Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0003101

Physical Location & Seq

Genomic Coordinates Reverse (-)

6628921 .. 6631394

Gene Structure 2474 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0085700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1503 bp

ATGGGTTCAAACTCAAAGCTTTTTAAAGCATGTATTGAAGATAGGATCAGTGGATTGCCAGATGCAATTCTTTTCCACATTATTTCATTACTTGAAACAAGAGATGCTGTAAAGACCTGCCTATTATCTCATAGATGGAACAATGTGTGGACTTATGTTCCGAATCTAGAGGTATATGTATCTTCACCGAAATATGACTCAGATGAACATGTGCGTCAAGCCGGGTTTGTTGATCGAGTACTTCTGTTCCGTAACTTGTCAAACATTCATAAATTCAGTCTTATCTGCCTTGGAATCGAAGATTATTTTGATCGTATTGATGCTTGGGTTTGCACTGCCATTAGGCGCAATGTTGTCGAACTTAATCTTGATCTTTATACCACACCCTCAAATTCCTACGAAGGGTGTCTTAAGTTGCCTACAAGCATTTTCATTTGCAAGACACTGGTAGTTTTGAAGCTGATACTAACAGATCATGTTATTGCTATTCCTCCTAACTCGAGTTGTTTTCCAAGTCTCAAGTACCTTGATGTTCAGGTATATTATCCTGTTGCTGTCGATACAGTGGCAAAACTGTTTTCATGTTGTTTCTCTGCACTTGAAGATTTAATTATACATGGAAATCTCGGAAGACTTAGAGATGATGAAGTTTTGAACTTAACTATCTCTGCTCCTAAACTCAAAAGACTACAGATAAAATTCTGTGCTGTTCCAGAGGATGACCCTTATGCTACGGATGGAGGGTATGAGTACAAAATTTTTGTTAATGCTAATGCTCCAAACCTTGAAAAGTTCAATGTCGAGTACCTTTTGGCAAGCTATTCTTTGAAGAATGTAAAATCGCTAAGCACAGTTGAGCTTAAATTCAAAGGTCTGCATGCGAGAGAGAACCTATATTTTGCTGATCGTATACATAAGCTCTTTGCAGAAATCGTGAATGTCAAATATTTGTCAATTTTAGCTTCAATTGTGGGGGATCCTGACATTGCATATCAATATGCTATGCCTAGGTTCAATAATTTGAACCAGTTGGAGCTACGTCTTCAAACTTGCTGCTCTTGGCAATCACTGCCAATTTTTCTCAATGCGTCACCCAATCTGGAATATCTTCTGTTGGAGAATAACATCAATTGCCGTGCTCATGGCGCTCATATAGACGATCCTGATGGTGATATAGACGATCCTGATAAATATGATTATGATTCTGACAATTCTGACAATTATGATGAAGATGACTTGGTACATGAATGGTTTCCTCCCGAGGTTGTTCCTATTTGTTTGTTGTCATGCCTAAAGACTATTTACATACGGGGATTTCGAGGACGGATAGATGAGATGGAAGTCGCGGGGTACTTGTTGAAGCACGGGAAGGTTTTGAACAAGGTGACAATTCGTACTTCTAATTTCTGTCAAGAATCAGTAATGGAGTTGTGGCAGATATTTTCAAGGCTCCCTAGGGGTTCAAAGACTTGTGAAATTGAATGGATCCTTCCAAAGTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

500

Amino Acids

57.23

Weight (kDa)

5.39

Isoelectric Point (pI)

38.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
F-box	PF00646	16 - 54	4.1e-06	F-box domain
LRR_At1g61320_AtMIF1	PF23622	102 - 380	8.7e-06	At1g61320/AtMIF1, LRR domain
LRR_At5g56370	PF24758	106 - 237	1.5e-07	FBD-associated F-box protein At5g56370, LRR repeats
FBD	PF08387	420 - 464	2.4e-13	FBD

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003101)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G09450
fragaria_vesca	FvH4_6g14110 FvH4_6g14110 FvH4_6g14240
malus_domestica	MD04G1122800.v1.1 MD04G1123800.v1.1 MD04G1125300.v1.1 MD12G1139000.v1.1 MD12G1140100.v1.1 MD12G1140200.v1.1 MD12G1140300.v1.1
prunus_persica	Prupe.6G250900_v2.0.a1 Prupe.6G250900_v2.0.a1 Prupe.6G250900_v2.0.a1 Prupe.6G252300_v2.0.a1
pyrus_communis	pycom04g11100 pycom04g11170 pycom12g13330
rosa_chinensis	RchiOBHm_Chr3g0467011 RchiOBHm_Chr3g0467201
rosa_laevigata	RLG00000024520 RLG00000024536
rosa_multiflora	Rmu_sc0001193.1_g000008
rosa_roxburghii	Rroxscaffold_6G00413830 Rroxscaffold_6G00414010
rosa_rugosa	Rorug03G0084800 Rorug03G0085700
rosa_samantha	Rh3AG132700 Rh3AG134100 Rh3BG153700 Rh3BG155400 Rh3CG153700 Rh3CG155000 Rh3DG154800 Rh3DG156200
rosa_wichuraiana	Rw3G012570 Rw3G012690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	125
AccI	GTMKAC	1 cut(s)	910
AccII	CGCG	1 cut(s)	1346
AciI	CCGC	1 cut(s)	1346
AclWI	GGATC	7 cut(s)	53, 971, 984, 1154, 1175, 1480, 1493
AcsI	RAATTY	5 cut(s)	272, 391, 698, 756, 863
AfaI	GTAC	7 cut(s)	240, 524, 752, 806, 1242, 1352, 1396
AfiI	CCNNNNNNNGG	1 cut(s)	402
AflII	CTTAAG	1 cut(s)	410
AflIII	ACRYGT	1 cut(s)	208
AluBI	AGCT	7 cut(s)	19, 460, 819, 859, 919, 962, 1036
AluI	AGCT	7 cut(s)	19, 460, 819, 859, 919, 962, 1036
Alw21I	GWGCWC	1 cut(s)	1141
Alw26I	GTCTC	1 cut(s)	521
AlwI	GGATC	7 cut(s)	53, 971, 984, 1154, 1175, 1480, 1493
Ama87I	CYCGRG	2 cut(s)	499, 1259
ApeKI	GCWGC	1 cut(s)	1053
ApoI	RAATTY	5 cut(s)	272, 391, 698, 756, 863
Asp700I	GAANNNNTTC	2 cut(s)	1107, 1251
AspA2I	CCTAGG	2 cut(s)	1007, 1454
AspLEI	GCGC	2 cut(s)	348, 1148
AsuC2I	CCSGG	1 cut(s)	223
AsuHPI	GGTGA	4 cut(s)	177, 1083, 1181, 1396
AvaI	CYCGRG	2 cut(s)	499, 1259
AvrII	CCTAGG	2 cut(s)	1007, 1454
BamHI	GGATCC	2 cut(s)	976, 1485
BbsI	GAAGAC	2 cut(s)	637, 1034
Bbv12I	GWGCWC	1 cut(s)	1141
BbvI	GCAGC	1 cut(s)	1040
BccI	CCATC	4 cut(s)	129, 731, 1160, 1330
BceAI	ACGGC	1 cut(s)	1119
BcgI	CGANNNNNNTGC	2 cut(s)	337, 371
BcnI	CCSGG	1 cut(s)	223
BcoDI	GTCTC	1 cut(s)	521
BfaI	CTAG	3 cut(s)	167, 1008, 1455
BfmI	CTRYAG	1 cut(s)	689
BfoI	RGCGCY	1 cut(s)	1149
BfrI	CTTAAG	1 cut(s)	410
BfuAI	ACCTGC	1 cut(s)	125
BisI	GCNGC	1 cut(s)	1054
BlnI	CCTAGG	2 cut(s)	1007, 1454
BlpI	GCTNAGC	1 cut(s)	845
BlsI	GCNGC	1 cut(s)	1055
BmcAI	AGTACT	1 cut(s)	240
Bme1390I	CCNGG	1 cut(s)	223
BmeT110I	CYCGRG	2 cut(s)	499, 1259
BmiI	GGNNCC	3 cut(s)	978, 1451, 1487
BmrFI	CCNGG	1 cut(s)	223
BmsI	GCATC	3 cut(s)	52, 94, 310
BpiI	GAAGAC	2 cut(s)	637, 1034
Bpu1102I	GCTNAGC	1 cut(s)	845
BpuEI	CTTGAG	1 cut(s)	503
BpuMI	CCSGG	1 cut(s)	223
BsaJI	CCNNGG	4 cut(s)	289, 1007, 1260, 1454
Bsc4I	CCNNNNNNNGG	1 cut(s)	402
Bse1I	ACTGG	2 cut(s)	450, 1027
Bse3DI	GCAATG	2 cut(s)	355, 984
BseDI	CCNNGG	4 cut(s)	289, 1007, 1260, 1454
BseGI	GGATG	2 cut(s)	724, 742
BseLI	CCNNNNNNNGG	1 cut(s)	402
BseMI	GCAATG	2 cut(s)	355, 984
BseMII	CTCAG	1 cut(s)	213
BseNI	ACTGG	2 cut(s)	450, 1027
BseXI	GCAGC	1 cut(s)	1040
BsgI	GTGCAG	1 cut(s)	579
Bsh1236I	CGCG	1 cut(s)	1346
BsiHKAI	GWGCWC	1 cut(s)	1141
BsiHKCI	CYCGRG	2 cut(s)	499, 1259
BsiSI	CCGG	1 cut(s)	222
BslI	CCNNNNNNNGG	1 cut(s)	402
BsmAI	GTCTC	1 cut(s)	521
BsoBI	CYCGRG	2 cut(s)	499, 1259
Bsp1286I	GDGCHC	1 cut(s)	1141
Bsp1720I	GCTNAGC	1 cut(s)	845
BspACI	CCGC	1 cut(s)	1346
BspCNI	CTCAG	1 cut(s)	212
BspFNI	CGCG	1 cut(s)	1346
BspLI	GGNNCC	3 cut(s)	978, 1451, 1487
BspMI	ACCTGC	1 cut(s)	125
BspPI	GGATC	7 cut(s)	53, 971, 984, 1154, 1175, 1480, 1493
BspTI	CTTAAG	1 cut(s)	410
BsrDI	GCAATG	2 cut(s)	355, 984
BsrI	ACTGG	2 cut(s)	450, 1027
BssECI	CCNNGG	4 cut(s)	289, 1007, 1260, 1454
BssNAI	GTATAC	1 cut(s)	911
BssT1I	CCWWGG	3 cut(s)	289, 1007, 1454
Bst1107I	GTATAC	1 cut(s)	911
Bst4CI	ACNGT	3 cut(s)	565, 576, 853
BstAFI	CTTAAG	1 cut(s)	410
BstAPI	GCANNNNNTGC	1 cut(s)	1069
BstC8I	GCNNGC	2 cut(s)	817, 879
BstDEI	CTNAG	3 cut(s)	199, 635, 845
BstF5I	GGATG	2 cut(s)	724, 742
BstFNI	CGCG	1 cut(s)	1346
BstH2I	RGCGCY	1 cut(s)	1149
BstHHI	GCGC	2 cut(s)	348, 1148
BstMAI	GTCTC	1 cut(s)	521
BstMWI	GCNNNNNNNGC	2 cut(s)	1069, 1145
BstNSI	RCATGY	3 cut(s)	33, 212, 881
BstSCI	CCNGG	1 cut(s)	221
BstSFI	CTRYAG	1 cut(s)	689
BstUI	CGCG	1 cut(s)	1346
BstV1I	GCAGC	1 cut(s)	1040
BstV2I	GAAGAC	2 cut(s)	637, 1034
BstX2I	RGATCY	2 cut(s)	976, 1485
BstYI	RGATCY	2 cut(s)	976, 1485
BstZ17I	GTATAC	1 cut(s)	911
BtsCI	GGATG	2 cut(s)	724, 742
BtsI	GCAGTG	2 cut(s)	333, 1067
BtsIMutI	CAGTG	5 cut(s)	55, 333, 443, 570, 1067
BveI	ACCTGC	1 cut(s)	125
Cac8I	GCNNGC	2 cut(s)	817, 879
CfoI	GCGC	2 cut(s)	348, 1148
CseI	GACGC	2 cut(s)	203, 1077
Csp6I	GTAC	7 cut(s)	239, 523, 751, 805, 1241, 1351, 1395
CviAII	CATG	9 cut(s)	30, 209, 476, 582, 617, 878, 1142, 1244, 1287
CviJI	RGCY	9 cut(s)	19, 221, 460, 819, 859, 919, 962, 1036, 1450
CviKI_1	RGCY	9 cut(s)	19, 221, 460, 819, 859, 919, 962, 1036, 1450
CviQI	GTAC	7 cut(s)	239, 523, 751, 805, 1241, 1351, 1395
DdeI	CTNAG	3 cut(s)	199, 635, 845
DraI	TTTAAA	1 cut(s)	25
Eco130I	CCWWGG	3 cut(s)	289, 1007, 1454
Eco88I	CYCGRG	2 cut(s)	499, 1259
EcoT14I	CCWWGG	3 cut(s)	289, 1007, 1454
ErhI	CCWWGG	3 cut(s)	289, 1007, 1454
FaeI	CATG	9 cut(s)	33, 212, 479, 585, 620, 881, 1145, 1247, 1290
FalI	AAGNNNNNCTT	4 cut(s)	393, 425, 808, 840
FatI	CATG	9 cut(s)	29, 208, 475, 581, 616, 877, 1141, 1243, 1286
FauI	CCCGC	1 cut(s)	1339
FblI	GTMKAC	1 cut(s)	910
Fnu4HI	GCNGC	1 cut(s)	1054
FokI	GGATG	2 cut(s)	731, 749
Fsp4HI	GCNGC	1 cut(s)	1054
FspBI	CTAG	3 cut(s)	167, 1008, 1455
GlaI	GCGC	2 cut(s)	347, 1147
GluI	GCNGC	1 cut(s)	1054
HaeII	RGCGCY	1 cut(s)	1149
HapII	CCGG	1 cut(s)	222
HgaI	GACGC	2 cut(s)	203, 1077
HhaI	GCGC	2 cut(s)	348, 1148
Hin1II	CATG	9 cut(s)	33, 212, 479, 585, 620, 881, 1145, 1247, 1290
Hin6I	GCGC	2 cut(s)	346, 1146
HinP1I	GCGC	2 cut(s)	346, 1146
HindIII	AAGCTT	1 cut(s)	17
HinfI	GANTC	5 cut(s)	163, 197, 294, 1202, 1415
HpaII	CCGG	1 cut(s)	222
HphI	GGTGA	4 cut(s)	177, 1083, 1181, 1396
Hpy166II	GTNNAC	2 cut(s)	150, 911
Hpy188I	TCNGA	5 cut(s)	162, 202, 629, 1207, 1216
Hpy8I	GTNNAC	2 cut(s)	150, 911
HpyAV	CCTTC	3 cut(s)	395, 1363, 1499
HpyCH4III	ACNGT	3 cut(s)	565, 576, 853
HpyCH4IV	ACGT	1 cut(s)	1039
HpyCH4V	TGCA	7 cut(s)	65, 333, 438, 596, 877, 926, 989
HpyF10VI	GCNNNNNNNGC	2 cut(s)	1069, 1145
HpyF3I	CTNAG	3 cut(s)	199, 635, 845
HpySE526I	ACGT	1 cut(s)	1039
Hsp92II	CATG	9 cut(s)	33, 212, 479, 585, 620, 881, 1145, 1247, 1290
HspAI	GCGC	2 cut(s)	346, 1146
LmnI	GCTCC	4 cut(s)	676, 781, 1033, 1455
Lsp1109I	GCAGC	1 cut(s)	1040
LweI	GCATC	3 cut(s)	52, 94, 310
MaeI	CTAG	3 cut(s)	167, 1008, 1455
MaeII	ACGT	1 cut(s)	1039
MaeIII	GTNAC	3 cut(s)	251, 1089, 1384
MboII	GAAGA	9 cut(s)	50, 174, 311, 614, 642, 841, 1034, 1100, 1241
MfeI	CAATTG	2 cut(s)	966, 1129
MflI	RGATCY	2 cut(s)	976, 1485
MhlI	GDGCHC	1 cut(s)	1141
MlyI	GAGTC	1 cut(s)	191
MmeI	TCCRAC	2 cut(s)	1011, 1095
MnlI	CCTC	8 cut(s)	163, 397, 501, 709, 734, 1255, 1266, 1313
MroXI	GAANNNNTTC	2 cut(s)	1107, 1251
MseI	TTAA	7 cut(s)	24, 363, 411, 608, 659, 765, 861
MspCI	CTTAAG	1 cut(s)	410
MspI	CCGG	1 cut(s)	222
MspR9I	CCNGG	1 cut(s)	223
MunI	CAATTG	2 cut(s)	966, 1129
MvnI	CGCG	1 cut(s)	1346
MwoI	GCNNNNNNNGC	2 cut(s)	1069, 1145
NciI	CCSGG	1 cut(s)	223
NlaIII	CATG	9 cut(s)	33, 212, 479, 585, 620, 881, 1145, 1247, 1290
NlaIV	GGNNCC	3 cut(s)	978, 1451, 1487
NmuCI	GTSAC	2 cut(s)	1089, 1384
NspI	RCATGY	3 cut(s)	33, 212, 881
PaeI	GCATGC	1 cut(s)	881
PaeR7I	CTCGAG	1 cut(s)	499
PciI	ACATGT	1 cut(s)	208
PcsI	WCGNNNNNNNCGW	1 cut(s)	1315
PdmI	GAANNNNTTC	2 cut(s)	1107, 1251
PfeI	GAWTC	4 cut(s)	163, 294, 1202, 1415
PkrI	GCNGC	1 cut(s)	1055
PleI	GAGTC	1 cut(s)	191
PpsI	GAGTC	1 cut(s)	191
PscI	ACATGT	1 cut(s)	208
PspN4I	GGNNCC	3 cut(s)	978, 1451, 1487
PspXI	VCTCGAGB	1 cut(s)	499
PsuI	RGATCY	2 cut(s)	976, 1485
RsaI	GTAC	7 cut(s)	240, 524, 752, 806, 1242, 1352, 1396
RsaNI	GTAC	7 cut(s)	239, 523, 751, 805, 1241, 1351, 1395
SaqAI	TTAA	7 cut(s)	24, 363, 411, 608, 659, 765, 861
SatI	GCNGC	1 cut(s)	1054
ScaI	AGTACT	1 cut(s)	240
SchI	GAGTC	1 cut(s)	191
ScrFI	CCNGG	1 cut(s)	223
SduI	GDGCHC	1 cut(s)	1141
SfaNI	GCATC	3 cut(s)	52, 94, 310
SfcI	CTRYAG	1 cut(s)	689
Sfr274I	CTCGAG	1 cut(s)	499
SlaI	CTCGAG	1 cut(s)	499
SmlI	CTYRAG	3 cut(s)	410, 499, 518
SmoI	CTYRAG	3 cut(s)	410, 499, 518
SphI	GCATGC	1 cut(s)	881
SsiI	CCGC	1 cut(s)	1346
SspI	AATATT	1 cut(s)	947
SspMI	CTAG	3 cut(s)	167, 1008, 1455
StyD4I	CCNGG	1 cut(s)	221
StyI	CCWWGG	3 cut(s)	289, 1007, 1454
TaaI	ACNGT	3 cut(s)	565, 576, 853
TaiI	ACGT	1 cut(s)	1042
TaqI	TCGA	7 cut(s)	235, 297, 357, 500, 558, 801, 1318
TatI	WGTACW	2 cut(s)	238, 750
TfiI	GAWTC	4 cut(s)	163, 294, 1202, 1415
Tru1I	TTAA	7 cut(s)	24, 363, 411, 608, 659, 765, 861
Tru9I	TTAA	7 cut(s)	24, 363, 411, 608, 659, 765, 861
TscAI	CASTG	5 cut(s)	55, 340, 450, 570, 1074
TseFI	GTSAC	2 cut(s)	1089, 1384
TseI	GCWGC	1 cut(s)	1053
Tsp45I	GTSAC	2 cut(s)	1089, 1384
TspDTI	ATGAA	8 cut(s)	75, 219, 257, 421, 570, 660, 1242, 1260
TspGWI	ACGGA	3 cut(s)	239, 749, 1339
TspRI	CASTG	5 cut(s)	55, 340, 450, 570, 1074
Vha464I	CTTAAG	1 cut(s)	410
XapI	RAATTY	5 cut(s)	272, 391, 698, 756, 863
XbaI	TCTAGA	1 cut(s)	166
XceI	RCATGY	3 cut(s)	33, 212, 881
XhoI	CTCGAG	1 cut(s)	499
XmaJI	CCTAGG	2 cut(s)	1007, 1454
XmiI	GTMKAC	1 cut(s)	910
XmnI	GAANNNNTTC	2 cut(s)	1107, 1251
XspI	CTAG	3 cut(s)	167, 1008, 1455
ZrmI	AGTACT	1 cut(s)	240

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