Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0003749

Physical Location & Seq

Genomic Coordinates Reverse (-)

5199085 .. 5200063

Gene Structure 979 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG071900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGGGCACCATAGTTCTTTCTTTTTATGCTAGGAGTTGTTATCTAGCTGAAGATCTCTGTAGGCACACTGGTACTCGTCTATTCGAAGTGGTAAGATTCCTTCCAGAGTATGGGGGTGCAATACCAAAGAGATCAGAAGGGGGCGCATTTCAGGTTGAATCAAAAGTAGTCTGTCGAGCTCCTAGTCAATCAAGACATCGGTTACATACAGATGATGAATCTGATATCCCATCTTCACTAATGCAATATCATGACCAGTCTGATAATGTTGGTTGTACGCCAAGAAACTCACCAGTCGGTCATGACCACACACTTCCGCATAGAGAAATACATGAAAATGGTAAGCCAAGCACACCCTTGAGTGGGAAAAAAATTTTAGTTGCCGAGGATGATGAGCTTCTGAGCTATTTGGCTATGAGGATTCTGTTAAAGGTGGGAGCAACTATGAAGCTTTGTGAAAATGGAGGAGAAGCTCCAAATGTAATTCGCATAGATCTACTCAACCAAGGGAAACATGAATATGATTTTGTACTAATGGACTGTCAGATGCCAGAAATTGATGGATTTGAGGCAACAAGGGAGATAAGGAAGGTGGAGAAAACTCACCATGTCCGCATTTCGATCATTGCATTAATAGCTCATACACCAGGCGAGGAAACAAGAAGCATGTTGGAGGCTGGCATGGATGACTATTTGAGCAAACCCTTGGAAAAGGGTCGTCTACTTGAAACAATGGGTAGACTGGTAGGGAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004672 GO:0004673 GO:0005488 GO:0005515 GO:0005575 GO:0005623 GO:0005886 GO:0005911 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008152 GO:0009506 GO:0009553 GO:0009719 GO:0009725 GO:0009735 GO:0009736 GO:0009755 GO:0009888 GO:0009987 GO:0010033 GO:0010087 GO:0016020 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0016775 GO:0018106 GO:0018193 GO:0018202 GO:0019538 GO:0023052 GO:0030054 GO:0032501 GO:0032502 GO:0032870 GO:0036211 GO:0040007 GO:0042221 GO:0042802 GO:0042803 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044464 GO:0046983 GO:0048229 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0055044 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0071704 GO:0071944 GO:0080117 GO:0080190 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HATPase_c HisKA Response_reg

Protein Analysis

251

Amino Acids

28.12

Weight (kDa)

6.06

Isoelectric Point (pI)

38.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Response_reg	PF00072	125 - 244	3.6e-18	Response regulator receiver 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

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Orthologous Genes (Group: OG0003749)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G47820 AT1G47820
fragaria_vesca	FvH4_3g25600
rosa_chinensis	RchiOBHm_Chr6g0250611 RchiOBHm_Chr6g0250631 RchiOBHm_Chr6g0250921
rosa_laevigata	RLG00000015515
rosa_multiflora	Rmu_co8191434.1_g000001 Rmu_co8320535.1_g000001 Rmu_sc0003835.1_g000011 Rmu_sc0003953.1_g000001 Rmu_sc0028124.1_g000001
rosa_roxburghii	Rroxscaffold_3G00236710
rosa_rugosa	Rorug01G0235800 Rorug01G0235900 Rorug02G0221600
rosa_samantha	Rh2AG097000 Rh2AG330200 Rh3AG071000 Rh3AG316400 Rh3BG073300 Rh3CG071900 Rh6AG006400 Rh6AG006500 Rh6AG007400 Rh6AG007500 Rh6BG003600 Rh6BG004000 Rh6CG004600 Rh6CG004800 Rh6CG005100 Rh6DG004600 Rh6DG005400 Rh7CG471800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	5
AccB7I	CCANNNNNTGG	1 cut(s)	110
AccI	GTMKAC	2 cut(s)	721, 739
AciI	CCGC	2 cut(s)	317, 613
AcsI	RAATTY	1 cut(s)	372
AcuI	CTGAAG	1 cut(s)	69
AfaI	GTAC	3 cut(s)	73, 277, 531
AfiI	CCNNNNNNNGG	3 cut(s)	110, 362, 363
AgsI	TTSAA	2 cut(s)	158, 728
AjnI	CCWGG	1 cut(s)	646
AluBI	AGCT	7 cut(s)	47, 179, 397, 405, 451, 473, 638
AluI	AGCT	7 cut(s)	47, 179, 397, 405, 451, 473, 638
Alw21I	GWGCWC	1 cut(s)	181
ApoI	RAATTY	1 cut(s)	372
AseI	ATTAAT	1 cut(s)	632
AspLEI	GCGC	1 cut(s)	146
AsuHPI	GGTGA	2 cut(s)	282, 596
AsuII	TTCGAA	1 cut(s)	84
BaeGI	GKGCMC	1 cut(s)	8
BanI	GGYRCC	1 cut(s)	5
BanII	GRGCYC	1 cut(s)	181
BarI	GAAGNNNNNNTAC	2 cut(s)	84, 116
Bbv12I	GWGCWC	1 cut(s)	181
BccI	CCATC	2 cut(s)	238, 554
BciT130I	CCWGG	1 cut(s)	648
BfaI	CTAG	3 cut(s)	30, 44, 183
BfmI	CTRYAG	1 cut(s)	58
BglII	AGATCT	2 cut(s)	52, 493
Bme1390I	CCNGG	1 cut(s)	648
BmiI	GGNNCC	1 cut(s)	7
BmrFI	CCNGG	1 cut(s)	648
BmsI	GCATC	1 cut(s)	537
Bpu14I	TTCGAA	1 cut(s)	84
BpuEI	CTTGAG	1 cut(s)	379
BsaJI	CCNNGG	3 cut(s)	384, 505, 705
Bsc4I	CCNNNNNNNGG	3 cut(s)	110, 362, 363
Bse1I	ACTGG	4 cut(s)	73, 256, 293, 747
Bse3DI	GCAATG	1 cut(s)	624
BseBI	CCWGG	1 cut(s)	648
BseDI	CCNNGG	3 cut(s)	384, 505, 705
BseGI	GGATG	2 cut(s)	394, 691
BseLI	CCNNNNNNNGG	3 cut(s)	110, 362, 363
BseMI	GCAATG	1 cut(s)	624
BseMII	CTCAG	1 cut(s)	392
BseNI	ACTGG	4 cut(s)	73, 256, 293, 747
BseRI	GAGGAG	1 cut(s)	480
BseSI	GKGCMC	1 cut(s)	8
BshNI	GGYRCC	1 cut(s)	5
BsiHKAI	GWGCWC	1 cut(s)	181
BslI	CCNNNNNNNGG	3 cut(s)	110, 362, 363
Bsp119I	TTCGAA	1 cut(s)	84
Bsp1286I	GDGCHC	2 cut(s)	8, 181
Bsp143I	GATC	4 cut(s)	52, 131, 493, 621
BspACI	CCGC	2 cut(s)	317, 613
BspCNI	CTCAG	1 cut(s)	393
BspHI	TCATGA	2 cut(s)	250, 301
BspLI	GGNNCC	1 cut(s)	7
BspT104I	TTCGAA	1 cut(s)	84
BspT107I	GGYRCC	1 cut(s)	5
BsrDI	GCAATG	1 cut(s)	624
BsrI	ACTGG	4 cut(s)	73, 256, 293, 747
BssECI	CCNNGG	3 cut(s)	384, 505, 705
BssMI	GATC	4 cut(s)	52, 131, 493, 621
BssT1I	CCWWGG	2 cut(s)	505, 705
Bst2UI	CCWGG	1 cut(s)	648
Bst4CI	ACNGT	1 cut(s)	542
BstBI	TTCGAA	1 cut(s)	84
BstC8I	GCNNGC	1 cut(s)	679
BstDEI	CTNAG	1 cut(s)	401
BstF5I	GGATG	2 cut(s)	394, 691
BstHHI	GCGC	1 cut(s)	146
BstKTI	GATC	4 cut(s)	55, 134, 496, 624
BstMBI	GATC	4 cut(s)	52, 131, 493, 621
BstMWI	GCNNNNNNNGC	1 cut(s)	635
BstNI	CCWGG	1 cut(s)	648
BstNSI	RCATGY	1 cut(s)	670
BstSCI	CCNGG	1 cut(s)	646
BstSFI	CTRYAG	1 cut(s)	58
BstSLI	GKGCMC	1 cut(s)	8
BstX2I	RGATCY	2 cut(s)	52, 493
BstYI	RGATCY	2 cut(s)	52, 493
BtsCI	GGATG	2 cut(s)	394, 691
BtsIMutI	CAGTG	1 cut(s)	66
Cac8I	GCNNGC	1 cut(s)	679
CciI	TCATGA	2 cut(s)	250, 301
CfoI	GCGC	1 cut(s)	146
Csp6I	GTAC	3 cut(s)	72, 276, 530
CviAII	CATG	7 cut(s)	251, 302, 332, 515, 608, 667, 682
CviQI	GTAC	3 cut(s)	72, 276, 530
DdeI	CTNAG	1 cut(s)	401
DpnI	GATC	4 cut(s)	54, 133, 495, 623
DpnII	GATC	4 cut(s)	52, 131, 493, 621
Ecl136II	GAGCTC	1 cut(s)	179
Eco130I	CCWWGG	2 cut(s)	505, 705
Eco24I	GRGCYC	1 cut(s)	181
Eco32I	GATATC	1 cut(s)	226
Eco53kI	GAGCTC	1 cut(s)	179
Eco57I	CTGAAG	1 cut(s)	69
EcoICRI	GAGCTC	1 cut(s)	179
EcoRII	CCWGG	1 cut(s)	646
EcoRV	GATATC	1 cut(s)	226
EcoT14I	CCWWGG	2 cut(s)	505, 705
EcoT38I	GRGCYC	1 cut(s)	181
ErhI	CCWWGG	2 cut(s)	505, 705
FaeI	CATG	7 cut(s)	254, 305, 335, 518, 611, 670, 685
FatI	CATG	7 cut(s)	250, 301, 331, 514, 607, 666, 681
FblI	GTMKAC	2 cut(s)	721, 739
FokI	GGATG	2 cut(s)	401, 698
FriOI	GRGCYC	1 cut(s)	181
FspBI	CTAG	3 cut(s)	30, 44, 183
GlaI	GCGC	1 cut(s)	145
HhaI	GCGC	1 cut(s)	146
Hin1II	CATG	7 cut(s)	254, 305, 335, 518, 611, 670, 685
Hin6I	GCGC	1 cut(s)	144
HinP1I	GCGC	1 cut(s)	144
HindIII	AAGCTT	1 cut(s)	449
HinfI	GANTC	4 cut(s)	96, 158, 218, 421
HphI	GGTGA	2 cut(s)	282, 596
Hpy166II	GTNNAC	2 cut(s)	722, 740
Hpy188I	TCNGA	5 cut(s)	136, 223, 262, 402, 546
Hpy188III	TCNNGA	4 cut(s)	104, 192, 251, 302
Hpy8I	GTNNAC	2 cut(s)	722, 740
HpyAV	CCTTC	3 cut(s)	110, 131, 583
HpyCH4III	ACNGT	1 cut(s)	542
HpyCH4V	TGCA	3 cut(s)	119, 244, 629
HpyF10VI	GCNNNNNNNGC	1 cut(s)	635
HpyF3I	CTNAG	1 cut(s)	401
Hsp92II	CATG	7 cut(s)	254, 305, 335, 518, 611, 670, 685
HspAI	GCGC	1 cut(s)	144
Kzo9I	GATC	4 cut(s)	52, 131, 493, 621
LmnI	GCTCC	3 cut(s)	184, 437, 478
LweI	GCATC	1 cut(s)	537
MaeI	CTAG	3 cut(s)	30, 44, 183
MaeIII	GTNAC	1 cut(s)	201
MalI	GATC	4 cut(s)	54, 133, 495, 623
MboI	GATC	4 cut(s)	52, 131, 493, 621
MboII	GAAGA	2 cut(s)	62, 225
MflI	RGATCY	2 cut(s)	52, 493
MhlI	GDGCHC	2 cut(s)	8, 181
MluCI	AATT	3 cut(s)	372, 483, 555
MmeI	TCCRAC	1 cut(s)	651
MnlI	CCTC	6 cut(s)	379, 411, 458, 562, 646, 667
MseI	TTAA	2 cut(s)	428, 632
MslI	CAYNNNNRTG	3 cut(s)	210, 336, 519
MspR9I	CCNGG	1 cut(s)	648
MvaI	CCWGG	1 cut(s)	648
MwoI	GCNNNNNNNGC	1 cut(s)	635
NdeII	GATC	4 cut(s)	52, 131, 493, 621
NlaIII	CATG	7 cut(s)	254, 305, 335, 518, 611, 670, 685
NlaIV	GGNNCC	1 cut(s)	7
NmeAIII	GCCGAG	1 cut(s)	409
NspI	RCATGY	1 cut(s)	670
NspV	TTCGAA	1 cut(s)	84
PagI	TCATGA	2 cut(s)	250, 301
PfeI	GAWTC	4 cut(s)	96, 158, 218, 421
PflMI	CCANNNNNTGG	1 cut(s)	110
PshBI	ATTAAT	1 cut(s)	632
Psp124BI	GAGCTC	1 cut(s)	181
Psp6I	CCWGG	1 cut(s)	646
PspGI	CCWGG	1 cut(s)	646
PspN4I	GGNNCC	1 cut(s)	7
PsuI	RGATCY	2 cut(s)	52, 493
RsaI	GTAC	3 cut(s)	73, 277, 531
RsaNI	GTAC	3 cut(s)	72, 276, 530
RseI	CAYNNNNRTG	3 cut(s)	210, 336, 519
SacI	GAGCTC	1 cut(s)	181
SaqAI	TTAA	2 cut(s)	428, 632
Sau3AI	GATC	4 cut(s)	52, 131, 493, 621
ScrFI	CCNGG	1 cut(s)	648
SduI	GDGCHC	2 cut(s)	8, 181
SfaNI	GCATC	1 cut(s)	537
SfcI	CTRYAG	1 cut(s)	58
SfuI	TTCGAA	1 cut(s)	84
SmiMI	CAYNNNNRTG	3 cut(s)	210, 336, 519
SmlI	CTYRAG	1 cut(s)	358
SmoI	CTYRAG	1 cut(s)	358
Sse9I	AATT	3 cut(s)	372, 483, 555
SsiI	CCGC	2 cut(s)	317, 613
SspMI	CTAG	3 cut(s)	30, 44, 183
SstI	GAGCTC	1 cut(s)	181
StyD4I	CCNGG	1 cut(s)	646
StyI	CCWWGG	2 cut(s)	505, 705
TaaI	ACNGT	1 cut(s)	542
TaqI	TCGA	3 cut(s)	84, 175, 620
TaqII	GACCGA	1 cut(s)	287
TasI	AATT	3 cut(s)	372, 483, 555
TatI	WGTACW	1 cut(s)	529
TfiI	GAWTC	4 cut(s)	96, 158, 218, 421
Tru1I	TTAA	2 cut(s)	428, 632
Tru9I	TTAA	2 cut(s)	428, 632
TscAI	CASTG	1 cut(s)	73
TspDTI	ATGAA	4 cut(s)	231, 348, 461, 531
TspRI	CASTG	1 cut(s)	73
Van91I	CCANNNNNTGG	1 cut(s)	110
VspI	ATTAAT	1 cut(s)	632
XapI	RAATTY	1 cut(s)	372
XceI	RCATGY	1 cut(s)	670
XmiI	GTMKAC	2 cut(s)	721, 739
XspI	CTAG	3 cut(s)	30, 44, 183

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