Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0009243

Physical Location & Seq

Genomic Coordinates Reverse (-)

66858385 .. 66862789

Gene Structure 4405 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG507600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1179 bp

ATGGAGGAATACAATAATAGTAATGAAATGGATCATGAGAATCAAGGCACTCCTAGAGGAAATTTCCTCTACGCTTCTTCAAATCTTGGAGGCAACTATGGTAGAGCTGCTGCTGCTGCAGGTGATCATAATCAGCAGATCAACACCTTTCATCTTCAATCAAGCGGTGGCGAGTGTTTTCCGTCAACACAACCAACCGTGAAGACCGAAGCAGCCGGTAGTACTTCCCAGCATGCTCATCACCACCACCACAAATTTCATCATCCTCAGTTTTCTCCTCCTTCATTAATATTGTCAAGAGGGCACAATGATCAGATACCGGTTCAGCAGCAGCAGCACATAGAAAACGAGAATGAAGTAGAGGCCATCAAAGCTAAGATCATTGCTCACCCTCACTACTCTAACCTCTTGCAAGCTTACATGGATTGCCAAAGGGTGGGAGCTCCTTCTGAAGTTGTGGCTCGTCTCTCAGCTGCGCGCCAAGAGTTTGAAGCACGACAGCGATCTTCAGTCAGTTCGAGAGATGCTTCTTCAAAAGACCCCGAACTCGATCAGTTCATGGAAGCTTACTATGATATGCTGGTTAAGTATCGGGAGGAACTGACAAGGCCCATACAAGAAGCAATGGATTTCATGAGGAAGATTGAAACTCAGCTTAACATGCTTGGCAATAATAGCAACACTACTCCTCTGCGCATCTTCTCGGCCTCTGCACTAGAGGACTGTGACGGAAATGGTTCATCTGAAGAGGACCAAGACAACAACAGCGGTGGAGAAACAGAAGTAGCCGAGATTGATCCGAGAGCTGAAGACAGAGAGCTTAAGAACCACCTGTTAAGAAAGTACAGTGGTTACTTGAGTAGCCTCAAGCAAGAGCTTTCCAAGAAAAAGAAGAAAGGAAAATTACCCAAAGACGCCCGGCAGAAGCTTCTCAGTTGGTGGGAGTTGCATTACAAGTGGCCATATCCTTCGGAATCAGAGAAGGTGGCATTGGCAGAGTCAACAGGTTTGGATCAGAAGCAGATAAACAACTGGTTCATAAATCAAAGGAAGAGGCACTGGAAACCATCGGAGGACATGCAGTTCATGGTGATGGATGGGTTGCATCCACAGAATGCAGCAGCCCTCTATATGGATGGCCACTACATTGGTGATGGTCACTACCGTCTCGGTCCCTAA

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

392

Amino Acids

44.59

Weight (kDa)

6.02

Isoelectric Point (pI)

51.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	122 - 164	6.8e-23	KNOX1 domain
KNOX2	PF03791	178 - 222	1.7e-24	KNOX2 domain
ELK	PF03789	273 - 294	4e-10	ELK domain
Homeobox_KN	PF05920	313 - 352	6.2e-19	Homeobox KN domain
Homeodomain	PF00046	320 - 353	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)	695
Acc36I	ACCTGC	1 cut(s)	110
AccB7I	CCANNNNNTGG	1 cut(s)	436
AccII	CGCG	1 cut(s)	478
AciI	CCGC	2 cut(s)	165, 768
AclWI	GGATC	3 cut(s)	39, 791, 1020
AcoI	YGGCCR	2 cut(s)	959, 1138
AcsI	RAATTY	2 cut(s)	61, 254
AcuI	CTGAAG	4 cut(s)	471, 492, 765, 828
AcyI	GRCGYC	1 cut(s)	915
AfaI	GTAC	2 cut(s)	223, 845
AfiI	CCNNNNNNNGG	2 cut(s)	436, 1132
AflII	CTTAAG	1 cut(s)	821
AgeI	ACCGGT	1 cut(s)	319
AgsI	TTSAA	5 cut(s)	81, 158, 491, 534, 647
AjuI	GAANNNNNNNTTGG	2 cut(s)	974, 1006
AloI	GAACNNNNNNTCC	2 cut(s)	1067, 1099
Alw21I	GWGCWC	1 cut(s)	445
Alw26I	GTCTC	2 cut(s)	470, 1172
AlwI	GGATC	3 cut(s)	39, 791, 1020
AoxI	GGCC	5 cut(s)	363, 608, 705, 959, 1138
ApoI	RAATTY	2 cut(s)	61, 254
AseI	ATTAAT	1 cut(s)	287
AsiGI	ACCGGT	1 cut(s)	319
Asp700I	GAANNNNTTC	1 cut(s)	736
AspLEI	GCGC	3 cut(s)	478, 480, 696
AspS9I	GGNCC	3 cut(s)	609, 751, 1172
AsuC2I	CCSGG	1 cut(s)	919
AsuHPI	GGTGA	5 cut(s)	134, 233, 380, 1102, 1163
AvaII	GGWCC	2 cut(s)	751, 1172
BaeGI	GKGCMC	1 cut(s)	306
BalI	TGGCCA	2 cut(s)	961, 1140
BanII	GRGCYC	1 cut(s)	445
BbsI	GAAGAC	2 cut(s)	209, 816
Bbv12I	GWGCWC	1 cut(s)	445
BccI	CCATC	6 cut(s)	374, 1075, 1087, 1091, 1130, 1148
BclI	TGATCA	2 cut(s)	124, 310
BcnI	CCSGG	1 cut(s)	919
BcoDI	GTCTC	2 cut(s)	470, 1172
BfaI	CTAG	2 cut(s)	54, 716
BfmI	CTRYAG	1 cut(s)	117
BfrI	CTTAAG	1 cut(s)	821
BfuAI	ACCTGC	1 cut(s)	110
BmcAI	AGTACT	1 cut(s)	223
Bme1390I	CCNGG	1 cut(s)	919
Bme18I	GGWCC	2 cut(s)	751, 1172
BmgT120I	GGNCC	3 cut(s)	609, 751, 1172
BmiI	GGNNCC	1 cut(s)	1174
BmrFI	CCNGG	1 cut(s)	919
BmsI	GCATC	3 cut(s)	514, 705, 1114
BpiI	GAAGAC	2 cut(s)	209, 816
BpuEI	CTTGAG	2 cut(s)	851, 877
BpuMI	CCSGG	1 cut(s)	919
BsaBI	GATNNNNATC	1 cut(s)	129
BsaHI	GRCGYC	1 cut(s)	915
BsaWI	WCCGGW	1 cut(s)	319
Bsc4I	CCNNNNNNNGG	2 cut(s)	436, 1132
Bse118I	RCCGGY	2 cut(s)	215, 319
Bse1I	ACTGG	2 cut(s)	1037, 1064
Bse3DI	GCAATG	2 cut(s)	381, 630
Bse8I	GATNNNNATC	1 cut(s)	129
BseGI	GGATG	4 cut(s)	262, 1102, 1105, 1141
BseJI	GATNNNNATC	1 cut(s)	129
BseLI	CCNNNNNNNGG	2 cut(s)	436, 1132
BseMI	GCAATG	2 cut(s)	381, 630
BseMII	CTCAG	4 cut(s)	281, 483, 665, 946
BseNI	ACTGG	2 cut(s)	1037, 1064
BsePI	GCGCGC	1 cut(s)	476
BseRI	GAGGAG	2 cut(s)	267, 678
BseSI	GKGCMC	1 cut(s)	306
BseYI	CCCAGC	1 cut(s)	228
BsgI	GTGCAG	1 cut(s)	696
Bsh1236I	CGCG	1 cut(s)	478
BshFI	GGCC	5 cut(s)	365, 610, 707, 961, 1140
BshTI	ACCGGT	1 cut(s)	319
BsiHKAI	GWGCWC	1 cut(s)	445
BsiSI	CCGG	3 cut(s)	216, 320, 919
BslFI	GGGAC	1 cut(s)	1158
BslI	CCNNNNNNNGG	2 cut(s)	436, 1132
BsmAI	GTCTC	2 cut(s)	470, 1172
BsmBI	CGTCTC	2 cut(s)	470, 1172
BsmFI	GGGAC	1 cut(s)	1158
BsmI	GAATGC	1 cut(s)	1120
BsnI	GGCC	5 cut(s)	365, 610, 707, 961, 1140
Bsp1286I	GDGCHC	2 cut(s)	306, 445
Bsp143I	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
BspACI	CCGC	2 cut(s)	165, 768
BspANI	GGCC	5 cut(s)	365, 610, 707, 961, 1140
BspCNI	CTCAG	4 cut(s)	280, 482, 664, 945
BspFNI	CGCG	1 cut(s)	478
BspHI	TCATGA	2 cut(s)	34, 633
BspLI	GGNNCC	1 cut(s)	1174
BspMAI	CTGCAG	1 cut(s)	121
BspMI	ACCTGC	1 cut(s)	110
BspPI	GGATC	3 cut(s)	39, 791, 1020
BspTI	CTTAAG	1 cut(s)	821
BsrDI	GCAATG	2 cut(s)	381, 630
BsrFI	RCCGGY	2 cut(s)	215, 319
BsrI	ACTGG	2 cut(s)	1037, 1064
BssAI	RCCGGY	2 cut(s)	215, 319
BssHII	GCGCGC	1 cut(s)	476
BssMI	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
BssNI	GRCGYC	1 cut(s)	915
Bst4CI	ACNGT	4 cut(s)	199, 725, 848, 1166
Bst6I	CTCTTC	2 cut(s)	741, 1046
BstACI	GRCGYC	1 cut(s)	915
BstAFI	CTTAAG	1 cut(s)	821
BstC8I	GCNNGC	3 cut(s)	234, 414, 478
BstDEI	CTNAG	5 cut(s)	267, 375, 469, 651, 932
BstF5I	GGATG	4 cut(s)	262, 1102, 1105, 1141
BstFNI	CGCG	1 cut(s)	478
BstHHI	GCGC	3 cut(s)	478, 480, 696
BstKTI	GATC	9 cut(s)	34, 127, 141, 313, 381, 506, 553, 799, 1015
BstMAI	GTCTC	2 cut(s)	470, 1172
BstMBI	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
BstMWI	GCNNNNNNNGC	6 cut(s)	113, 116, 334, 371, 661, 675
BstNSI	RCATGY	3 cut(s)	236, 664, 1081
BstSCI	CCNGG	1 cut(s)	917
BstSFI	CTRYAG	1 cut(s)	117
BstSLI	GKGCMC	1 cut(s)	306
BstUI	CGCG	1 cut(s)	478
BstV2I	GAAGAC	2 cut(s)	209, 816
BstXI	CCANNNNNNTGG	1 cut(s)	1148
BsuRI	GGCC	5 cut(s)	365, 610, 707, 961, 1140
BtsCI	GGATG	4 cut(s)	262, 1102, 1105, 1141
BtsIMutI	CAGTG	2 cut(s)	853, 1057
BveI	ACCTGC	1 cut(s)	110
Cac8I	GCNNGC	3 cut(s)	234, 414, 478
CciI	TCATGA	2 cut(s)	34, 633
CfoI	GCGC	3 cut(s)	478, 480, 696
Cfr10I	RCCGGY	2 cut(s)	215, 319
Cfr13I	GGNCC	3 cut(s)	609, 751, 1172
CseI	GACGC	1 cut(s)	923
Csp6I	GTAC	2 cut(s)	222, 844
CspAI	ACCGGT	1 cut(s)	319
CspCI	CAANNNNNGTGG	2 cut(s)	751, 786
CviAII	CATG	8 cut(s)	35, 233, 421, 559, 634, 661, 1078, 1087
CviQI	GTAC	2 cut(s)	222, 844
DdeI	CTNAG	5 cut(s)	267, 375, 469, 651, 932
DpnI	GATC	9 cut(s)	33, 126, 140, 312, 380, 505, 552, 798, 1014
DpnII	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
EaeI	YGGCCR	2 cut(s)	959, 1138
Eam1104I	CTCTTC	2 cut(s)	741, 1046
EarI	CTCTTC	2 cut(s)	741, 1046
Ecl136II	GAGCTC	1 cut(s)	443
Eco24I	GRGCYC	1 cut(s)	445
Eco47I	GGWCC	2 cut(s)	751, 1172
Eco53kI	GAGCTC	1 cut(s)	443
Eco57I	CTGAAG	4 cut(s)	471, 492, 765, 828
EcoICRI	GAGCTC	1 cut(s)	443
EcoT38I	GRGCYC	1 cut(s)	445
Esp3I	CGTCTC	2 cut(s)	470, 1172
FaeI	CATG	8 cut(s)	38, 236, 424, 562, 637, 664, 1081, 1090
FaqI	GGGAC	1 cut(s)	1158
FatI	CATG	8 cut(s)	34, 232, 420, 558, 633, 660, 1077, 1086
FbaI	TGATCA	2 cut(s)	124, 310
FokI	GGATG	4 cut(s)	249, 1092, 1109, 1148
FriOI	GRGCYC	1 cut(s)	445
FspBI	CTAG	2 cut(s)	54, 716
FspI	TGCGCA	1 cut(s)	695
GlaI	GCGC	3 cut(s)	477, 479, 695
GsaI	CCCAGC	1 cut(s)	232
HaeIII	GGCC	5 cut(s)	365, 610, 707, 961, 1140
HapII	CCGG	3 cut(s)	216, 320, 919
HgaI	GACGC	1 cut(s)	923
HhaI	GCGC	3 cut(s)	478, 480, 696
Hin1I	GRCGYC	1 cut(s)	915
Hin1II	CATG	8 cut(s)	38, 236, 424, 562, 637, 664, 1081, 1090
Hin6I	GCGC	3 cut(s)	476, 478, 694
HinP1I	GCGC	3 cut(s)	476, 478, 694
HincII	GTYRAC	2 cut(s)	186, 1002
HindII	GTYRAC	2 cut(s)	186, 1002
HindIII	AAGCTT	3 cut(s)	414, 564, 926
HinfI	GANTC	3 cut(s)	40, 974, 998
HpaII	CCGG	3 cut(s)	216, 320, 919
HphI	GGTGA	5 cut(s)	134, 233, 380, 1102, 1163
Hpy166II	GTNNAC	2 cut(s)	186, 1002
Hpy188I	TCNGA	8 cut(s)	315, 451, 745, 801, 973, 979, 1017, 1072
Hpy188III	TCNNGA	5 cut(s)	35, 297, 519, 593, 634
Hpy8I	GTNNAC	2 cut(s)	186, 1002
HpyAV	CCTTC	4 cut(s)	291, 456, 976, 978
HpyCH4III	ACNGT	4 cut(s)	199, 725, 848, 1166
HpyCH4V	TGCA	7 cut(s)	119, 412, 713, 949, 1081, 1105, 1118
HpyF10VI	GCNNNNNNNGC	6 cut(s)	113, 116, 334, 371, 661, 675
HpyF3I	CTNAG	5 cut(s)	267, 375, 469, 651, 932
Hsp92I	GRCGYC	1 cut(s)	915
Hsp92II	CATG	8 cut(s)	38, 236, 424, 562, 637, 664, 1081, 1090
HspAI	GCGC	3 cut(s)	476, 478, 694
Ksp22I	TGATCA	2 cut(s)	124, 310
Kzo9I	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
LmnI	GCTCC	2 cut(s)	440, 448
LweI	GCATC	3 cut(s)	514, 705, 1114
MaeI	CTAG	2 cut(s)	54, 716
MaeIII	GTNAC	3 cut(s)	725, 851, 1157
MalI	GATC	9 cut(s)	33, 126, 140, 312, 380, 505, 552, 798, 1014
MboI	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
MhlI	GDGCHC	2 cut(s)	306, 445
MlsI	TGGCCA	2 cut(s)	961, 1140
MluCI	AATT	3 cut(s)	61, 254, 902
MluNI	TGGCCA	2 cut(s)	961, 1140
MlyI	GAGTC	1 cut(s)	1007
Mox20I	TGGCCA	2 cut(s)	961, 1140
MroXI	GAANNNNTTC	1 cut(s)	736
MscI	TGGCCA	2 cut(s)	961, 1140
MseI	TTAA	5 cut(s)	287, 585, 657, 822, 836
MslI	CAYNNNNRTG	1 cut(s)	1091
Msp20I	TGGCCA	2 cut(s)	961, 1140
MspA1I	CMGCKG	2 cut(s)	473, 768
MspCI	CTTAAG	1 cut(s)	821
MspI	CCGG	3 cut(s)	216, 320, 919
MspR9I	CCNGG	1 cut(s)	919
Mva1269I	GAATGC	1 cut(s)	1120
MvnI	CGCG	1 cut(s)	478
MwoI	GCNNNNNNNGC	6 cut(s)	113, 116, 334, 371, 661, 675
NciI	CCSGG	1 cut(s)	919
NdeII	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
NlaIII	CATG	8 cut(s)	38, 236, 424, 562, 637, 664, 1081, 1090
NlaIV	GGNNCC	1 cut(s)	1174
NmeAIII	GCCGAG	2 cut(s)	683, 814
NmuCI	GTSAC	2 cut(s)	725, 1157
NsbI	TGCGCA	1 cut(s)	695
NspI	RCATGY	3 cut(s)	236, 664, 1081
PaeI	GCATGC	1 cut(s)	236
PagI	TCATGA	2 cut(s)	34, 633
PaqCI	CACCTGC	1 cut(s)	110
PauI	GCGCGC	1 cut(s)	476
PctI	GAATGC	1 cut(s)	1120
PdmI	GAANNNNTTC	1 cut(s)	736
PfeI	GAWTC	2 cut(s)	40, 974
PflMI	CCANNNNNTGG	1 cut(s)	436
PinAI	ACCGGT	1 cut(s)	319
PleI	GAGTC	1 cut(s)	1006
PpsI	GAGTC	1 cut(s)	1006
PshBI	ATTAAT	1 cut(s)	287
Psp124BI	GAGCTC	1 cut(s)	445
PspFI	CCCAGC	1 cut(s)	228
PspN4I	GGNNCC	1 cut(s)	1174
PspPI	GGNCC	3 cut(s)	609, 751, 1172
PstI	CTGCAG	1 cut(s)	121
PteI	GCGCGC	1 cut(s)	476
PvuII	CAGCTG	1 cut(s)	473
RsaI	GTAC	2 cut(s)	223, 845
RsaNI	GTAC	2 cut(s)	222, 844
RseI	CAYNNNNRTG	1 cut(s)	1091
SacI	GAGCTC	1 cut(s)	445
SaqAI	TTAA	5 cut(s)	287, 585, 657, 822, 836
Sau3AI	GATC	9 cut(s)	31, 124, 138, 310, 378, 503, 550, 796, 1012
Sau96I	GGNCC	3 cut(s)	609, 751, 1172
ScaI	AGTACT	1 cut(s)	223
SchI	GAGTC	1 cut(s)	1007
ScrFI	CCNGG	1 cut(s)	919
SduI	GDGCHC	2 cut(s)	306, 445
SfaNI	GCATC	3 cut(s)	514, 705, 1114
SfcI	CTRYAG	1 cut(s)	117
SinI	GGWCC	2 cut(s)	751, 1172
SmiMI	CAYNNNNRTG	1 cut(s)	1091
SmlI	CTYRAG	3 cut(s)	821, 856, 866
SmoI	CTYRAG	3 cut(s)	821, 856, 866
SphI	GCATGC	1 cut(s)	236
Sse9I	AATT	3 cut(s)	61, 254, 902
SsiI	CCGC	2 cut(s)	165, 768
SspI	AATATT	1 cut(s)	291
SspMI	CTAG	2 cut(s)	54, 716
SstI	GAGCTC	1 cut(s)	445
StyD4I	CCNGG	1 cut(s)	917
TaaI	ACNGT	4 cut(s)	199, 725, 848, 1166
TaqI	TCGA	2 cut(s)	518, 549
TaqII	GACCGA	2 cut(s)	221, 1160
TasI	AATT	3 cut(s)	61, 254, 902
TatI	WGTACW	2 cut(s)	221, 843
TfiI	GAWTC	2 cut(s)	40, 974
Tru1I	TTAA	5 cut(s)	287, 585, 657, 822, 836
Tru9I	TTAA	5 cut(s)	287, 585, 657, 822, 836
TscAI	CASTG	2 cut(s)	853, 1064
TseFI	GTSAC	2 cut(s)	725, 1157
Tsp45I	GTSAC	2 cut(s)	725, 1157
TspGWI	ACGGA	2 cut(s)	171, 744
TspRI	CASTG	2 cut(s)	853, 1064
Van91I	CCANNNNNTGG	1 cut(s)	436
Vha464I	CTTAAG	1 cut(s)	821
VpaK11BI	GGWCC	2 cut(s)	751, 1172
VspI	ATTAAT	1 cut(s)	287
XapI	RAATTY	2 cut(s)	61, 254
XceI	RCATGY	3 cut(s)	236, 664, 1081
XmnI	GAANNNNTTC	1 cut(s)	736
XspI	CTAG	2 cut(s)	54, 716
ZrmI	AGTACT	1 cut(s)	223

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