Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0009243

Physical Location & Seq

Genomic Coordinates Reverse (-)

70165876 .. 70170299

Gene Structure 4424 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG502600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGGAGGAATACAATAATAGTAATGAAATGGATCATGAGAATCAAGGCACTCCTAGAGGAAATTTCCTCTACGCTTCTTCAAATCTTGGAGGCAACTATGGTAGAGCTGCTGCTGCTGCAGGTGATCATAATCAGCAGATCAACACCTTTCATCTTCAATCAAGCGGTGGCGAGTGTTTTCCGTCAACACAACCAACCGTGAAGACCGAAGCAGCCGGTAGTACTTCCCAGCATGCTCATCACCACCACCACAAATTTCATCATCCTCAGTTTTCTCCTCCTTCATTAATATTGTCAAGAGGGCACAATGATCAGATACCGGTTCAGCAGCAGCAGCACATAGAAAACGAGAATGAAGTAGAGGCCATCAAAGCTAAGATCATTGCTCACCCTCACTACTCTAACCTCTTGCAAGCTTACATGGATTGCCAAAGGGTGGGAGCTCCTTCTGAAGTTGTGGCTCGTCTCTCAGCTGCGCGCCAAGAGTTTGAAGCACGACAGCGATCTTCAGTCAGTTCGAGAGATGCTTCTTCAAAAGACCCCGAACTCGATCAGTTCATGGAAGCTTACTATGATATGCTGGTTAAGTATCGGGAGGAACTGACAAGGCCCATACAAGAAGCAATGGATTTCATGAGGAAGATTGAAACTCAGCTTAACATGCTTGGCAATAATAGCAACACTACTCCTCTGCGCATCTTCTCGGCCTCTGCACTAGGGCAAATTACGAAGAGGAAGAAGATGAAGATCGAAGAAGCAACAGCAACCAGTACACCTACCCTTTTCACGAGAGGCTTAATTAACATACACATACCAGGACAAGTGTGA

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

275

Amino Acids

30.83

Weight (kDa)

6.46

Isoelectric Point (pI)

54.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	122 - 164	4.1e-23	KNOX1 domain
KNOX2	PF03791	178 - 222	1e-24	KNOX2 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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	1 cut(s)	165
AclWI	GGATC	1 cut(s)	39
AcsI	RAATTY	2 cut(s)	61, 254
AcuI	CTGAAG	2 cut(s)	471, 492
AfaI	GTAC	2 cut(s)	223, 772
AfiI	CCNNNNNNNGG	1 cut(s)	436
AgeI	ACCGGT	1 cut(s)	319
AgsI	TTSAA	5 cut(s)	81, 158, 491, 534, 647
AjnI	CCWGG	1 cut(s)	814
AluBI	AGCT	7 cut(s)	107, 374, 416, 443, 473, 566, 655
AluI	AGCT	7 cut(s)	107, 374, 416, 443, 473, 566, 655
Alw21I	GWGCWC	1 cut(s)	445
Alw26I	GTCTC	1 cut(s)	470
AlwI	GGATC	1 cut(s)	39
AoxI	GGCC	3 cut(s)	363, 608, 705
ApeKI	GCWGC	9 cut(s)	107, 110, 113, 116, 212, 328, 331, 334, 473
ApoI	RAATTY	2 cut(s)	61, 254
AseI	ATTAAT	1 cut(s)	287
AsiGI	ACCGGT	1 cut(s)	319
AspLEI	GCGC	3 cut(s)	478, 480, 696
AspS9I	GGNCC	1 cut(s)	609
AsuHPI	GGTGA	3 cut(s)	134, 233, 380
BaeGI	GKGCMC	1 cut(s)	306
BanII	GRGCYC	1 cut(s)	445
BauI	CACGAG	1 cut(s)	787
BbsI	GAAGAC	1 cut(s)	209
Bbv12I	GWGCWC	1 cut(s)	445
BbvI	GCAGC	9 cut(s)	94, 97, 100, 103, 224, 340, 343, 346, 460
BccI	CCATC	1 cut(s)	374
BciT130I	CCWGG	1 cut(s)	816
BclI	TGATCA	2 cut(s)	124, 310
BcoDI	GTCTC	1 cut(s)	470
BfaI	CTAG	2 cut(s)	54, 716
BfmI	CTRYAG	1 cut(s)	117
BfuAI	ACCTGC	1 cut(s)	110
BisI	GCNGC	9 cut(s)	108, 111, 114, 117, 213, 329, 332, 335, 474
BlsI	GCNGC	9 cut(s)	109, 112, 115, 118, 214, 330, 333, 336, 475
BmcAI	AGTACT	1 cut(s)	223
Bme1390I	CCNGG	1 cut(s)	816
BmgT120I	GGNCC	1 cut(s)	609
BmrFI	CCNGG	1 cut(s)	816
BmsI	GCATC	2 cut(s)	514, 705
BpiI	GAAGAC	1 cut(s)	209
BsaBI	GATNNNNATC	2 cut(s)	129, 746
BsaWI	WCCGGW	1 cut(s)	319
Bsc4I	CCNNNNNNNGG	1 cut(s)	436
Bse118I	RCCGGY	2 cut(s)	215, 319
Bse1I	ACTGG	1 cut(s)	768
Bse3DI	GCAATG	2 cut(s)	381, 630
Bse8I	GATNNNNATC	2 cut(s)	129, 746
BseBI	CCWGG	1 cut(s)	816
BseGI	GGATG	1 cut(s)	262
BseJI	GATNNNNATC	2 cut(s)	129, 746
BseLI	CCNNNNNNNGG	1 cut(s)	436
BseMI	GCAATG	2 cut(s)	381, 630
BseMII	CTCAG	3 cut(s)	281, 483, 665
BseNI	ACTGG	1 cut(s)	768
BsePI	GCGCGC	1 cut(s)	476
BseRI	GAGGAG	2 cut(s)	267, 678
BseSI	GKGCMC	1 cut(s)	306
BseXI	GCAGC	9 cut(s)	94, 97, 100, 103, 224, 340, 343, 346, 460
BseYI	CCCAGC	1 cut(s)	228
BsgI	GTGCAG	1 cut(s)	696
Bsh1236I	CGCG	1 cut(s)	478
BshFI	GGCC	3 cut(s)	365, 610, 707
BshTI	ACCGGT	1 cut(s)	319
BsiHKAI	GWGCWC	1 cut(s)	445
BsiSI	CCGG	2 cut(s)	216, 320
BslI	CCNNNNNNNGG	1 cut(s)	436
BsmAI	GTCTC	1 cut(s)	470
BsmBI	CGTCTC	1 cut(s)	470
BsnI	GGCC	3 cut(s)	365, 610, 707
Bsp1286I	GDGCHC	2 cut(s)	306, 445
Bsp143I	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
BspACI	CCGC	1 cut(s)	165
BspANI	GGCC	3 cut(s)	365, 610, 707
BspCNI	CTCAG	3 cut(s)	280, 482, 664
BspFNI	CGCG	1 cut(s)	478
BspHI	TCATGA	2 cut(s)	34, 633
BspMAI	CTGCAG	1 cut(s)	121
BspMI	ACCTGC	1 cut(s)	110
BspPI	GGATC	1 cut(s)	39
BsrDI	GCAATG	2 cut(s)	381, 630
BsrFI	RCCGGY	2 cut(s)	215, 319
BsrI	ACTGG	1 cut(s)	768
BssAI	RCCGGY	2 cut(s)	215, 319
BssHII	GCGCGC	1 cut(s)	476
BssMI	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
BssSI	CACGAG	1 cut(s)	787
Bst2BI	CACGAG	1 cut(s)	787
Bst2UI	CCWGG	1 cut(s)	816
Bst4CI	ACNGT	1 cut(s)	199
Bst6I	CTCTTC	1 cut(s)	725
BstC8I	GCNNGC	3 cut(s)	234, 414, 478
BstDEI	CTNAG	4 cut(s)	267, 375, 469, 651
BstF5I	GGATG	1 cut(s)	262
BstFNI	CGCG	1 cut(s)	478
BstHHI	GCGC	3 cut(s)	478, 480, 696
BstKTI	GATC	8 cut(s)	34, 127, 141, 313, 381, 506, 553, 750
BstMAI	GTCTC	1 cut(s)	470
BstMBI	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
BstMWI	GCNNNNNNNGC	6 cut(s)	113, 116, 334, 371, 661, 675
BstNI	CCWGG	1 cut(s)	816
BstNSI	RCATGY	2 cut(s)	236, 664
BstSCI	CCNGG	1 cut(s)	814
BstSFI	CTRYAG	1 cut(s)	117
BstSLI	GKGCMC	1 cut(s)	306
BstUI	CGCG	1 cut(s)	478
BstV1I	GCAGC	9 cut(s)	94, 97, 100, 103, 224, 340, 343, 346, 460
BstV2I	GAAGAC	1 cut(s)	209
BsuRI	GGCC	3 cut(s)	365, 610, 707
BtsCI	GGATG	1 cut(s)	262
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	1 cut(s)	609
Csp6I	GTAC	2 cut(s)	222, 771
CspAI	ACCGGT	1 cut(s)	319
CviAII	CATG	6 cut(s)	35, 233, 421, 559, 634, 661
CviQI	GTAC	2 cut(s)	222, 771
DdeI	CTNAG	4 cut(s)	267, 375, 469, 651
DpnI	GATC	8 cut(s)	33, 126, 140, 312, 380, 505, 552, 749
DpnII	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
Eam1104I	CTCTTC	1 cut(s)	725
EarI	CTCTTC	1 cut(s)	725
Ecl136II	GAGCTC	1 cut(s)	443
Eco24I	GRGCYC	1 cut(s)	445
Eco53kI	GAGCTC	1 cut(s)	443
Eco57I	CTGAAG	2 cut(s)	471, 492
EcoICRI	GAGCTC	1 cut(s)	443
EcoRII	CCWGG	1 cut(s)	814
EcoT38I	GRGCYC	1 cut(s)	445
Esp3I	CGTCTC	1 cut(s)	470
FaeI	CATG	6 cut(s)	38, 236, 424, 562, 637, 664
FatI	CATG	6 cut(s)	34, 232, 420, 558, 633, 660
FbaI	TGATCA	2 cut(s)	124, 310
Fnu4HI	GCNGC	9 cut(s)	108, 111, 114, 117, 213, 329, 332, 335, 474
FokI	GGATG	1 cut(s)	249
FriOI	GRGCYC	1 cut(s)	445
Fsp4HI	GCNGC	9 cut(s)	108, 111, 114, 117, 213, 329, 332, 335, 474
FspBI	CTAG	2 cut(s)	54, 716
FspI	TGCGCA	1 cut(s)	695
GlaI	GCGC	3 cut(s)	477, 479, 695
GluI	GCNGC	9 cut(s)	108, 111, 114, 117, 213, 329, 332, 335, 474
GsaI	CCCAGC	1 cut(s)	232
HaeIII	GGCC	3 cut(s)	365, 610, 707
HapII	CCGG	2 cut(s)	216, 320
HhaI	GCGC	3 cut(s)	478, 480, 696
Hin1II	CATG	6 cut(s)	38, 236, 424, 562, 637, 664
Hin6I	GCGC	3 cut(s)	476, 478, 694
HinP1I	GCGC	3 cut(s)	476, 478, 694
HincII	GTYRAC	1 cut(s)	186
HindII	GTYRAC	1 cut(s)	186
HindIII	AAGCTT	2 cut(s)	414, 564
HinfI	GANTC	1 cut(s)	40
HpaII	CCGG	2 cut(s)	216, 320
HphI	GGTGA	3 cut(s)	134, 233, 380
Hpy166II	GTNNAC	2 cut(s)	186, 773
Hpy188I	TCNGA	2 cut(s)	315, 451
Hpy188III	TCNNGA	6 cut(s)	35, 297, 519, 593, 634, 787
Hpy8I	GTNNAC	2 cut(s)	186, 773
HpyAV	CCTTC	2 cut(s)	291, 456
HpyCH4III	ACNGT	1 cut(s)	199
HpyCH4V	TGCA	3 cut(s)	119, 412, 713
HpyF10VI	GCNNNNNNNGC	6 cut(s)	113, 116, 334, 371, 661, 675
HpyF3I	CTNAG	4 cut(s)	267, 375, 469, 651
Hsp92II	CATG	6 cut(s)	38, 236, 424, 562, 637, 664
HspAI	GCGC	3 cut(s)	476, 478, 694
Ksp22I	TGATCA	2 cut(s)	124, 310
Kzo9I	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
LmnI	GCTCC	2 cut(s)	440, 448
LpnPI	CCDG	7 cut(s)	105, 229, 242, 333, 566, 781, 801
Lsp1109I	GCAGC	9 cut(s)	94, 97, 100, 103, 224, 340, 343, 346, 460
LweI	GCATC	2 cut(s)	514, 705
MaeI	CTAG	2 cut(s)	54, 716
MalI	GATC	8 cut(s)	33, 126, 140, 312, 380, 505, 552, 749
MboI	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
MhlI	GDGCHC	2 cut(s)	306, 445
MluCI	AATT	4 cut(s)	61, 254, 723, 798
MseI	TTAA	5 cut(s)	287, 585, 657, 797, 801
MspA1I	CMGCKG	1 cut(s)	473
MspI	CCGG	2 cut(s)	216, 320
MspR9I	CCNGG	1 cut(s)	816
MvaI	CCWGG	1 cut(s)	816
MvnI	CGCG	1 cut(s)	478
MwoI	GCNNNNNNNGC	6 cut(s)	113, 116, 334, 371, 661, 675
NdeII	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
NlaIII	CATG	6 cut(s)	38, 236, 424, 562, 637, 664
NmeAIII	GCCGAG	1 cut(s)	683
NsbI	TGCGCA	1 cut(s)	695
NspI	RCATGY	2 cut(s)	236, 664
PacI	TTAATTAA	1 cut(s)	801
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
PfeI	GAWTC	1 cut(s)	40
PflMI	CCANNNNNTGG	1 cut(s)	436
PinAI	ACCGGT	1 cut(s)	319
PkrI	GCNGC	9 cut(s)	109, 112, 115, 118, 214, 330, 333, 336, 475
PshBI	ATTAAT	1 cut(s)	287
Psp124BI	GAGCTC	1 cut(s)	445
Psp6I	CCWGG	1 cut(s)	814
PspFI	CCCAGC	1 cut(s)	228
PspGI	CCWGG	1 cut(s)	814
PspPI	GGNCC	1 cut(s)	609
PstI	CTGCAG	1 cut(s)	121
PteI	GCGCGC	1 cut(s)	476
PvuII	CAGCTG	1 cut(s)	473
RsaI	GTAC	2 cut(s)	223, 772
RsaNI	GTAC	2 cut(s)	222, 771
SacI	GAGCTC	1 cut(s)	445
SaqAI	TTAA	5 cut(s)	287, 585, 657, 797, 801
SatI	GCNGC	9 cut(s)	108, 111, 114, 117, 213, 329, 332, 335, 474
Sau3AI	GATC	8 cut(s)	31, 124, 138, 310, 378, 503, 550, 747
Sau96I	GGNCC	1 cut(s)	609
ScaI	AGTACT	1 cut(s)	223
ScrFI	CCNGG	1 cut(s)	816
SduI	GDGCHC	2 cut(s)	306, 445
SfaNI	GCATC	2 cut(s)	514, 705
SfcI	CTRYAG	1 cut(s)	117
SphI	GCATGC	1 cut(s)	236
Sse9I	AATT	4 cut(s)	61, 254, 723, 798
SsiI	CCGC	1 cut(s)	165
SspI	AATATT	1 cut(s)	291
SspMI	CTAG	2 cut(s)	54, 716
SstI	GAGCTC	1 cut(s)	445
StyD4I	CCNGG	1 cut(s)	814
TaaI	ACNGT	1 cut(s)	199
TaqI	TCGA	3 cut(s)	518, 549, 750
TaqII	GACCGA	1 cut(s)	221
TasI	AATT	4 cut(s)	61, 254, 723, 798
TatI	WGTACW	2 cut(s)	221, 770
TfiI	GAWTC	1 cut(s)	40
Tru1I	TTAA	5 cut(s)	287, 585, 657, 797, 801
Tru9I	TTAA	5 cut(s)	287, 585, 657, 797, 801
TseI	GCWGC	9 cut(s)	107, 110, 113, 116, 212, 328, 331, 334, 473
TspDTI	ATGAA	8 cut(s)	39, 140, 248, 273, 369, 547, 622, 758
TspGWI	ACGGA	1 cut(s)	171
Van91I	CCANNNNNTGG	1 cut(s)	436
VspI	ATTAAT	1 cut(s)	287
XapI	RAATTY	2 cut(s)	61, 254
XceI	RCATGY	2 cut(s)	236, 664
XspI	CTAG	2 cut(s)	54, 716
ZrmI	AGTACT	1 cut(s)	223

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