Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0002529

Physical Location & Seq

Genomic Coordinates Forward (+)

78721411 .. 78724273

Gene Structure 2863 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG557700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1044 bp

ATGGAGAGTGAGAGATGGTTTAGGGTTTCTAATGTGAGAGAGATAGAGAAGATGGAGGGTGGGAGTAATAATTGTAATAGTAAGTATTACAGTCATGGTGTGATGGGATCTGGGTCTTCTTCTGGGATGTTGATGCCTCCTCCTCTTGTGAATTCTTATGCTACTGCTGCAGATCAAACTAGTAGTTCTAGTAACCAGCAGCACTATGTTTCTCTGCCTTTTACCAACATCAACCCAAACCAAAATGATAGTCAGGAATATGAGATGACTATGAAAGCTAAGATCATGGGTCATCCTCTCTTCCCTCGCCTCTTGGCCTCTTATGTCAATTGTCAAAAGGTTGGGGCACCTGCTGAAGTGGTGGCTAGGTTAGAGCATGCGGCTGCGGCCTCAATATCTTATGCGGCTGCAATTTCTGAAGCATGTGAAGAATCAGAACCAGACCCAGAGCTGGATCAGTTCATGGAGGCCTATTGTGAGATGCTTGCTAAGTACCATGAAGAGGTCACAAAGCCCTTCCATGAAGCCATGCTTGGCCTCTCTAAAATCAACTCCCAGCTCAAAGCTCTATCCGTTTCACCTTCATATGCTGCTAGTACTGGTGATCTTGTTAGACAAAGTGGATCTTCAGAAGAGGCTGATGTGAATGAGAGTGGCATAGATCCAAGAGCCGAAGATTGGGATATTAAAGCTAAGCTTCTGCAAAAATATGGTGGATGTCTTGGCAGTCTCAGCCAGGAGTTGAAGCAGAAGAAAAAAAACGGAAAGTTGCCCAAGGAAGCCCGGGTTCAATTGCAAGAATGGTGGAGCAGAAATTACACATGGCCCTATCCATCGGAGCCTCAAAAGTTCGGACTAGCAGCATCTACAGGTCTGACTGTGAAGCAGATAAACAACTGGTTCATAAACCAAAGGAAACGCCATTGGAAGCCGTCTTCAGAGGGTATGCAACTTGCTATGGTGGATCATCCCCAATTCTACTATATGGACCATCTCATCTGCAATCCTTTACCTATGGATTGCACATCTACTCCTTTGGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04550 ko05202 map04550 map05202

Pfam Domains

Protein Families

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

347

Amino Acids

38.78

Weight (kDa)

5.77

Isoelectric Point (pI)

51.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	91 - 130	1.9e-19	KNOX1 domain
KNOX2	PF03791	147 - 190	5.1e-19	KNOX2 domain
Homeobox_KN	PF05920	268 - 307	2.7e-17	Homeobox KN 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002529)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G62360
fragaria_vesca	FvH4_3g01400 FvH4_3g01400 FvH4_3g01400 FvH4_3g01400 FvH4_6g42570 FvH4_6g42570
malus_domestica	MD05G1352500.v1.1 MD09G1112500.v1.1 MD10G1276200.v1.1 MD10G1326500.v1.1 MD17G1102600.v1.1
prunus_persica	Prupe.3G212100_v2.0.a1 Prupe.4G015200_v2.0.a1 Prupe.4G015200_v2.0.a1
pyrus_communis	pycom05g31940 pycom09g03690 pycom10g27650 pycom17g09700
rosa_chinensis	RchiOBHm_Chr2g0158421 RchiOBHm_Chr5g0002121
rosa_laevigata	RLG00000021086 RLG00000030997
rosa_multiflora	Rmu_sc0004855.1_g000009 Rmu_ssc0000001.1_g000013
rosa_roxburghii	Rroxscaffold_1G00073790 Rroxscaffold_2G00091400
rosa_rugosa	Rorug02G0468500 Rorug02G0468600 Rorug04G0394500 Rorug04G0394500
rosa_samantha	Rh2AG534700 Rh2BG548100 Rh2CG518500 Rh2DG557700 Rh5AG016200 Rh5BG019600 Rh5CG017500 Rh5DG017700
rosa_wichuraiana	Rw2G044280 Rw5G001580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	358
Acc36I	ACCTGC	1 cut(s)	358
AccB1I	GGYRCC	1 cut(s)	346
AciI	CCGC	3 cut(s)	380, 386, 404
AclWI	GGATC	5 cut(s)	115, 462, 631, 656, 972
AcsI	RAATTY	1 cut(s)	151
AcuI	CTGAAG	4 cut(s)	375, 438, 612, 921
AfaI	GTAC	2 cut(s)	494, 598
AfiI	CCNNNNNNNGG	3 cut(s)	451, 502, 678
AgsI	TTSAA	2 cut(s)	745, 791
AhlI	ACTAGT	1 cut(s)	179
AjnI	CCWGG	1 cut(s)	735
AjuI	GAANNNNNNNTTGG	2 cut(s)	516, 548
AluBI	AGCT	6 cut(s)	278, 451, 559, 566, 692, 697
AluI	AGCT	6 cut(s)	278, 451, 559, 566, 692, 697
Alw26I	GTCTC	1 cut(s)	734
AlwI	GGATC	5 cut(s)	115, 462, 631, 656, 972
Ama87I	CYCGRG	1 cut(s)	783
AoxI	GGCC	5 cut(s)	315, 387, 468, 535, 824
ApeKI	GCWGC	6 cut(s)	167, 199, 383, 407, 590, 860
ApoI	RAATTY	1 cut(s)	151
ArsI	GACNNNNNNTTYG	2 cut(s)	235, 267
AspS9I	GGNCC	2 cut(s)	825, 988
AsuC2I	CCSGG	2 cut(s)	784, 785
AsuHPI	GGTGA	2 cut(s)	570, 614
AvaI	CYCGRG	1 cut(s)	783
AvaII	GGWCC	1 cut(s)	988
BaeGI	GKGCMC	1 cut(s)	349
BanI	GGYRCC	1 cut(s)	346
BbsI	GAAGAC	2 cut(s)	108, 927
BbvI	GCAGC	6 cut(s)	154, 211, 370, 394, 577, 872
BccI	CCATC	5 cut(s)	9, 46, 97, 841, 999
BceAI	ACGGC	1 cut(s)	916
BciT130I	CCWGG	1 cut(s)	737
BcnI	CCSGG	2 cut(s)	784, 785
BcoDI	GTCTC	1 cut(s)	734
BcuI	ACTAGT	1 cut(s)	179
BfaI	CTAG	5 cut(s)	180, 189, 366, 594, 857
BfmI	CTRYAG	2 cut(s)	168, 867
BfuAI	ACCTGC	1 cut(s)	358
BisI	GCNGC	9 cut(s)	168, 200, 381, 384, 387, 405, 408, 591, 861
BlpI	GCTNAGC	1 cut(s)	693
BlsI	GCNGC	9 cut(s)	169, 201, 382, 385, 388, 406, 409, 592, 862
BmcAI	AGTACT	1 cut(s)	598
Bme1390I	CCNGG	3 cut(s)	737, 784, 785
Bme18I	GGWCC	1 cut(s)	988
BmeT110I	CYCGRG	1 cut(s)	783
BmgT120I	GGNCC	2 cut(s)	825, 988
BmiI	GGNNCC	2 cut(s)	348, 840
BmrFI	CCNGG	3 cut(s)	737, 784, 785
BmsI	GCATC	3 cut(s)	123, 471, 872
BpiI	GAAGAC	2 cut(s)	108, 927
Bpu1102I	GCTNAGC	1 cut(s)	693
BpuMI	CCSGG	2 cut(s)	784, 785
BsaJI	CCNNGG	2 cut(s)	774, 783
BsaXI	ACNNNNNCTCC	1 cut(s)	1015
Bsc4I	CCNNNNNNNGG	3 cut(s)	451, 502, 678
Bse1I	ACTGG	2 cut(s)	604, 902
BseBI	CCWGG	1 cut(s)	737
BseDI	CCNNGG	2 cut(s)	774, 783
BseGI	GGATG	4 cut(s)	132, 292, 722, 967
BseLI	CCNNNNNNNGG	3 cut(s)	451, 502, 678
BseMII	CTCAG	1 cut(s)	745
BseNI	ACTGG	2 cut(s)	604, 902
BseRI	GAGGAG	2 cut(s)	129, 132
BseSI	GKGCMC	1 cut(s)	349
BseXI	GCAGC	6 cut(s)	154, 211, 370, 394, 577, 872
BseYI	CCCAGC	1 cut(s)	555
BshFI	GGCC	5 cut(s)	317, 389, 470, 537, 826
BshNI	GGYRCC	1 cut(s)	346
BsiHKCI	CYCGRG	1 cut(s)	783
BsiSI	CCGG	1 cut(s)	784
BslI	CCNNNNNNNGG	3 cut(s)	451, 502, 678
BsmAI	GTCTC	1 cut(s)	734
BsnI	GGCC	5 cut(s)	317, 389, 470, 537, 826
BsoBI	CYCGRG	1 cut(s)	783
Bsp1286I	GDGCHC	1 cut(s)	349
Bsp143I	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
Bsp1720I	GCTNAGC	1 cut(s)	693
BspACI	CCGC	3 cut(s)	380, 386, 404
BspANI	GGCC	5 cut(s)	317, 389, 470, 537, 826
BspCNI	CTCAG	1 cut(s)	744
BspLI	GGNNCC	2 cut(s)	348, 840
BspMAI	CTGCAG	1 cut(s)	172
BspMI	ACCTGC	1 cut(s)	358
BspPI	GGATC	5 cut(s)	115, 462, 631, 656, 972
BspT107I	GGYRCC	1 cut(s)	346
BsrI	ACTGG	2 cut(s)	604, 902
BssECI	CCNNGG	2 cut(s)	774, 783
BssMI	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
BssT1I	CCWWGG	1 cut(s)	774
Bst2UI	CCWGG	1 cut(s)	737
Bst4CI	ACNGT	2 cut(s)	92, 880
Bst6I	CTCTTC	3 cut(s)	305, 495, 627
BstC8I	GCNNGC	2 cut(s)	378, 486
BstDEI	CTNAG	4 cut(s)	279, 489, 693, 731
BstF5I	GGATG	4 cut(s)	132, 292, 722, 967
BstKTI	GATC	8 cut(s)	110, 175, 285, 457, 607, 626, 664, 967
BstMAI	GTCTC	1 cut(s)	734
BstMBI	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
BstMWI	GCNNNNNNNGC	3 cut(s)	167, 386, 732
BstNI	CCWGG	1 cut(s)	737
BstNSI	RCATGY	2 cut(s)	380, 426
BstSCI	CCNGG	3 cut(s)	735, 782, 783
BstSFI	CTRYAG	2 cut(s)	168, 867
BstSLI	GKGCMC	1 cut(s)	349
BstV1I	GCAGC	6 cut(s)	154, 211, 370, 394, 577, 872
BstV2I	GAAGAC	2 cut(s)	108, 927
BstX2I	RGATCY	3 cut(s)	107, 623, 661
BstYI	RGATCY	3 cut(s)	107, 623, 661
BsuRI	GGCC	5 cut(s)	317, 389, 470, 537, 826
BtsCI	GGATG	4 cut(s)	132, 292, 722, 967
BveI	ACCTGC	1 cut(s)	358
Cac8I	GCNNGC	2 cut(s)	378, 486
Cfr13I	GGNCC	2 cut(s)	825, 988
Cfr9I	CCCGGG	1 cut(s)	783
Csp6I	GTAC	2 cut(s)	493, 597
CspCI	CAANNNNNGTGG	2 cut(s)	785, 820
CviAII	CATG	9 cut(s)	95, 286, 377, 423, 463, 497, 521, 529, 822
CviQI	GTAC	2 cut(s)	493, 597
DdeI	CTNAG	4 cut(s)	279, 489, 693, 731
DpnI	GATC	8 cut(s)	109, 174, 284, 456, 606, 625, 663, 966
DpnII	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
Eam1104I	CTCTTC	3 cut(s)	305, 495, 627
EarI	CTCTTC	3 cut(s)	305, 495, 627
Eco130I	CCWWGG	1 cut(s)	774
Eco147I	AGGCCT	1 cut(s)	470
Eco47I	GGWCC	1 cut(s)	988
Eco57I	CTGAAG	4 cut(s)	375, 438, 612, 921
Eco88I	CYCGRG	1 cut(s)	783
EcoRI	GAATTC	1 cut(s)	151
EcoRII	CCWGG	1 cut(s)	735
EcoT14I	CCWWGG	1 cut(s)	774
ErhI	CCWWGG	1 cut(s)	774
FaeI	CATG	9 cut(s)	98, 289, 380, 426, 466, 500, 524, 532, 825
FalI	AAGNNNNNCTT	6 cut(s)	516, 548, 610, 642, 681, 713
FatI	CATG	9 cut(s)	94, 285, 376, 422, 462, 496, 520, 528, 821
FauNDI	CATATG	1 cut(s)	586
Fnu4HI	GCNGC	9 cut(s)	168, 200, 381, 384, 387, 405, 408, 591, 861
FokI	GGATG	4 cut(s)	139, 279, 729, 954
Fsp4HI	GCNGC	9 cut(s)	168, 200, 381, 384, 387, 405, 408, 591, 861
FspBI	CTAG	5 cut(s)	180, 189, 366, 594, 857
GluI	GCNGC	9 cut(s)	168, 200, 381, 384, 387, 405, 408, 591, 861
GsaI	CCCAGC	1 cut(s)	559
HaeIII	GGCC	5 cut(s)	317, 389, 470, 537, 826
HapII	CCGG	1 cut(s)	784
Hin1II	CATG	9 cut(s)	98, 289, 380, 426, 466, 500, 524, 532, 825
HindIII	AAGCTT	1 cut(s)	695
HinfI	GANTC	1 cut(s)	431
HpaII	CCGG	1 cut(s)	784
HphI	GGTGA	2 cut(s)	570, 614
Hpy188I	TCNGA	7 cut(s)	418, 436, 631, 838, 854, 876, 940
Hpy188III	TCNNGA	1 cut(s)	254
HpyAV	CCTTC	2 cut(s)	526, 591
HpyCH4III	ACNGT	2 cut(s)	92, 880
HpyCH4V	TGCA	7 cut(s)	170, 410, 703, 796, 949, 1002, 1023
HpyF10VI	GCNNNNNNNGC	3 cut(s)	167, 386, 732
HpyF3I	CTNAG	4 cut(s)	279, 489, 693, 731
Hsp92II	CATG	9 cut(s)	98, 289, 380, 426, 466, 500, 524, 532, 825
Kzo9I	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
LmnI	GCTCC	2 cut(s)	807, 838
Lsp1109I	GCAGC	6 cut(s)	154, 211, 370, 394, 577, 872
LweI	GCATC	3 cut(s)	123, 471, 872
MaeI	CTAG	5 cut(s)	180, 189, 366, 594, 857
MaeIII	GTNAC	2 cut(s)	191, 505
MalI	GATC	8 cut(s)	109, 174, 284, 456, 606, 625, 663, 966
MboI	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
MfeI	CAATTG	2 cut(s)	328, 791
MflI	RGATCY	3 cut(s)	107, 623, 661
MhlI	GDGCHC	1 cut(s)	349
MluCI	AATT	7 cut(s)	70, 151, 328, 411, 791, 814, 974
MseI	TTAA	1 cut(s)	687
MspI	CCGG	1 cut(s)	784
MspR9I	CCNGG	3 cut(s)	737, 784, 785
MunI	CAATTG	2 cut(s)	328, 791
MvaI	CCWGG	1 cut(s)	737
MwoI	GCNNNNNNNGC	3 cut(s)	167, 386, 732
NciI	CCSGG	2 cut(s)	784, 785
NdeI	CATATG	1 cut(s)	586
NdeII	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
NlaIII	CATG	9 cut(s)	98, 289, 380, 426, 466, 500, 524, 532, 825
NlaIV	GGNNCC	2 cut(s)	348, 840
NmuCI	GTSAC	1 cut(s)	505
NspI	RCATGY	2 cut(s)	380, 426
PaeI	GCATGC	1 cut(s)	380
PaqCI	CACCTGC	1 cut(s)	358
PceI	AGGCCT	1 cut(s)	470
PfeI	GAWTC	1 cut(s)	431
PkrI	GCNGC	9 cut(s)	169, 201, 382, 385, 388, 406, 409, 592, 862
Psp6I	CCWGG	1 cut(s)	735
PspFI	CCCAGC	1 cut(s)	555
PspGI	CCWGG	1 cut(s)	735
PspN4I	GGNNCC	2 cut(s)	348, 840
PspPI	GGNCC	2 cut(s)	825, 988
PstI	CTGCAG	1 cut(s)	172
PsuI	RGATCY	3 cut(s)	107, 623, 661
RsaI	GTAC	2 cut(s)	494, 598
RsaNI	GTAC	2 cut(s)	493, 597
SaqAI	TTAA	1 cut(s)	687
SatI	GCNGC	9 cut(s)	168, 200, 381, 384, 387, 405, 408, 591, 861
Sau3AI	GATC	8 cut(s)	107, 172, 282, 454, 604, 623, 661, 964
Sau96I	GGNCC	2 cut(s)	825, 988
ScaI	AGTACT	1 cut(s)	598
ScrFI	CCNGG	3 cut(s)	737, 784, 785
SduI	GDGCHC	1 cut(s)	349
SfaNI	GCATC	3 cut(s)	123, 471, 872
SfcI	CTRYAG	2 cut(s)	168, 867
SinI	GGWCC	1 cut(s)	988
SmaI	CCCGGG	1 cut(s)	785
SpeI	ACTAGT	1 cut(s)	179
SphI	GCATGC	1 cut(s)	380
Sse9I	AATT	7 cut(s)	70, 151, 328, 411, 791, 814, 974
SseBI	AGGCCT	1 cut(s)	470
SsiI	CCGC	3 cut(s)	380, 386, 404
SspMI	CTAG	5 cut(s)	180, 189, 366, 594, 857
StuI	AGGCCT	1 cut(s)	470
StyD4I	CCNGG	3 cut(s)	735, 782, 783
StyI	CCWWGG	1 cut(s)	774
TaaI	ACNGT	2 cut(s)	92, 880
TasI	AATT	7 cut(s)	70, 151, 328, 411, 791, 814, 974
TatI	WGTACW	1 cut(s)	596
TauI	GCSGC	3 cut(s)	383, 389, 407
TfiI	GAWTC	1 cut(s)	431
Tru1I	TTAA	1 cut(s)	687
Tru9I	TTAA	1 cut(s)	687
TseFI	GTSAC	1 cut(s)	505
TseI	GCWGC	6 cut(s)	167, 199, 383, 407, 590, 860
Tsp45I	GTSAC	1 cut(s)	505
TspDTI	ATGAA	6 cut(s)	287, 451, 513, 537, 573, 892
TspGWI	ACGGA	2 cut(s)	562, 777
TspMI	CCCGGG	1 cut(s)	783
VpaK11BI	GGWCC	1 cut(s)	988
XapI	RAATTY	1 cut(s)	151
XceI	RCATGY	2 cut(s)	380, 426
XmaI	CCCGGG	1 cut(s)	783
XspI	CTAG	5 cut(s)	180, 189, 366, 594, 857
ZrmI	AGTACT	1 cut(s)	598

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