Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0001859

Physical Location & Seq

Genomic Coordinates Reverse (-)

5932116 .. 5935785

Gene Structure 3670 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0076100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGATGATTTTTACAGGCTAAACCCTATGAATATAATATCAAGCTCATCGGAGAATGTGAATCAGGTTGAAAATGATACTAGGAATACTGCTACTTGTGGTGGTGCTGGTTATCATGGTGGTCCATTAATACTAAGTGACGGTAACCTCAACCTCAACATGCTCCAATTTGAAACGGATCAGAGAATGAACCAGCTGATTAAGACCCAGATAGCCAATCACCCTCGTTACCCAGATTTGGTTTCTGCTTACATAGATTGCCAAAAGGTTGGAGCTCCACCAGAGATGAAAAGCCTACTTGACGAAATAGGGCGGCTAAGCCTCCCCATAAGCACTTGCAGGAGTGAGATAGGAGCTGATCCAGAACTAGATGAGTTCATGGACTCATACTGTGGGATTCTTCATACATACAAGGAAGAGCTTTCTAAACCGGTTGATGAAGCCACCGCATTCTTGAGCAACATTGAATTGCAGCTTAGCAACCTCTGCAAAGGCACATTTCAGAAACCCAACTCGGACTATCATTCAACTGATGAAGCAGTTGGAAGTTCAGAAGAGGACTTTAGTTATGGGGAGGCGGAAGCAGCCGAGGGCCAAGAAATCTCAGCGTTTCGTGCTTGTGATAGGGAGCTTAAAGATATGCTGCTGCATAAGTACAGTGGCTACCTCAGCAAGCTGAAGAAGGACTTCTTAAAGACAAGAAAGAAAGGAAAGCTTCCGAAGGATGCTAGGTCTGCACTATTGGACTGGTGGAACACCCACTATAGATGGCCATATCCTACGGAAGAGGAGAAAATGCAACTATCTGTGGCAACTGGTCTGGACCAAAGGCAGATAAACAATTGGTTCATAAACCAAAGAAAGAGGCACTGGAAGCCATCTGAAGACATGAAGTTCGCTCTCATGGAGAATGTTAGTGGTAGCATCAATGGCGAAGGAGGACCCAGTATGCTATTTGACACTGGATTCGGAAACGATGATATCATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0001101 GO:0003674 GO:0003824 GO:0004033 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006970 GO:0008106 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009507 GO:0009536 GO:0009628 GO:0009651 GO:0010035 GO:0016229 GO:0016491 GO:0016614 GO:0016616 GO:0036094 GO:0042221 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0048037 GO:0050661 GO:0050662 GO:0050896 GO:0055114 GO:0070401 GO:0097159 GO:1901265 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko00010 ko00040 ko00561 ko00930 ko01100 ko01110 ko01120 ko01130 ko01220 map00010 map00040 map00561 map00930 map01100 map01110 map01120 map01130 map01220

Pfam Domains

Protein Families

Aldo_ket_red

Protein Analysis

329

Amino Acids

37.23

Weight (kDa)

4.92

Isoelectric Point (pI)

36.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	67 - 105	1.7e-19	KNOX1 domain
KNOX2	PF03791	116 - 163	1.4e-22	KNOX2 domain
ELK	PF03789	210 - 231	3.8e-07	ELK domain
Homeobox_KN	PF05920	250 - 289	2.8e-18	Homeobox KN domain
Homeodomain	PF00046	258 - 290	7.5e-07	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: OG0001859)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G37770
fragaria_vesca	FvH4_6g13020 FvH4_6g13020 FvH4_6g13020 FvH4_6g13020 FvH4_6g13020 FvH4_6g13020 FvH4_6g13020 FvH4_6g13020
malus_domestica	MD12G1150200.v1.1
prunus_persica	Prupe.6G094300_v2.0.a1 Prupe.6G261900_v2.0.a1
pyrus_communis	pycom04g12320 pycom12g14390 pycom12g14400
rosa_chinensis	RchiOBHm_Chr3g0465151 RchiOBHm_Chr3g0465231 RchiOBHm_Chr3g0465271 RchiOBHm_Chr3g0465311
rosa_laevigata	RLG00000024648 RLG00000024651 RLG00000024653
rosa_multiflora	Rmu_co8067008.1_g000001 Rmu_co8210356.1_g000001 Rmu_sc0003386.1_g000008 Rmu_sc0003386.1_g000010 Rmu_sc0003492.1_g000019 Rmu_sc0018026.1_g000002 Rmu_sc0021566.1_g000001
rosa_roxburghii	Rroxscaffold_6G00415190 Rroxscaffold_6G00415200
rosa_rugosa	Rorug03G0075800 Rorug03G0075900 Rorug03G0076000 Rorug03G0076100 Rorug03G0076200 Rorug03G0076200
rosa_samantha	Rh3BG139500 Rh3BG140100 Rh3BG140500 Rh3DG140800 Rh3DG141600
rosa_wichuraiana	Rw3G011420 Rw3G011430 Rw3G011470 Rw3G011490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	313, 447, 578
AclWI	GGATC	2 cut(s)	186, 353
AcoI	YGGCCR	1 cut(s)	770
AcuI	CTGAAG	2 cut(s)	698, 903
AfaI	GTAC	1 cut(s)	656
AfiI	CCNNNNNNNGG	1 cut(s)	238
AgeI	ACCGGT	1 cut(s)	430
AgsI	TTSAA	4 cut(s)	71, 173, 467, 528
AluBI	AGCT	9 cut(s)	45, 196, 275, 356, 421, 475, 631, 676, 715
AluI	AGCT	9 cut(s)	45, 196, 275, 356, 421, 475, 631, 676, 715
Alw21I	GWGCWC	1 cut(s)	277
AlwI	GGATC	2 cut(s)	186, 353
AoxI	GGCC	2 cut(s)	592, 770
ApeKI	GCWGC	4 cut(s)	472, 584, 643, 646
ArsI	GACNNNNNNTTYG	4 cut(s)	878, 910, 950, 982
AseI	ATTAAT	1 cut(s)	128
AsiGI	ACCGGT	1 cut(s)	430
Asp700I	GAANNNNTTC	1 cut(s)	686
AspS9I	GGNCC	4 cut(s)	122, 592, 823, 941
AsuHPI	GGTGA	1 cut(s)	212
AvaII	GGWCC	3 cut(s)	122, 823, 941
BalI	TGGCCA	1 cut(s)	772
BanII	GRGCYC	1 cut(s)	277
BbsI	GAAGAC	1 cut(s)	891
Bbv12I	GWGCWC	1 cut(s)	277
BbvCI	CCTCAGC	1 cut(s)	668
BbvI	GCAGC	4 cut(s)	484, 596, 630, 633
BccI	CCATC	2 cut(s)	762, 886
BfaI	CTAG	3 cut(s)	81, 368, 729
BfmI	CTRYAG	1 cut(s)	763
BisI	GCNGC	5 cut(s)	314, 473, 585, 644, 647
BlpI	GCTNAGC	2 cut(s)	317, 476
BlsI	GCNGC	5 cut(s)	315, 474, 586, 645, 648
Bme18I	GGWCC	3 cut(s)	122, 823, 941
BmgT120I	GGNCC	4 cut(s)	122, 592, 823, 941
BmiI	GGNNCC	1 cut(s)	943
BmrI	ACTGGG	1 cut(s)	939
BmsI	GCATC	2 cut(s)	715, 933
BmuI	ACTGGG	1 cut(s)	939
BpiI	GAAGAC	1 cut(s)	891
Bpu10I	CCTNAGC	1 cut(s)	668
Bpu1102I	GCTNAGC	2 cut(s)	317, 476
BpuEI	CTTGAG	1 cut(s)	475
BsaJI	CCNNGG	1 cut(s)	588
BsaWI	WCCGGW	1 cut(s)	430
Bsc4I	CCNNNNNNNGG	1 cut(s)	238
Bse118I	RCCGGY	1 cut(s)	430
Bse1I	ACTGG	5 cut(s)	752, 820, 875, 945, 967
BseDI	CCNNGG	1 cut(s)	588
BseGI	GGATG	2 cut(s)	10, 730
BseLI	CCNNNNNNNGG	1 cut(s)	238
BseMII	CTCAG	2 cut(s)	618, 682
BseNI	ACTGG	5 cut(s)	752, 820, 875, 945, 967
BseRI	GAGGAG	1 cut(s)	803
BseXI	GCAGC	4 cut(s)	484, 596, 630, 633
BsgI	GTGCAG	1 cut(s)	720
BshFI	GGCC	2 cut(s)	594, 772
BshTI	ACCGGT	1 cut(s)	430
BsiHKAI	GWGCWC	1 cut(s)	277
BsiSI	CCGG	1 cut(s)	431
BslI	CCNNNNNNNGG	1 cut(s)	238
BsmI	GAATGC	1 cut(s)	449
BsnI	GGCC	2 cut(s)	594, 772
Bsp1286I	GDGCHC	1 cut(s)	277
Bsp143I	GATC	2 cut(s)	178, 358
Bsp1720I	GCTNAGC	2 cut(s)	317, 476
BspACI	CCGC	3 cut(s)	313, 447, 578
BspANI	GGCC	2 cut(s)	594, 772
BspCNI	CTCAG	2 cut(s)	617, 681
BspLI	GGNNCC	1 cut(s)	943
BspPI	GGATC	2 cut(s)	186, 353
BspQI	GCTCTTC	1 cut(s)	411
BsrFI	RCCGGY	1 cut(s)	430
BsrI	ACTGG	5 cut(s)	752, 820, 875, 945, 967
BssAI	RCCGGY	1 cut(s)	430
BssECI	CCNNGG	1 cut(s)	588
BssMI	GATC	2 cut(s)	178, 358
Bst4CI	ACNGT	3 cut(s)	143, 392, 659
Bst6I	CTCTTC	3 cut(s)	411, 549, 780
BstAPI	GCANNNNNTGC	1 cut(s)	486
BstC8I	GCNNGC	1 cut(s)	674
BstDEI	CTNAG	5 cut(s)	134, 317, 476, 604, 668
BstEII	GGTNACC	1 cut(s)	143
BstF5I	GGATG	2 cut(s)	10, 730
BstKTI	GATC	2 cut(s)	181, 361
BstMBI	GATC	2 cut(s)	178, 358
BstMWI	GCNNNNNNNGC	7 cut(s)	486, 584, 614, 669, 734, 874, 930
BstNSI	RCATGY	1 cut(s)	163
BstPI	GGTNACC	1 cut(s)	143
BstSFI	CTRYAG	1 cut(s)	763
BstV1I	GCAGC	4 cut(s)	484, 596, 630, 633
BstV2I	GAAGAC	1 cut(s)	891
BstXI	CCANNNNNNTGG	1 cut(s)	269
BsuRI	GGCC	2 cut(s)	594, 772
BtsCI	GGATG	2 cut(s)	10, 730
BtsIMutI	CAGTG	3 cut(s)	664, 868, 960
Cac8I	GCNNGC	1 cut(s)	674
Cfr10I	RCCGGY	1 cut(s)	430
Cfr13I	GGNCC	4 cut(s)	122, 592, 823, 941
Csp6I	GTAC	1 cut(s)	655
CspAI	ACCGGT	1 cut(s)	430
CviAII	CATG	6 cut(s)	116, 160, 379, 889, 904, 985
CviQI	GTAC	1 cut(s)	655
DdeI	CTNAG	5 cut(s)	134, 317, 476, 604, 668
DpnI	GATC	2 cut(s)	180, 360
DpnII	GATC	2 cut(s)	178, 358
EaeI	YGGCCR	1 cut(s)	770
Eam1104I	CTCTTC	3 cut(s)	411, 549, 780
EarI	CTCTTC	3 cut(s)	411, 549, 780
EciI	GGCGGA	1 cut(s)	593
Ecl136II	GAGCTC	1 cut(s)	275
Eco24I	GRGCYC	1 cut(s)	277
Eco32I	GATATC	1 cut(s)	982
Eco47I	GGWCC	3 cut(s)	122, 823, 941
Eco53kI	GAGCTC	1 cut(s)	275
Eco57I	CTGAAG	2 cut(s)	698, 903
Eco91I	GGTNACC	1 cut(s)	143
EcoICRI	GAGCTC	1 cut(s)	275
EcoO109I	RGGNCCY	1 cut(s)	941
EcoO65I	GGTNACC	1 cut(s)	143
EcoRV	GATATC	1 cut(s)	982
EcoT38I	GRGCYC	1 cut(s)	277
FaeI	CATG	6 cut(s)	119, 163, 382, 892, 907, 988
FalI	AAGNNNNNCTT	6 cut(s)	671, 703, 674, 706, 699, 731
FatI	CATG	6 cut(s)	115, 159, 378, 888, 903, 984
Fnu4HI	GCNGC	5 cut(s)	314, 473, 585, 644, 647
FokI	GGATG	2 cut(s)	17, 737
FriOI	GRGCYC	1 cut(s)	277
Fsp4HI	GCNGC	5 cut(s)	314, 473, 585, 644, 647
FspBI	CTAG	3 cut(s)	81, 368, 729
GluI	GCNGC	5 cut(s)	314, 473, 585, 644, 647
HaeIII	GGCC	2 cut(s)	594, 772
HapII	CCGG	1 cut(s)	431
Hin1II	CATG	6 cut(s)	119, 163, 382, 892, 907, 988
HindIII	AAGCTT	1 cut(s)	713
HinfI	GANTC	4 cut(s)	61, 383, 397, 966
HpaII	CCGG	1 cut(s)	431
HphI	GGTGA	1 cut(s)	212
Hpy188I	TCNGA	8 cut(s)	52, 183, 504, 517, 553, 720, 883, 971
Hpy188III	TCNNGA	3 cut(s)	362, 454, 821
HpyAV	CCTTC	3 cut(s)	676, 715, 929
HpyCH4III	ACNGT	3 cut(s)	143, 392, 659
HpyCH4V	TGCA	6 cut(s)	339, 472, 489, 649, 737, 799
HpyF10VI	GCNNNNNNNGC	7 cut(s)	486, 584, 614, 669, 734, 874, 930
HpyF3I	CTNAG	5 cut(s)	134, 317, 476, 604, 668
Hsp92II	CATG	6 cut(s)	119, 163, 382, 892, 907, 988
Kzo9I	GATC	2 cut(s)	178, 358
LguI	GCTCTTC	1 cut(s)	411
LmnI	GCTCC	5 cut(s)	168, 272, 280, 353, 628
Lsp1109I	GCAGC	4 cut(s)	484, 596, 630, 633
LweI	GCATC	2 cut(s)	715, 933
MaeI	CTAG	3 cut(s)	81, 368, 729
MaeIII	GTNAC	3 cut(s)	137, 143, 227
MalI	GATC	2 cut(s)	180, 360
MboI	GATC	2 cut(s)	178, 358
MboII	GAAGA	6 cut(s)	392, 428, 566, 691, 797, 896
MfeI	CAATTG	1 cut(s)	841
MhlI	GDGCHC	1 cut(s)	277
MlsI	TGGCCA	1 cut(s)	772
MluCI	AATT	3 cut(s)	167, 467, 841
MluNI	TGGCCA	1 cut(s)	772
MlyI	GAGTC	1 cut(s)	377
MmeI	TCCRAC	2 cut(s)	250, 523
Mox20I	TGGCCA	1 cut(s)	772
MroXI	GAANNNNTTC	1 cut(s)	686
MscI	TGGCCA	1 cut(s)	772
MseI	TTAA	4 cut(s)	128, 201, 633, 692
Msp20I	TGGCCA	1 cut(s)	772
MspA1I	CMGCKG	1 cut(s)	196
MspI	CCGG	1 cut(s)	431
MunI	CAATTG	1 cut(s)	841
Mva1269I	GAATGC	1 cut(s)	449
MwoI	GCNNNNNNNGC	7 cut(s)	486, 584, 614, 669, 734, 874, 930
NdeII	GATC	2 cut(s)	178, 358
NlaIII	CATG	6 cut(s)	119, 163, 382, 892, 907, 988
NlaIV	GGNNCC	1 cut(s)	943
NmeAIII	GCCGAG	1 cut(s)	613
NmuCI	GTSAC	1 cut(s)	137
NspI	RCATGY	1 cut(s)	163
PciSI	GCTCTTC	1 cut(s)	411
PctI	GAATGC	1 cut(s)	449
PdmI	GAANNNNTTC	1 cut(s)	686
PfeI	GAWTC	3 cut(s)	61, 397, 966
PinAI	ACCGGT	1 cut(s)	430
PkrI	GCNGC	5 cut(s)	315, 474, 586, 645, 648
PleI	GAGTC	1 cut(s)	377
PpsI	GAGTC	1 cut(s)	377
PpuMI	RGGWCCY	1 cut(s)	941
PshBI	ATTAAT	1 cut(s)	128
Psp124BI	GAGCTC	1 cut(s)	277
Psp5II	RGGWCCY	1 cut(s)	941
PspEI	GGTNACC	1 cut(s)	143
PspN4I	GGNNCC	1 cut(s)	943
PspPI	GGNCC	4 cut(s)	122, 592, 823, 941
PspPPI	RGGWCCY	1 cut(s)	941
PvuII	CAGCTG	1 cut(s)	196
RsaI	GTAC	1 cut(s)	656
RsaNI	GTAC	1 cut(s)	655
SacI	GAGCTC	1 cut(s)	277
SapI	GCTCTTC	1 cut(s)	411
SaqAI	TTAA	4 cut(s)	128, 201, 633, 692
SatI	GCNGC	5 cut(s)	314, 473, 585, 644, 647
Sau3AI	GATC	2 cut(s)	178, 358
Sau96I	GGNCC	4 cut(s)	122, 592, 823, 941
SchI	GAGTC	1 cut(s)	377
SduI	GDGCHC	1 cut(s)	277
SfaNI	GCATC	2 cut(s)	715, 933
SfcI	CTRYAG	1 cut(s)	763
SinI	GGWCC	3 cut(s)	122, 823, 941
SmlI	CTYRAG	1 cut(s)	454
SmoI	CTYRAG	1 cut(s)	454
Sse9I	AATT	3 cut(s)	167, 467, 841
SsiI	CCGC	3 cut(s)	313, 447, 578
SspMI	CTAG	3 cut(s)	81, 368, 729
SstI	GAGCTC	1 cut(s)	277
TaaI	ACNGT	3 cut(s)	143, 392, 659
TasI	AATT	3 cut(s)	167, 467, 841
TatI	WGTACW	1 cut(s)	654
TauI	GCSGC	1 cut(s)	316
TfiI	GAWTC	3 cut(s)	61, 397, 966
Tru1I	TTAA	4 cut(s)	128, 201, 633, 692
Tru9I	TTAA	4 cut(s)	128, 201, 633, 692
TscAI	CASTG	3 cut(s)	664, 875, 967
TseFI	GTSAC	1 cut(s)	137
TseI	GCWGC	4 cut(s)	472, 584, 643, 646
Tsp45I	GTSAC	1 cut(s)	137
TspDTI	ATGAA	9 cut(s)	44, 203, 302, 367, 392, 453, 549, 838, 905
TspGWI	ACGGA	2 cut(s)	191, 797
TspRI	CASTG	3 cut(s)	664, 875, 967
VpaK11BI	GGWCC	3 cut(s)	122, 823, 941
VspI	ATTAAT	1 cut(s)	128
XceI	RCATGY	1 cut(s)	163
XmnI	GAANNNNTTC	1 cut(s)	686
XspI	CTAG	3 cut(s)	81, 368, 729

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