeobox_KN	PF05920	315 - 354	6.3e-19	Homeobox KN domain
Homeodomain	PF00046	322 - 355	1.3e-06	Homeodomain

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: OG0009243)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G08150
fragaria_vesca	FvH4_2g32400 FvH4_2g32400
malus_domestica	MD08G1075200.v1.1 MD15G1062700.v1.1
prunus_persica	Prupe.1G416700_v2.0.a1 Prupe.1G416700_v2.0.a1
pyrus_communis	pycom08g06220 pycom15g05940
rosa_chinensis	RchiOBHm_Chr6g0310301
rosa_laevigata	RLG00000010493
rosa_multiflora	Rmu_sc0002348.1_g000017
rosa_roxburghii	Rroxscaffold_7G00158680
rosa_rugosa	Rorug06G0378500 Rorug06G0378500 Rorug06G0378600 Rorug06G0378700
rosa_samantha	Rh6AG493000 Rh6BG502600 Rh6CG507600 Rh6DG493700
rosa_wichuraiana	Rw6G042900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	110
Acc16I	TGCGCA	1 cut(s)	698
Acc36I	ACCTGC	1 cut(s)	110
AccB7I	CCANNNNNTGG	2 cut(s)	86, 439
AccII	CGCG	1 cut(s)	481
AciI	CCGC	2 cut(s)	165, 774
AclWI	GGATC	3 cut(s)	39, 797, 1026
AcoI	YGGCCR	2 cut(s)	965, 1144
AcsI	RAATTY	2 cut(s)	61, 254
AcuI	CTGAAG	4 cut(s)	474, 495, 771, 834
AcyI	GRCGYC	1 cut(s)	921
AfaI	GTAC	1 cut(s)	223
AfiI	CCNNNNNNNGG	3 cut(s)	86, 439, 1138
AflII	CTTAAG	1 cut(s)	827
AgeI	ACCGGT	1 cut(s)	319
AgsI	TTSAA	4 cut(s)	158, 494, 537, 650
AloI	GAACNNNNNNTCC	2 cut(s)	1073, 1105
Alw21I	GWGCWC	1 cut(s)	448
Alw26I	GTCTC	2 cut(s)	473, 1178
AlwI	GGATC	3 cut(s)	39, 797, 1026
AoxI	GGCC	5 cut(s)	366, 611, 708, 965, 1144
ApoI	RAATTY	2 cut(s)	61, 254
AseI	ATTAAT	1 cut(s)	287
AsiGI	ACCGGT	1 cut(s)	319
Asp700I	GAANNNNTTC	1 cut(s)	742
AspLEI	GCGC	3 cut(s)	481, 483, 699
AspS9I	GGNCC	3 cut(s)	612, 757, 1178
AsuC2I	CCSGG	1 cut(s)	925
AsuHPI	GGTGA	6 cut(s)	134, 182, 233, 383, 1108, 1169
AvaII	GGWCC	2 cut(s)	757, 1178
BalI	TGGCCA	2 cut(s)	967, 1146
BanII	GRGCYC	1 cut(s)	448
BbsI	GAAGAC	2 cut(s)	209, 822
Bbv12I	GWGCWC	1 cut(s)	448
BccI	CCATC	6 cut(s)	377, 1081, 1093, 1097, 1136, 1154
BclI	TGATCA	2 cut(s)	124, 310
BcnI	CCSGG	1 cut(s)	925
BcoDI	GTCTC	2 cut(s)	473, 1178
BfaI	CTAG	2 cut(s)	54, 719
BfmI	CTRYAG	1 cut(s)	117
BfrI	CTTAAG	1 cut(s)	827
BfuAI	ACCTGC	1 cut(s)	110
BmcAI	AGTACT	1 cut(s)	223
Bme1390I	CCNGG	1 cut(s)	925
Bme18I	GGWCC	2 cut(s)	757, 1178
BmgT120I	GGNCC	3 cut(s)	612, 757, 1178
BmiI	GGNNCC	1 cut(s)	1180
BmrFI	CCNGG	1 cut(s)	925
BmsI	GCATC	3 cut(s)	517, 708, 1120
BpiI	GAAGAC	2 cut(s)	209, 822
BpuEI	CTTGAG	2 cut(s)	857, 883
BpuMI	CCSGG	1 cut(s)	925
BsaBI	GATNNNNATC	1 cut(s)	129
BsaHI	GRCGYC	1 cut(s)	921
BsaWI	WCCGGW	1 cut(s)	319
Bsc4I	CCNNNNNNNGG	3 cut(s)	86, 439, 1138
Bse118I	RCCGGY	2 cut(s)	215, 319
Bse1I	ACTGG	3 cut(s)	1002, 1043, 1070
Bse3DI	GCAATG	1 cut(s)	633
Bse8I	GATNNNNATC	1 cut(s)	129
BseGI	GGATG	4 cut(s)	262, 1108, 1111, 1147
BseJI	GATNNNNATC	1 cut(s)	129
BseLI	CCNNNNNNNGG	3 cut(s)	86, 439, 1138
BseMI	GCAATG	1 cut(s)	633
BseMII	CTCAG	4 cut(s)	281, 486, 668, 952
BseNI	ACTGG	3 cut(s)	1002, 1043, 1070
BsePI	GCGCGC	1 cut(s)	479
BseRI	GAGGAG	2 cut(s)	267, 681
BseYI	CCCAGC	1 cut(s)	228
BsgI	GTGCAG	1 cut(s)	699
Bsh1236I	CGCG	1 cut(s)	481
BshFI	GGCC	5 cut(s)	368, 613, 710, 967, 1146
BshTI	ACCGGT	1 cut(s)	319
BsiHKAI	GWGCWC	1 cut(s)	448
BsiSI	CCGG	3 cut(s)	216, 320, 925
BslFI	GGGAC	1 cut(s)	1164
BslI	CCNNNNNNNGG	3 cut(s)	86, 439, 1138
BsmAI	GTCTC	2 cut(s)	473, 1178
BsmBI	CGTCTC	2 cut(s)	473, 1178
BsmFI	GGGAC	1 cut(s)	1164
BsmI	GAATGC	1 cut(s)	1126
BsnI	GGCC	5 cut(s)	368, 613, 710, 967, 1146
Bsp1286I	GDGCHC	1 cut(s)	448
Bsp143I	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
BspACI	CCGC	2 cut(s)	165, 774
BspANI	GGCC	5 cut(s)	368, 613, 710, 967, 1146
BspCNI	CTCAG	4 cut(s)	280, 485, 667, 951
BspFNI	CGCG	1 cut(s)	481
BspHI	TCATGA	2 cut(s)	34, 636
BspLI	GGNNCC	1 cut(s)	1180
BspMAI	CTGCAG	1 cut(s)	121
BspMI	ACCTGC	1 cut(s)	110
BspPI	GGATC	3 cut(s)	39, 797, 1026
BspTI	CTTAAG	1 cut(s)	827
BsrDI	GCAATG	1 cut(s)	633
BsrFI	RCCGGY	2 cut(s)	215, 319
BsrI	ACTGG	3 cut(s)	1002, 1043, 1070
BssAI	RCCGGY	2 cut(s)	215, 319
BssHII	GCGCGC	1 cut(s)	479
BssMI	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
BssNI	GRCGYC	1 cut(s)	921
Bst4CI	ACNGT	2 cut(s)	199, 1172
Bst6I	CTCTTC	2 cut(s)	747, 1052
BstACI	GRCGYC	1 cut(s)	921
BstAFI	CTTAAG	1 cut(s)	827
BstC8I	GCNNGC	3 cut(s)	234, 417, 481
BstDEI	CTNAG	5 cut(s)	267, 378, 472, 654, 938
BstF5I	GGATG	4 cut(s)	262, 1108, 1111, 1147
BstFNI	CGCG	1 cut(s)	481
BstHHI	GCGC	3 cut(s)	481, 483, 699
BstKTI	GATC	9 cut(s)	34, 127, 141, 313, 384, 509, 556, 805, 1021
BstMAI	GTCTC	2 cut(s)	473, 1178
BstMBI	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
BstMWI	GCNNNNNNNGC	7 cut(s)	113, 116, 334, 337, 374, 664, 678
BstNSI	RCATGY	3 cut(s)	236, 667, 1087
BstSCI	CCNGG	1 cut(s)	923
BstSFI	CTRYAG	1 cut(s)	117
BstUI	CGCG	1 cut(s)	481
BstV2I	GAAGAC	2 cut(s)	209, 822
BstXI	CCANNNNNNTGG	1 cut(s)	1154
BsuRI	GGCC	5 cut(s)	368, 613, 710, 967, 1146
BtgZI	GCGATG	1 cut(s)	370
BtsCI	GGATG	4 cut(s)	262, 1108, 1111, 1147
BtsIMutI	CAGTG	2 cut(s)	995, 1063
BveI	ACCTGC	1 cut(s)	110
Cac8I	GCNNGC	3 cut(s)	234, 417, 481
CciI	TCATGA	2 cut(s)	34, 636
CfoI	GCGC	3 cut(s)	481, 483, 699
Cfr10I	RCCGGY	2 cut(s)	215, 319
Cfr13I	GGNCC	3 cut(s)	612, 757, 1178
CseI	GACGC	1 cut(s)	929
Csp6I	GTAC	1 cut(s)	222
CspAI	ACCGGT	1 cut(s)	319
CspCI	CAANNNNNGTGG	2 cut(s)	757, 792
CviAII	CATG	8 cut(s)	35, 233, 424, 562, 637, 664, 1084, 1093
CviQI	GTAC	1 cut(s)	222
DdeI	CTNAG	5 cut(s)	267, 378, 472, 654, 938
DpnI	GATC	9 cut(s)	33, 126, 140, 312, 383, 508, 555, 804, 1020
DpnII	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
EaeI	YGGCCR	2 cut(s)	965, 1144
Eam1104I	CTCTTC	2 cut(s)	747, 1052
EarI	CTCTTC	2 cut(s)	747, 1052
Ecl136II	GAGCTC	1 cut(s)	446
Eco24I	GRGCYC	1 cut(s)	448
Eco47I	GGWCC	2 cut(s)	757, 1178
Eco53kI	GAGCTC	1 cut(s)	446
Eco57I	CTGAAG	4 cut(s)	474, 495, 771, 834
EcoICRI	GAGCTC	1 cut(s)	446
EcoT38I	GRGCYC	1 cut(s)	448
Esp3I	CGTCTC	2 cut(s)	473, 1178
FaeI	CATG	8 cut(s)	38, 236, 427, 565, 640, 667, 1087, 1096
FaqI	GGGAC	1 cut(s)	1164
FatI	CATG	8 cut(s)	34, 232, 423, 561, 636, 663, 1083, 1092
FbaI	TGATCA	2 cut(s)	124, 310
FokI	GGATG	4 cut(s)	249, 1098, 1115, 1154
FriOI	GRGCYC	1 cut(s)	448
FspBI	CTAG	2 cut(s)	54, 719
FspI	TGCGCA	1 cut(s)	698
GlaI	GCGC	3 cut(s)	480, 482, 698
GsaI	CCCAGC	1 cut(s)	232
HaeIII	GGCC	5 cut(s)	368, 613, 710, 967, 1146
HapII	CCGG	3 cut(s)	216, 320, 925
HgaI	GACGC	1 cut(s)	929
HhaI	GCGC	3 cut(s)	481, 483, 699
Hin1I	GRCGYC	1 cut(s)	921
Hin1II	CATG	8 cut(s)	38, 236, 427, 565, 640, 667, 1087, 1096
Hin6I	GCGC	3 cut(s)	479, 481, 697
HinP1I	GCGC	3 cut(s)	479, 481, 697
HincII	GTYRAC	2 cut(s)	186, 1008
HindII	GTYRAC	2 cut(s)	186, 1008
HindIII	AAGCTT	3 cut(s)	417, 567, 932
HinfI	GANTC	3 cut(s)	40, 980, 1004
HpaII	CCGG	3 cut(s)	216, 320, 925
HphI	GGTGA	6 cut(s)	134, 182, 233, 383, 1108, 1169
Hpy166II	GTNNAC	2 cut(s)	186, 1008
Hpy188I	TCNGA	8 cut(s)	315, 454, 751, 807, 979, 985, 1023, 1078
Hpy188III	TCNNGA	5 cut(s)	35, 297, 522, 596, 637
Hpy8I	GTNNAC	2 cut(s)	186, 1008
HpyAV	CCTTC	4 cut(s)	291, 459, 982, 984
HpyCH4III	ACNGT	2 cut(s)	199, 1172
HpyCH4V	TGCA	7 cut(s)	119, 415, 716, 955, 1087, 1111, 1124
HpyF10VI	GCNNNNNNNGC	7 cut(s)	113, 116, 334, 337, 374, 664, 678
HpyF3I	CTNAG	5 cut(s)	267, 378, 472, 654, 938
Hsp92I	GRCGYC	1 cut(s)	921
Hsp92II	CATG	8 cut(s)	38, 236, 427, 565, 640, 667, 1087, 1096
HspAI	GCGC	3 cut(s)	479, 481, 697
Ksp22I	TGATCA	2 cut(s)	124, 310
Kzo9I	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
LmnI	GCTCC	2 cut(s)	443, 451
LweI	GCATC	3 cut(s)	517, 708, 1120
MaeI	CTAG	2 cut(s)	54, 719
MaeIII	GTNAC	2 cut(s)	731, 857
MalI	GATC	9 cut(s)	33, 126, 140, 312, 383, 508, 555, 804, 1020
MboI	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
MhlI	GDGCHC	1 cut(s)	448
MlsI	TGGCCA	2 cut(s)	967, 1146
MluCI	AATT	3 cut(s)	61, 254, 908
MluNI	TGGCCA	2 cut(s)	967, 1146
MlyI	GAGTC	1 cut(s)	1013
Mox20I	TGGCCA	2 cut(s)	967, 1146
MroXI	GAANNNNTTC	1 cut(s)	742
MscI	TGGCCA	2 cut(s)	967, 1146
MseI	TTAA	5 cut(s)	287, 588, 660, 828, 842
MslI	CAYNNNNRTG	1 cut(s)	1097
Msp20I	TGGCCA	2 cut(s)	967, 1146
MspA1I	CMGCKG	2 cut(s)	476, 774
MspCI	CTTAAG	1 cut(s)	827
MspI	CCGG	3 cut(s)	216, 320, 925
MspR9I	CCNGG	1 cut(s)	925
Mva1269I	GAATGC	1 cut(s)	1126
MvnI	CGCG	1 cut(s)	481
MwoI	GCNNNNNNNGC	7 cut(s)	113, 116, 334, 337, 374, 664, 678
NciI	CCSGG	1 cut(s)	925
NdeII	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
NlaIII	CATG	8 cut(s)	38, 236, 427, 565, 640, 667, 1087, 1096
NlaIV	GGNNCC	1 cut(s)	1180
NmeAIII	GCCGAG	2 cut(s)	686, 820
NmuCI	GTSAC	1 cut(s)	731
NsbI	TGCGCA	1 cut(s)	698
NspI	RCATGY	3 cut(s)	236, 667, 1087
PaeI	GCATGC	1 cut(s)	236
PagI	TCATGA	2 cut(s)	34, 636
PaqCI	CACCTGC	1 cut(s)	110
PauI	GCGCGC	1 cut(s)	479
PctI	GAATGC	1 cut(s)	1126
PdmI	GAANNNNTTC	1 cut(s)	742
PfeI	GAWTC	2 cut(s)	40, 980
PflMI	CCANNNNNTGG	2 cut(s)	86, 439
PinAI	ACCGGT	1 cut(s)	319
PleI	GAGTC	1 cut(s)	1012
PpsI	GAGTC	1 cut(s)	1012
PshBI	ATTAAT	1 cut(s)	287
Psp124BI	GAGCTC	1 cut(s)	448
PspFI	CCCAGC	1 cut(s)	228
PspN4I	GGNNCC	1 cut(s)	1180
PspPI	GGNCC	3 cut(s)	612, 757, 1178
PstI	CTGCAG	1 cut(s)	121
PteI	GCGCGC	1 cut(s)	479
PvuII	CAGCTG	1 cut(s)	476
RsaI	GTAC	1 cut(s)	223
RsaNI	GTAC	1 cut(s)	222
RseI	CAYNNNNRTG	1 cut(s)	1097
SacI	GAGCTC	1 cut(s)	448
SaqAI	TTAA	5 cut(s)	287, 588, 660, 828, 842
Sau3AI	GATC	9 cut(s)	31, 124, 138, 310, 381, 506, 553, 802, 1018
Sau96I	GGNCC	3 cut(s)	612, 757, 1178
ScaI	AGTACT	1 cut(s)	223
SchI	GAGTC	1 cut(s)	1013
ScrFI	CCNGG	1 cut(s)	925
SduI	GDGCHC	1 cut(s)	448
SfaNI	GCATC	3 cut(s)	517, 708, 1120
SfcI	CTRYAG	1 cut(s)	117
SinI	GGWCC	2 cut(s)	757, 1178
SmiMI	CAYNNNNRTG	1 cut(s)	1097
SmlI	CTYRAG	3 cut(s)	827, 862, 872
SmoI	CTYRAG	3 cut(s)	827, 862, 872
SphI	GCATGC	1 cut(s)	236
Sse9I	AATT	3 cut(s)	61, 254, 908
SsiI	CCGC	2 cut(s)	165, 774
SspI	AATATT	1 cut(s)	291
SspMI	CTAG	2 cut(s)	54, 719
SstI	GAGCTC	1 cut(s)	448
StyD4I	CCNGG	1 cut(s)	923
TaaI	ACNGT	2 cut(s)	199, 1172
TaqI	TCGA	2 cut(s)	521, 552
TaqII	GACCGA	2 cut(s)	221, 1166
TasI	AATT	3 cut(s)	61, 254, 908
TatI	WGTACW	1 cut(s)	221
TfiI	GAWTC	2 cut(s)	40, 980
Tru1I	TTAA	5 cut(s)	287, 588, 660, 828, 842
Tru9I	TTAA	5 cut(s)	287, 588, 660, 828, 842
TscAI	CASTG	2 cut(s)	1002, 1070
TseFI	GTSAC	1 cut(s)	731
Tsp45I	GTSAC	1 cut(s)	731
TspGWI	ACGGA	2 cut(s)	171, 750
TspRI	CASTG	2 cut(s)	1002, 1070
Van91I	CCANNNNNTGG	2 cut(s)	86, 439
Vha464I	CTTAAG	1 cut(s)	827
VpaK11BI	GGWCC	2 cut(s)	757, 1178
VspI	ATTAAT	1 cut(s)	287
XapI	RAATTY	2 cut(s)	61, 254
XceI	RCATGY	3 cut(s)	236, 667, 1087
XmnI	GAANNNNTTC	1 cut(s)	742
XspI	CTAG	2 cut(s)	54, 719
ZrmI	AGTACT	1 cut(s)	223

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