Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0010170

Physical Location & Seq

Genomic Coordinates Forward (+)

45277706 .. 45279781

Gene Structure 2076 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0357400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGGCCGACCGAGTCCACCCGGGCGATTCGCCGGCTGCCCAAACGGCGCCGTTGCATGCCTCCAACGACAACAACAACAACTCTGGCCTCCCTCAGCCGGGGACCTACGTGGTCCAAATCCCCAAGGACCAAGTCTACCGCATCCCACCGCCGGAGAACGCCACCCTCTACAAGAACTACACTCGCCAAAAGCCTCGCCGCAACTGTTGCCGCGTCTGCTTCTGCTGGATCCTCGCCATCCTTGCCTCTCTCATCCTCCTCTCCGCCATCGCCGCCGCCGTCTTCTACCTCGTCGTCCGCCCCGAGTCCCCCAACTACTCCGTCCAAAAAATCGCATTCAAAGGCTTCAACTTCACCGCCGCGTCGTCGTCGTCGTCGACCATCTCGCCAGTGATCGACGTGATCGTGCGTGCGGATAACCCTAACAGGAAAATCGGGATCTACTACGAGCGAGACAGCTCGGCCAACGTGTTCTACACTCACATCCAGTTGTGTGACGGCGCTCTGCCAGCGTTTTATCAGCCGCCTAAGAACGTGACGGAGTTGAAAACGGTGCTGACGGGGAGCGGGATCAGGCTGACGAGCGCGGTGCAAAACGGGTTGGTGGAGGCGCAGAGCCAAGGCAAGGTGGCGTTACTTCTGCATGTCCGAGCCCCCGTTAGAATCAAAGTGGGGTCTCTTAAGACGTGGACGATTACCGTTAAAGTTGACTGTGATTTAACGGTGGATAAGCTGACCTCAGACGCCAAGATTGTTTCTAAAGACTGCAACTACGGTGTGGATCCTTGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0000785 GO:0000790 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005694 GO:0006139 GO:0006351 GO:0006352 GO:0006383 GO:0006384 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044454 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rbc25 SHS2_Rpb7-N

Protein Analysis

263

Amino Acids

28.81

Weight (kDa)

9.21

Isoelectric Point (pI)

34.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LEA_2	PF03168	136 - 238	7.5e-09	Late embryogenesis abundant protein

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: OG0010170)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06790 AT1G06790
fragaria_vesca	FvH4_1g22880
malus_domestica	MD08G1227600.v1.1
prunus_persica	Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.7G016800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0063451
rosa_laevigata	RLG00000022776 RLG00000035635
rosa_multiflora	Rmu_sc0016394.1_g000005
rosa_roxburghii	Rroxscaffold_1G00017270
rosa_rugosa	Rorug05G0357400
rosa_samantha	Rh5AG416500 Rh5BG431600 Rh5CG454900 Rh5DG445100
rosa_wichuraiana	Rw5G039120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	46
AccBSI	CCGCTC	1 cut(s)	567
AccI	GTMKAC	2 cut(s)	135, 377
AccII	CGCG	3 cut(s)	213, 362, 587
AclWI	GGATC	6 cut(s)	223, 236, 446, 578, 776, 789
AcoI	YGGCCR	2 cut(s)	3, 462
AcyI	GRCGYC	2 cut(s)	47, 744
AfiI	CCNNNNNNNGG	4 cut(s)	97, 98, 151, 625
AflII	CTTAAG	1 cut(s)	680
AflIII	ACRYGT	1 cut(s)	468
AgsI	TTSAA	3 cut(s)	340, 349, 547
AjiI	CACGTC	2 cut(s)	400, 687
AluBI	AGCT	2 cut(s)	459, 733
AluI	AGCT	2 cut(s)	459, 733
Alw26I	GTCTC	2 cut(s)	447, 681
AlwI	GGATC	6 cut(s)	223, 236, 446, 578, 776, 789
Ama87I	CYCGRG	2 cut(s)	19, 302
AoxI	GGCC	3 cut(s)	3, 85, 462
ApeKI	GCWGC	1 cut(s)	35
AspLEI	GCGC	4 cut(s)	49, 503, 587, 613
AspS9I	GGNCC	3 cut(s)	102, 112, 127
AsuC2I	CCSGG	3 cut(s)	20, 21, 99
AsuHPI	GGTGA	1 cut(s)	346
AvaI	CYCGRG	2 cut(s)	19, 302
AvaII	GGWCC	3 cut(s)	102, 112, 127
BamHI	GGATCC	2 cut(s)	228, 781
BanI	GGYRCC	1 cut(s)	46
BanII	GRGCYC	1 cut(s)	655
BbsI	GAAGAC	1 cut(s)	274
BbvCI	CCTCAGC	1 cut(s)	93
BbvI	GCAGC	1 cut(s)	22
BccI	CCATC	3 cut(s)	245, 275, 389
BceAI	ACGGC	4 cut(s)	34, 60, 263, 514
BcgI	CGANNNNNNTGC	2 cut(s)	571, 605
BcnI	CCSGG	3 cut(s)	20, 21, 99
BcoDI	GTCTC	2 cut(s)	447, 681
BfoI	RGCGCY	2 cut(s)	50, 504
BfrI	CTTAAG	1 cut(s)	680
BglI	GCCNNNNNGGC	1 cut(s)	44
BisI	GCNGC	7 cut(s)	36, 199, 211, 273, 276, 360, 524
BlsI	GCNGC	7 cut(s)	37, 200, 212, 274, 277, 361, 525
Bme1390I	CCNGG	3 cut(s)	20, 21, 99
Bme18I	GGWCC	3 cut(s)	102, 112, 127
BmeT110I	CYCGRG	2 cut(s)	19, 302
BmgBI	CACGTC	2 cut(s)	400, 687
BmgT120I	GGNCC	3 cut(s)	102, 112, 127
BmiI	GGNNCC	4 cut(s)	48, 103, 230, 783
BmrFI	CCNGG	3 cut(s)	20, 21, 99
BmsI	GCATC	1 cut(s)	150
BpiI	GAAGAC	1 cut(s)	274
Bpu10I	CCTNAGC	1 cut(s)	93
BpuMI	CCSGG	3 cut(s)	20, 21, 99
BsaAI	YACGTR	1 cut(s)	109
BsaHI	GRCGYC	2 cut(s)	47, 744
BsaI	GGTCTC	1 cut(s)	681
BsaJI	CCNNGG	5 cut(s)	19, 98, 123, 619, 785
Bsc4I	CCNNNNNNNGG	4 cut(s)	97, 98, 151, 625
Bse118I	RCCGGY	1 cut(s)	31
Bse1I	ACTGG	2 cut(s)	389, 487
BseDI	CCNNGG	5 cut(s)	19, 98, 123, 619, 785
BseGI	GGATG	4 cut(s)	141, 237, 252, 483
BseLI	CCNNNNNNNGG	4 cut(s)	97, 98, 151, 625
BseMII	CTCAG	2 cut(s)	107, 753
BseNI	ACTGG	2 cut(s)	389, 487
BseRI	GAGGAG	1 cut(s)	248
BseXI	GCAGC	1 cut(s)	22
Bsh1236I	CGCG	3 cut(s)	213, 362, 587
Bsh1285I	CGRYCG	1 cut(s)	10
BshFI	GGCC	3 cut(s)	5, 87, 464
BshNI	GGYRCC	1 cut(s)	46
BsiEI	CGRYCG	1 cut(s)	10
BsiHKCI	CYCGRG	2 cut(s)	19, 302
BsiSI	CCGG	4 cut(s)	20, 32, 98, 152
BslFI	GGGAC	2 cut(s)	115, 292
BslI	CCNNNNNNNGG	4 cut(s)	97, 98, 151, 625
BsmAI	GTCTC	2 cut(s)	447, 681
BsmFI	GGGAC	2 cut(s)	115, 292
BsmI	GAATGC	1 cut(s)	335
BsnI	GGCC	3 cut(s)	5, 87, 464
Bso31I	GGTCTC	1 cut(s)	681
BsoBI	CYCGRG	2 cut(s)	19, 302
Bsp1286I	GDGCHC	1 cut(s)	655
Bsp143I	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
BspANI	GGCC	3 cut(s)	5, 87, 464
BspCNI	CTCAG	2 cut(s)	106, 752
BspFNI	CGCG	3 cut(s)	213, 362, 587
BspLI	GGNNCC	4 cut(s)	48, 103, 230, 783
BspPI	GGATC	6 cut(s)	223, 236, 446, 578, 776, 789
BspT107I	GGYRCC	1 cut(s)	46
BspTI	CTTAAG	1 cut(s)	680
BspTNI	GGTCTC	1 cut(s)	681
BsrBI	CCGCTC	1 cut(s)	567
BsrFI	RCCGGY	1 cut(s)	31
BsrI	ACTGG	2 cut(s)	389, 487
BssAI	RCCGGY	1 cut(s)	31
BssECI	CCNNGG	5 cut(s)	19, 98, 123, 619, 785
BssMI	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
BssNI	GRCGYC	2 cut(s)	47, 744
BssT1I	CCWWGG	3 cut(s)	123, 619, 785
Bst4CI	ACNGT	6 cut(s)	206, 553, 700, 713, 724, 776
BstACI	GRCGYC	2 cut(s)	47, 744
BstAFI	CTTAAG	1 cut(s)	680
BstAPI	GCANNNNNTGC	1 cut(s)	207
BstBAI	YACGTR	1 cut(s)	109
BstC8I	GCNNGC	4 cut(s)	33, 57, 411, 510
BstDEI	CTNAG	3 cut(s)	93, 528, 739
BstF5I	GGATG	4 cut(s)	141, 237, 252, 483
BstFNI	CGCG	3 cut(s)	213, 362, 587
BstH2I	RGCGCY	2 cut(s)	50, 504
BstHHI	GCGC	4 cut(s)	49, 503, 587, 613
BstKTI	GATC	6 cut(s)	231, 396, 405, 441, 573, 784
BstMAI	GTCTC	2 cut(s)	447, 681
BstMBI	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
BstMCI	CGRYCG	1 cut(s)	10
BstMWI	GCNNNNNNNGC	6 cut(s)	44, 207, 216, 242, 272, 509
BstNSI	RCATGY	2 cut(s)	59, 647
BstSCI	CCNGG	3 cut(s)	18, 19, 97
BstUI	CGCG	3 cut(s)	213, 362, 587
BstV1I	GCAGC	1 cut(s)	22
BstV2I	GAAGAC	1 cut(s)	274
BstX2I	RGATCY	3 cut(s)	228, 438, 781
BstYI	RGATCY	3 cut(s)	228, 438, 781
BsuRI	GGCC	3 cut(s)	5, 87, 464
BtgZI	GCGATG	1 cut(s)	253
BtrI	CACGTC	2 cut(s)	400, 687
BtsCI	GGATG	4 cut(s)	141, 237, 252, 483
BtsIMutI	CAGTG	1 cut(s)	396
Cac8I	GCNNGC	4 cut(s)	33, 57, 411, 510
CfoI	GCGC	4 cut(s)	49, 503, 587, 613
Cfr10I	RCCGGY	1 cut(s)	31
Cfr13I	GGNCC	3 cut(s)	102, 112, 127
Cfr9I	CCCGGG	1 cut(s)	19
CseI	GACGC	3 cut(s)	202, 351, 752
CviAII	CATG	2 cut(s)	56, 644
DdeI	CTNAG	3 cut(s)	93, 528, 739
DinI	GGCGCC	1 cut(s)	48
DpnI	GATC	6 cut(s)	230, 395, 404, 440, 572, 783
DpnII	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
EaeI	YGGCCR	2 cut(s)	3, 462
EciI	GGCGGA	2 cut(s)	253, 287
Eco130I	CCWWGG	3 cut(s)	123, 619, 785
Eco24I	GRGCYC	1 cut(s)	655
Eco31I	GGTCTC	1 cut(s)	681
Eco47I	GGWCC	3 cut(s)	102, 112, 127
Eco88I	CYCGRG	2 cut(s)	19, 302
EcoO109I	RGGNCCY	1 cut(s)	102
EcoT14I	CCWWGG	3 cut(s)	123, 619, 785
EcoT38I	GRGCYC	1 cut(s)	655
EgeI	GGCGCC	1 cut(s)	48
EheI	GGCGCC	1 cut(s)	48
ErhI	CCWWGG	3 cut(s)	123, 619, 785
FaeI	CATG	2 cut(s)	59, 647
FaiI	YATR	2 cut(s)	57, 645
FaqI	GGGAC	2 cut(s)	115, 292
FatI	CATG	2 cut(s)	55, 643
FauI	CCCGC	1 cut(s)	560
FblI	GTMKAC	2 cut(s)	135, 377
Fnu4HI	GCNGC	7 cut(s)	36, 199, 211, 273, 276, 360, 524
FokI	GGATG	4 cut(s)	128, 224, 239, 470
FriOI	GRGCYC	1 cut(s)	655
Fsp4HI	GCNGC	7 cut(s)	36, 199, 211, 273, 276, 360, 524
GlaI	GCGC	4 cut(s)	48, 502, 586, 612
GluI	GCNGC	7 cut(s)	36, 199, 211, 273, 276, 360, 524
HaeII	RGCGCY	2 cut(s)	50, 504
HaeIII	GGCC	3 cut(s)	5, 87, 464
HapII	CCGG	4 cut(s)	20, 32, 98, 152
HgaI	GACGC	3 cut(s)	202, 351, 752
HhaI	GCGC	4 cut(s)	49, 503, 587, 613
Hin1I	GRCGYC	2 cut(s)	47, 744
Hin1II	CATG	2 cut(s)	59, 647
Hin6I	GCGC	4 cut(s)	47, 501, 585, 611
HinP1I	GCGC	4 cut(s)	47, 501, 585, 611
HincII	GTYRAC	2 cut(s)	378, 709
HindII	GTYRAC	2 cut(s)	378, 709
HinfI	GANTC	4 cut(s)	12, 26, 305, 663
HpaII	CCGG	4 cut(s)	20, 32, 98, 152
HphI	GGTGA	1 cut(s)	346
Hpy166II	GTNNAC	5 cut(s)	16, 136, 378, 690, 709
Hpy188I	TCNGA	2 cut(s)	650, 742
Hpy188III	TCNNGA	1 cut(s)	436
Hpy8I	GTNNAC	5 cut(s)	16, 136, 378, 690, 709
Hpy99I	CGWCG	7 cut(s)	296, 367, 370, 373, 376, 379, 401
HpyCH4III	ACNGT	6 cut(s)	206, 553, 700, 713, 724, 776
HpyCH4IV	ACGT	5 cut(s)	108, 399, 468, 534, 686
HpyCH4V	TGCA	4 cut(s)	55, 592, 643, 768
HpyF10VI	GCNNNNNNNGC	6 cut(s)	44, 207, 216, 242, 272, 509
HpyF3I	CTNAG	3 cut(s)	93, 528, 739
HpySE526I	ACGT	5 cut(s)	108, 399, 468, 534, 686
Hsp92I	GRCGYC	2 cut(s)	47, 744
Hsp92II	CATG	2 cut(s)	59, 647
HspAI	GCGC	4 cut(s)	47, 501, 585, 611
KasI	GGCGCC	1 cut(s)	46
KroI	GCCGGC	1 cut(s)	31
KroNI	GCCGGC	1 cut(s)	33
Kzo9I	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
LmnI	GCTCC	1 cut(s)	564
Lsp1109I	GCAGC	1 cut(s)	22
LweI	GCATC	1 cut(s)	150
MaeII	ACGT	5 cut(s)	108, 399, 468, 534, 686
MaeIII	GTNAC	3 cut(s)	494, 535, 633
MalI	GATC	6 cut(s)	230, 395, 404, 440, 572, 783
MbiI	CCGCTC	1 cut(s)	567
MboI	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
MboII	GAAGA	1 cut(s)	274
MflI	RGATCY	3 cut(s)	228, 438, 781
MhlI	GDGCHC	1 cut(s)	655
Mly113I	GGCGCC	1 cut(s)	47
MlyI	GAGTC	2 cut(s)	21, 314
MmeI	TCCRAC	1 cut(s)	87
MroNI	GCCGGC	1 cut(s)	31
MseI	TTAA	3 cut(s)	681, 702, 719
MspCI	CTTAAG	1 cut(s)	680
MspI	CCGG	4 cut(s)	20, 32, 98, 152
MspR9I	CCNGG	3 cut(s)	20, 21, 99
Mva1269I	GAATGC	1 cut(s)	335
MvnI	CGCG	3 cut(s)	213, 362, 587
MwoI	GCNNNNNNNGC	6 cut(s)	44, 207, 216, 242, 272, 509
NaeI	GCCGGC	1 cut(s)	33
NarI	GGCGCC	1 cut(s)	47
NciI	CCSGG	3 cut(s)	20, 21, 99
NdeII	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
NgoMIV	GCCGGC	1 cut(s)	31
NlaIII	CATG	2 cut(s)	59, 647
NlaIV	GGNNCC	4 cut(s)	48, 103, 230, 783
NmeAIII	GCCGAG	1 cut(s)	440
NmuCI	GTSAC	2 cut(s)	494, 535
NspI	RCATGY	2 cut(s)	59, 647
PaeI	GCATGC	1 cut(s)	59
PcsI	WCGNNNNNNNCGW	5 cut(s)	276, 300, 371, 374, 402
PctI	GAATGC	1 cut(s)	335
PdiI	GCCGGC	1 cut(s)	33
PfeI	GAWTC	2 cut(s)	26, 663
PflFI	GACNNNGTC	2 cut(s)	11, 131
PkrI	GCNGC	7 cut(s)	37, 200, 212, 274, 277, 361, 525
PleI	GAGTC	2 cut(s)	20, 313
PluTI	GGCGCC	1 cut(s)	50
PpsI	GAGTC	2 cut(s)	20, 313
Ppu21I	YACGTR	1 cut(s)	109
PpuMI	RGGWCCY	1 cut(s)	102
Psp5II	RGGWCCY	1 cut(s)	102
PspN4I	GGNNCC	4 cut(s)	48, 103, 230, 783
PspPI	GGNCC	3 cut(s)	102, 112, 127
PspPPI	RGGWCCY	1 cut(s)	102
PsuI	RGATCY	3 cut(s)	228, 438, 781
PsyI	GACNNNGTC	2 cut(s)	11, 131
SalI	GTCGAC	1 cut(s)	376
SaqAI	TTAA	3 cut(s)	681, 702, 719
SatI	GCNGC	7 cut(s)	36, 199, 211, 273, 276, 360, 524
Sau3AI	GATC	6 cut(s)	228, 393, 402, 438, 570, 781
Sau96I	GGNCC	3 cut(s)	102, 112, 127
SchI	GAGTC	2 cut(s)	21, 314
ScrFI	CCNGG	3 cut(s)	20, 21, 99
SduI	GDGCHC	1 cut(s)	655
SfaNI	GCATC	1 cut(s)	150
SfoI	GGCGCC	1 cut(s)	48
SinI	GGWCC	3 cut(s)	102, 112, 127
SmaI	CCCGGG	1 cut(s)	21
SmlI	CTYRAG	1 cut(s)	680
SmoI	CTYRAG	1 cut(s)	680
SphI	GCATGC	1 cut(s)	59
SspDI	GGCGCC	1 cut(s)	46
StyD4I	CCNGG	3 cut(s)	18, 19, 97
StyI	CCWWGG	3 cut(s)	123, 619, 785
TaaI	ACNGT	6 cut(s)	206, 553, 700, 713, 724, 776
TaiI	ACGT	5 cut(s)	111, 402, 471, 537, 689
TaqI	TCGA	2 cut(s)	377, 396
TaqII	GACCGA	1 cut(s)	24
TauI	GCSGC	6 cut(s)	201, 213, 275, 278, 362, 526
TfiI	GAWTC	2 cut(s)	26, 663
Tru1I	TTAA	3 cut(s)	681, 702, 719
Tru9I	TTAA	3 cut(s)	681, 702, 719
TscAI	CASTG	1 cut(s)	396
TseFI	GTSAC	2 cut(s)	494, 535
TseI	GCWGC	1 cut(s)	35
Tsp45I	GTSAC	2 cut(s)	494, 535
TspGWI	ACGGA	2 cut(s)	310, 554
TspMI	CCCGGG	1 cut(s)	19
TspRI	CASTG	1 cut(s)	396
Tth111I	GACNNNGTC	2 cut(s)	11, 131
Vha464I	CTTAAG	1 cut(s)	680
VpaK11BI	GGWCC	3 cut(s)	102, 112, 127
XceI	RCATGY	2 cut(s)	59, 647
XmaI	CCCGGG	1 cut(s)	19
XmiI	GTMKAC	2 cut(s)	135, 377

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