Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0006031

Physical Location & Seq

Genomic Coordinates Forward (+)

51982678 .. 51988394

Gene Structure 5717 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0383100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGGAGGGAAAGCGGTCAAGAGGGAGGTCACAGCCCCGTCCCCGCCATTTGCTAACAAAAATCAAAGAATTTACTCGAGCTCTTGTGAAAGATCTCAGCGACGGACGGTCACCGGAGATTCTCATCCATCGCTTCCGAAATTACTGCTCCAATCCCTCCGCAAATTGCTATTGTAGCTCTGATTTGCCGAAAGGGAAGGAGACGCTCACACTTCGTAAAGAAACCCATGTTCGTAGATTAGATGTTCTGCTTAGGGTTCTTGTAATTGTTCAGCAACTTCTGCAAGAAAACAGACATGGGTCTAAGAGAGATATCTATTACATGCACCCTTCAATATTTTCAGATCAGTCAGTTGTAGACCGTGCAATCAATGACATATGCATCCTTCTGCAGTGTAGTCGCCACAATTTGAATGTGGTGTCTGTAGGAAAGGGGTTGGTAATGGGCTGGTTAAGGTTCGCAGAGGCTGGAAACATGTTTGATTGCATAAATAGACCAAACACTGCTTACCCTGTTCCAGTTCATGTTGAAGAGGTCAAAGATATTGTTAGTGTTGCCCAGTACATACTTGTTGTGGAGAAAGAATCAGTTTTTCAACGATTGGCAAATGACCAGTTTTGTAACACAAACCACTGCATTGTCATCACTGGATGTGGATATCCTGATATTTCCACAAGAAGGTTTTTGGGGCTCCTTGTTGATACTTTACATATCCCTGTCTATTGCTTGGTAGATTGTGATCCCTACGGTTTTGACATCTTGTCCACATATCGGTTTGGTTCTCTGCAAATGGCGTATGATGCAAAATTTCTACGGGTCCCCGAGATAATCTGGCTTGGAGCCTTCCCTTTGGACTCGGAGAAGTACCATCTTGCACACCAGTGTCTCCTTCCTTTGACTGCAGAAGACAAGAGGAAAACTGAAGCCATGTTACAGAGATGCTACTTAGAAAGAGAAGTGCCACAGTGGAGATTGGAGCTACAGTTGATGCTGGAAAGAGGCGTGAAATTTGAGCTAGAAGCATTGTCTGTGCATGAACTTTCCTTTTTGTCGACCGAGTACATACCATCAAAAATTCAAGACATGTGTTATGAATGCAAATATGGATTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005802 GO:0006629 GO:0006643 GO:0006665 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009987 GO:0012505 GO:0016740 GO:0016757 GO:0016758 GO:0030148 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0045140 GO:0046467 GO:0071704 GO:0098791 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00600 ko01100 ko04071 map00600 map01100 map04071

Pfam Domains

Protein Families

PAP2_C

Protein Analysis

370

Amino Acids

42.78

Weight (kDa)

8.11

Isoelectric Point (pI)

50.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TP6A_N	PF04406	78 - 139	2.3e-21	Type IIB DNA topoisomerase
TOP6A-Spo11_Toprim	PF21180	188 - 359	1.7e-63	Topoisomerase 6 subunit A/Spo11, Toprim 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: OG0006031)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29525 AT2G29525 AT2G29525 AT2G29525 AT2G29525
fragaria_vesca	FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390 FvH4_3g37390
malus_domestica	MD03G1081100.v1.1
prunus_persica	Prupe.6G065700_v2.0.a1
pyrus_communis	pycom03g06470
rosa_chinensis	RchiOBHm_Chr5g0067241
rosa_laevigata	RLG00000035918
rosa_multiflora	Rmu_sc0000015.1_g000016
rosa_roxburghii	Rroxscaffold_1G00013890
rosa_rugosa	Rorug05G0383100 Rorug05G0383100 Rorug05G0383200
rosa_samantha	Rh5AG442600 Rh5BG459700 Rh5CG482100 Rh5DG474600
rosa_wichuraiana	Rw5G041360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	357, 1052
AciI	CCGC	3 cut(s)	13, 43, 159
AclWI	GGATC	1 cut(s)	734
AcsI	RAATTY	4 cut(s)	68, 806, 1007, 1074
AcuI	CTGAAG	1 cut(s)	942
AfaI	GTAC	3 cut(s)	563, 866, 1061
AfiI	CCNNNNNNNGG	2 cut(s)	678, 771
AflIII	ACRYGT	2 cut(s)	474, 1083
AgsI	TTSAA	5 cut(s)	333, 412, 530, 596, 1079
AhdI	GACNNNNNGTC	2 cut(s)	106, 760
AleI	CACNNNNGTG	1 cut(s)	880
AluBI	AGCT	4 cut(s)	80, 177, 979, 1015
AluI	AGCT	4 cut(s)	80, 177, 979, 1015
Alw21I	GWGCWC	1 cut(s)	82
Alw26I	GTCTC	2 cut(s)	194, 890
AlwI	GGATC	1 cut(s)	734
AlwNI	CAGNNNCTG	1 cut(s)	467
Ama87I	CYCGRG	2 cut(s)	75, 821
ApoI	RAATTY	4 cut(s)	68, 806, 1007, 1074
AspS9I	GGNCC	1 cut(s)	817
AsuHPI	GGTGA	1 cut(s)	102
AvaI	CYCGRG	2 cut(s)	75, 821
AvaII	GGWCC	1 cut(s)	817
BanII	GRGCYC	2 cut(s)	82, 693
BarI	GAAGNNNNNNTAC	2 cut(s)	915, 947
BbsI	GAAGAC	1 cut(s)	912
Bbv12I	GWGCWC	1 cut(s)	82
BccI	CCATC	3 cut(s)	135, 876, 1075
BcgI	CGANNNNNNTGC	4 cut(s)	126, 160, 380, 414
BcoDI	GTCTC	2 cut(s)	194, 890
BfaI	CTAG	1 cut(s)	1016
BfmI	CTRYAG	4 cut(s)	389, 423, 900, 980
BglII	AGATCT	1 cut(s)	91
Bme18I	GGWCC	1 cut(s)	817
BmeRI	GACNNNNNGTC	2 cut(s)	106, 760
BmeT110I	CYCGRG	2 cut(s)	75, 821
BmgT120I	GGNCC	1 cut(s)	817
BmiI	GGNNCC	4 cut(s)	692, 818, 819, 841
BmrI	ACTGGG	1 cut(s)	553
BmsI	GCATC	4 cut(s)	390, 790, 929, 978
BmuI	ACTGGG	1 cut(s)	553
BoxI	GACNNNNGTC	1 cut(s)	298
BpiI	GAAGAC	1 cut(s)	912
Bpu10I	CCTNAGC	1 cut(s)	251
BsaBI	GATNNNNATC	2 cut(s)	122, 738
BsaWI	WCCGGW	1 cut(s)	112
BsaXI	ACNNNNNCTCC	2 cut(s)	968, 998
Bsc4I	CCNNNNNNNGG	2 cut(s)	678, 771
Bse1I	ACTGG	5 cut(s)	518, 559, 613, 652, 880
Bse8I	GATNNNNATC	2 cut(s)	122, 738
BseGI	GGATG	3 cut(s)	123, 381, 656
BseJI	GATNNNNATC	2 cut(s)	122, 738
BseLI	CCNNNNNNNGG	2 cut(s)	678, 771
BseMII	CTCAG	1 cut(s)	109
BseNI	ACTGG	5 cut(s)	518, 559, 613, 652, 880
Bsh1285I	CGRYCG	1 cut(s)	1056
BsiEI	CGRYCG	1 cut(s)	1056
BsiHKAI	GWGCWC	1 cut(s)	82
BsiHKCI	CYCGRG	2 cut(s)	75, 821
BsiSI	CCGG	1 cut(s)	113
BslFI	GGGAC	2 cut(s)	24, 803
BslI	CCNNNNNNNGG	2 cut(s)	678, 771
BsmAI	GTCTC	2 cut(s)	194, 890
BsmBI	CGTCTC	1 cut(s)	194
BsmFI	GGGAC	2 cut(s)	24, 803
BsmI	GAATGC	1 cut(s)	1100
BsoBI	CYCGRG	2 cut(s)	75, 821
Bsp1286I	GDGCHC	2 cut(s)	82, 693
Bsp143I	GATC	3 cut(s)	91, 343, 739
BspACI	CCGC	3 cut(s)	13, 43, 159
BspCNI	CTCAG	1 cut(s)	108
BspLI	GGNNCC	4 cut(s)	692, 818, 819, 841
BspMAI	CTGCAG	2 cut(s)	393, 904
BspPI	GGATC	1 cut(s)	734
BsrI	ACTGG	5 cut(s)	518, 559, 613, 652, 880
BssMI	GATC	3 cut(s)	91, 343, 739
Bst4CI	ACNGT	5 cut(s)	108, 362, 749, 966, 984
Bst6I	CTCTTC	1 cut(s)	525
BstAPI	GCANNNNNTGC	1 cut(s)	280
BstDEI	CTNAG	4 cut(s)	95, 251, 303, 946
BstEII	GGTNACC	1 cut(s)	108
BstF5I	GGATG	3 cut(s)	123, 381, 656
BstKTI	GATC	3 cut(s)	94, 346, 742
BstMAI	GTCTC	2 cut(s)	194, 890
BstMBI	GATC	3 cut(s)	91, 343, 739
BstMCI	CGRYCG	1 cut(s)	1056
BstMWI	GCNNNNNNNGC	3 cut(s)	174, 280, 800
BstNSI	RCATGY	3 cut(s)	325, 478, 1087
BstPAI	GACNNNNGTC	1 cut(s)	298
BstPI	GGTNACC	1 cut(s)	108
BstSFI	CTRYAG	4 cut(s)	389, 423, 900, 980
BstV2I	GAAGAC	1 cut(s)	912
BstX2I	RGATCY	1 cut(s)	91
BstYI	RGATCY	1 cut(s)	91
BtgZI	GCGATG	1 cut(s)	113
BtsCI	GGATG	3 cut(s)	123, 381, 656
BtsI	GCAGTG	3 cut(s)	398, 501, 631
BtsIMutI	CAGTG	6 cut(s)	398, 501, 631, 645, 887, 971
CaiI	CAGNNNCTG	1 cut(s)	467
Cfr13I	GGNCC	1 cut(s)	817
CseI	GACGC	1 cut(s)	211
Csp6I	GTAC	3 cut(s)	562, 865, 1060
CviAII	CATG	8 cut(s)	227, 296, 322, 475, 524, 928, 1034, 1084
CviQI	GTAC	3 cut(s)	562, 865, 1060
DdeI	CTNAG	4 cut(s)	95, 251, 303, 946
DpnI	GATC	3 cut(s)	93, 345, 741
DpnII	GATC	3 cut(s)	91, 343, 739
DriI	GACNNNNNGTC	2 cut(s)	106, 760
Eam1104I	CTCTTC	1 cut(s)	525
Eam1105I	GACNNNNNGTC	2 cut(s)	106, 760
EarI	CTCTTC	1 cut(s)	525
Ecl136II	GAGCTC	1 cut(s)	80
Eco24I	GRGCYC	2 cut(s)	82, 693
Eco32I	GATATC	2 cut(s)	313, 659
Eco47I	GGWCC	1 cut(s)	817
Eco53kI	GAGCTC	1 cut(s)	80
Eco57I	CTGAAG	1 cut(s)	942
Eco88I	CYCGRG	2 cut(s)	75, 821
Eco91I	GGTNACC	1 cut(s)	108
EcoICRI	GAGCTC	1 cut(s)	80
EcoO109I	RGGNCCY	1 cut(s)	817
EcoO65I	GGTNACC	1 cut(s)	108
EcoRV	GATATC	2 cut(s)	313, 659
EcoT22I	ATGCAT	1 cut(s)	383
EcoT38I	GRGCYC	2 cut(s)	82, 693
Esp3I	CGTCTC	1 cut(s)	194
FaeI	CATG	8 cut(s)	230, 299, 325, 478, 527, 931, 1037, 1087
FaqI	GGGAC	2 cut(s)	24, 803
FatI	CATG	8 cut(s)	226, 295, 321, 474, 523, 927, 1033, 1083
FauI	CCCGC	1 cut(s)	50
FauNDI	CATATG	1 cut(s)	377
FblI	GTMKAC	2 cut(s)	357, 1052
FokI	GGATG	3 cut(s)	110, 368, 663
FriOI	GRGCYC	2 cut(s)	82, 693
FspBI	CTAG	1 cut(s)	1016
HapII	CCGG	1 cut(s)	113
HgaI	GACGC	1 cut(s)	211
Hin1II	CATG	8 cut(s)	230, 299, 325, 478, 527, 931, 1037, 1087
HincII	GTYRAC	1 cut(s)	1053
HindII	GTYRAC	1 cut(s)	1053
HinfI	GANTC	3 cut(s)	118, 584, 854
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	1 cut(s)	102
Hpy166II	GTNNAC	3 cut(s)	358, 765, 1053
Hpy188I	TCNGA	4 cut(s)	137, 181, 343, 859
Hpy188III	TCNNGA	3 cut(s)	18, 662, 1079
Hpy8I	GTNNAC	3 cut(s)	358, 765, 1053
Hpy99I	CGWCG	1 cut(s)	104
HpyAV	CCTTC	6 cut(s)	190, 339, 395, 672, 853, 899
HpyCH4III	ACNGT	5 cut(s)	108, 362, 749, 966, 984
HpyF10VI	GCNNNNNNNGC	3 cut(s)	174, 280, 800
HpyF3I	CTNAG	4 cut(s)	95, 251, 303, 946
Hsp92II	CATG	8 cut(s)	230, 299, 325, 478, 527, 931, 1037, 1087
KflI	GGGWCCC	1 cut(s)	817
Kzo9I	GATC	3 cut(s)	91, 343, 739
LmnI	GCTCC	4 cut(s)	152, 696, 839, 976
LweI	GCATC	4 cut(s)	390, 790, 929, 978
MaeI	CTAG	1 cut(s)	1016
MaeIII	GTNAC	4 cut(s)	27, 108, 620, 930
MalI	GATC	3 cut(s)	93, 345, 741
MboI	GATC	3 cut(s)	91, 343, 739
MboII	GAAGA	2 cut(s)	542, 917
MflI	RGATCY	1 cut(s)	91
MhlI	GDGCHC	2 cut(s)	82, 693
MluCI	AATT	8 cut(s)	68, 139, 163, 264, 406, 806, 1007, 1074
MlyI	GAGTC	1 cut(s)	848
MnlI	CCTC	7 cut(s)	14, 18, 166, 457, 526, 906, 992
Mph1103I	ATGCAT	1 cut(s)	383
MseI	TTAA	1 cut(s)	452
MslI	CAYNNNNRTG	1 cut(s)	880
MspI	CCGG	1 cut(s)	113
Mva1269I	GAATGC	1 cut(s)	1100
MwoI	GCNNNNNNNGC	3 cut(s)	174, 280, 800
NdeI	CATATG	1 cut(s)	377
NdeII	GATC	3 cut(s)	91, 343, 739
NlaIII	CATG	8 cut(s)	230, 299, 325, 478, 527, 931, 1037, 1087
NlaIV	GGNNCC	4 cut(s)	692, 818, 819, 841
NmuCI	GTSAC	2 cut(s)	27, 108
NsiI	ATGCAT	1 cut(s)	383
NspI	RCATGY	3 cut(s)	325, 478, 1087
OliI	CACNNNNGTG	1 cut(s)	880
PaeR7I	CTCGAG	1 cut(s)	75
PciI	ACATGT	2 cut(s)	474, 1083
PctI	GAATGC	1 cut(s)	1100
PfeI	GAWTC	2 cut(s)	118, 584
PleI	GAGTC	1 cut(s)	848
PpsI	GAGTC	1 cut(s)	848
PpuMI	RGGWCCY	1 cut(s)	817
PscI	ACATGT	2 cut(s)	474, 1083
PshAI	GACNNNNGTC	1 cut(s)	298
Psp124BI	GAGCTC	1 cut(s)	82
Psp5II	RGGWCCY	1 cut(s)	817
PspEI	GGTNACC	1 cut(s)	108
PspN4I	GGNNCC	4 cut(s)	692, 818, 819, 841
PspPI	GGNCC	1 cut(s)	817
PspPPI	RGGWCCY	1 cut(s)	817
PspXI	VCTCGAGB	1 cut(s)	75
PstI	CTGCAG	2 cut(s)	393, 904
PstNI	CAGNNNCTG	1 cut(s)	467
PsuI	RGATCY	1 cut(s)	91
RsaI	GTAC	3 cut(s)	563, 866, 1061
RsaNI	GTAC	3 cut(s)	562, 865, 1060
RseI	CAYNNNNRTG	1 cut(s)	880
SacI	GAGCTC	1 cut(s)	82
SalI	GTCGAC	1 cut(s)	1051
SaqAI	TTAA	1 cut(s)	452
Sau3AI	GATC	3 cut(s)	91, 343, 739
Sau96I	GGNCC	1 cut(s)	817
SchI	GAGTC	1 cut(s)	848
SduI	GDGCHC	2 cut(s)	82, 693
SetI	ASST	8 cut(s)	29, 82, 179, 458, 537, 683, 981, 1017
SfaNI	GCATC	4 cut(s)	390, 790, 929, 978
SfcI	CTRYAG	4 cut(s)	389, 423, 900, 980
Sfr274I	CTCGAG	1 cut(s)	75
SinI	GGWCC	1 cut(s)	817
SlaI	CTCGAG	1 cut(s)	75
SmiMI	CAYNNNNRTG	1 cut(s)	880
SmlI	CTYRAG	1 cut(s)	75
SmoI	CTYRAG	1 cut(s)	75
Sse9I	AATT	8 cut(s)	68, 139, 163, 264, 406, 806, 1007, 1074
SsiI	CCGC	3 cut(s)	13, 43, 159
SspI	AATATT	1 cut(s)	336
SspMI	CTAG	1 cut(s)	1016
SstI	GAGCTC	1 cut(s)	82
TaaI	ACNGT	5 cut(s)	108, 362, 749, 966, 984
TaqI	TCGA	2 cut(s)	76, 1052
TaqII	GACCGA	1 cut(s)	1070
TasI	AATT	8 cut(s)	68, 139, 163, 264, 406, 806, 1007, 1074
TatI	WGTACW	2 cut(s)	561, 1059
TfiI	GAWTC	2 cut(s)	118, 584
Tru1I	TTAA	1 cut(s)	452
Tru9I	TTAA	1 cut(s)	452
TscAI	CASTG	6 cut(s)	398, 508, 638, 652, 887, 971
TseFI	GTSAC	2 cut(s)	27, 108
Tsp45I	GTSAC	2 cut(s)	27, 108
TspDTI	ATGAA	3 cut(s)	512, 1050, 1107
TspGWI	ACGGA	1 cut(s)	117
TspRI	CASTG	6 cut(s)	398, 508, 638, 652, 887, 971
VpaK11BI	GGWCC	1 cut(s)	817
XapI	RAATTY	4 cut(s)	68, 806, 1007, 1074
XceI	RCATGY	3 cut(s)	325, 478, 1087
XhoI	CTCGAG	1 cut(s)	75
XmiI	GTMKAC	2 cut(s)	357, 1052
XspI	CTAG	1 cut(s)	1016
Zsp2I	ATGCAT	1 cut(s)	383

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