Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0016303

Physical Location & Seq

Genomic Coordinates Reverse (-)

5828834 .. 5830204

Gene Structure 1371 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0038800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1371 bp

ATGGCTCAAAGTACTTCAGTTGATATAGAAGCATTGAAAAAGACTATCATAGACGATCTCAAAGATGTTCCTGTTTTGTTCCGCGAAAGCTGCATCTTTAGAGTTCCTGAGGTGCTCCGAAAAAATAATACGAAGGCATATCAACCTGACATTGTTGCAATCGGACCTTTACATGTTCGAGAGCATACACAATATCAACACATGGAAAAGGTGAAACTGTGGTACTTACACGAGCTACTCGATTACATTCGCTCCTCCAAGAAAAAGGATTTGCTGCCAGAGTTGATTAAAGACGTTACAGAAAAAGAGGGTCTGGCCCGTGAGTGGTATGCAGAATCGCTTGATATCAGGTCCAATGTCTTCATAAAAGGGATGATACTTGATGGTTGTTTCATAGTACAACTATTTCGGAAGTTCATTTATAAGCAAGGGAATCACAGCGATGGCTTCCAACCCAAGGAAAATGACCCCATACTCAGCATGGATTGCATGATCCAATATTTATGGCATGACATTTTGCTACTCGAAAATCAGCTTCCTTGGTTTGTCCTCCAGAGTGTGTATCGTGTCATCCTGGGCAACCACCGCCCTCTTAGCAACCTTATACTCGCGGTTTTCAAATTTCTACCGTCTATGAAGAATAACTGCGTGGCTTATCAAAATTATCTTTGTTTTCATGATGATGGTAATCACAAGCATGTCCTTGATCTTGTCAGAACTTCGATAGTCCATTCATTCGAGGAAGCTTCCGATGATGGTGAAACAAGATGTCTGCAAAGTTCCGAAGAAGATATACCAGATGTTGGAAAATATATTCCTCCTGCAACTACTCTTTCAAAAGGAGGCGTGAAATTCGAAAAGGTCCTCCACGATGGTAAAAGAAGCATAATGAGTATGAAATTCAAAAATGGGAAATTGAGAATTCCACAACTAGTAATTGATGAGTTGACTGAACCGTTGTTCAGGAACCTCATTGCCTTTGAACAGTGCTCTCAAAGTCATTCTCATGAGATAACATCTTATGCCACTCTAATGGACAAACTCATCTCATCTAAAGAGGACATGGAATTTCTCTGTGAGAAAAATATAATACTAAACTGGCTGAGTGCTGAAGATGGTTTCAAAATCTTCAACAAGATTCACAATGACACTTTGCTCAACAAGTTCCACTATGATGAACTCTGCACCAGTGTGAACAGATATTACAATTTCAATTGTTTCCCTAGGTGTAAGGAAAATTTCAGGCGTAAGTGCTTTGATGCTCCGTGGACAATTATTTCTTTGATCGCAGCAATTTTGCTTTTGTTTCTCACCCTAGTACAGTTCATATTTACTGTTCATGATTCAGGAATAGTGTTCTTTATGCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005975 GO:0005976 GO:0006073 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009408 GO:0009409 GO:0009605 GO:0009612 GO:0009628 GO:0009664 GO:0009719 GO:0009725 GO:0009733 GO:0009741 GO:0009987 GO:0010033 GO:0010383 GO:0010410 GO:0010411 GO:0012505 GO:0014070 GO:0016043 GO:0016740 GO:0016757 GO:0016758 GO:0016762 GO:0030312 GO:0033993 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044036 GO:0044042 GO:0044237 GO:0044238 GO:0044260 GO:0044262 GO:0044264 GO:0044424 GO:0044444 GO:0044464 GO:0045229 GO:0046527 GO:0050896 GO:0071554 GO:0071555 GO:0071669 GO:0071704 GO:0071840 GO:0071944 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04075 map04075

Pfam Domains

Protein Families

Glyco_hydro_16 XET_C

Protein Analysis

456

Amino Acids

53.21

Weight (kDa)

6.39

Isoelectric Point (pI)

40.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF247	PF03140	32 - 437	3.6e-104	Plant protein of unknown function

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)

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Orthologous Genes (Group: OG0016303)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g09250
malus_domestica	MD13G1268400.v1.1
prunus_persica	Prupe.1G088500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0402841 RchiOBHm_Chr4g0402851 RchiOBHm_Chr4g0402861
rosa_laevigata	RLG00000009045
rosa_multiflora	Rmu_sc0002451.1_g000049 Rmu_sc0008058.1_g000013
rosa_roxburghii	Rroxscaffold_5G00347580 Rroxscaffold_5G00347590
rosa_rugosa	Rorug04G0038700 Rorug04G0038800
rosa_samantha	Rh4AG116100
rosa_wichuraiana	Rw4G009300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	423
AccB7I	CCANNNNNTGG	1 cut(s)	803
AccII	CGCG	2 cut(s)	84, 611
AciI	CCGC	3 cut(s)	82, 586, 611
AclWI	GGATC	1 cut(s)	487
AcsI	RAATTY	6 cut(s)	620, 851, 899, 921, 1067, 1237
AcuI	CTGAAG	1 cut(s)	1131
AfaI	GTAC	4 cut(s)	13, 224, 399, 1320
AfiI	CCNNNNNNNGG	3 cut(s)	324, 457, 803
AflIII	ACRYGT	1 cut(s)	172
AgsI	TTSAA	8 cut(s)	37, 619, 837, 904, 983, 1123, 1132, 1213
AhlI	ACTAGT	1 cut(s)	931
AjnI	CCWGG	1 cut(s)	573
AleI	CACNNNNGTG	1 cut(s)	1190
AluBI	AGCT	4 cut(s)	90, 235, 535, 746
AluI	AGCT	4 cut(s)	90, 235, 535, 746
Alw21I	GWGCWC	2 cut(s)	117, 992
AlwI	GGATC	1 cut(s)	487
AoxI	GGCC	1 cut(s)	315
ApeKI	GCWGC	3 cut(s)	90, 274, 1289
ApoI	RAATTY	6 cut(s)	620, 851, 899, 921, 1067, 1237
AspA2I	CCTAGG	1 cut(s)	1223
AspS9I	GGNCC	4 cut(s)	164, 316, 351, 862
AsuHPI	GGTGA	3 cut(s)	223, 770, 1303
AsuII	TTCGAA	1 cut(s)	855
AvaII	GGWCC	3 cut(s)	164, 351, 862
AvrII	CCTAGG	1 cut(s)	1223
AxyI	CCTNAGG	1 cut(s)	108
BarI	GAAGNNNNNNTAC	2 cut(s)	777, 809
BauI	CACGAG	1 cut(s)	230
BbsI	GAAGAC	1 cut(s)	352
Bbv12I	GWGCWC	2 cut(s)	117, 992
BbvI	GCAGC	3 cut(s)	77, 261, 1301
BccI	CCATC	6 cut(s)	377, 437, 677, 749, 866, 1109
BciT130I	CCWGG	1 cut(s)	575
BcuI	ACTAGT	1 cut(s)	931
BfaI	CTAG	3 cut(s)	932, 1224, 1316
BisI	GCNGC	3 cut(s)	91, 275, 1290
BlnI	CCTAGG	1 cut(s)	1223
BlsI	GCNGC	3 cut(s)	92, 276, 1291
BmcAI	AGTACT	1 cut(s)	13
Bme1390I	CCNGG	1 cut(s)	575
Bme18I	GGWCC	3 cut(s)	164, 351, 862
BmgT120I	GGNCC	4 cut(s)	164, 316, 351, 862
BmiI	GGNNCC	1 cut(s)	968
BmrFI	CCNGG	1 cut(s)	575
BmsI	GCATC	2 cut(s)	102, 1249
BpiI	GAAGAC	1 cut(s)	352
BpmI	CTGGAG	1 cut(s)	536
Bpu14I	TTCGAA	1 cut(s)	855
BsaBI	GATNNNNATC	1 cut(s)	687
BsaJI	CCNNGG	5 cut(s)	456, 539, 574, 1223, 1265
BsaXI	ACNNNNNCTCC	2 cut(s)	236, 266
Bsc4I	CCNNNNNNNGG	3 cut(s)	324, 457, 803
Bse1I	ACTGG	2 cut(s)	1103, 1188
Bse21I	CCTNAGG	1 cut(s)	108
Bse3DI	GCAATG	1 cut(s)	972
Bse8I	GATNNNNATC	1 cut(s)	687
BseBI	CCWGG	1 cut(s)	575
BseDI	CCNNGG	5 cut(s)	456, 539, 574, 1223, 1265
BseGI	GGATG	2 cut(s)	378, 570
BseJI	GATNNNNATC	1 cut(s)	687
BseLI	CCNNNNNNNGG	3 cut(s)	324, 457, 803
BseMI	GCAATG	1 cut(s)	972
BseMII	CTCAG	3 cut(s)	99, 490, 1094
BseNI	ACTGG	2 cut(s)	1103, 1188
BseRI	GAGGAG	1 cut(s)	244
BseXI	GCAGC	3 cut(s)	77, 261, 1301
BsgI	GTGCAG	1 cut(s)	1168
Bsh1236I	CGCG	2 cut(s)	84, 611
BshFI	GGCC	1 cut(s)	317
BsiHKAI	GWGCWC	2 cut(s)	117, 992
BslI	CCNNNNNNNGG	3 cut(s)	324, 457, 803
BsnI	GGCC	1 cut(s)	317
Bsp119I	TTCGAA	1 cut(s)	855
Bsp1286I	GDGCHC	2 cut(s)	117, 992
Bsp143I	GATC	4 cut(s)	55, 492, 706, 1284
BspACI	CCGC	3 cut(s)	82, 586, 611
BspANI	GGCC	1 cut(s)	317
BspCNI	CTCAG	3 cut(s)	100, 489, 1095
BspFNI	CGCG	2 cut(s)	84, 611
BspHI	TCATGA	3 cut(s)	676, 1006, 1339
BspLI	GGNNCC	1 cut(s)	968
BspPI	GGATC	1 cut(s)	487
BspT104I	TTCGAA	1 cut(s)	855
BsrDI	GCAATG	1 cut(s)	972
BsrI	ACTGG	2 cut(s)	1103, 1188
BssECI	CCNNGG	5 cut(s)	456, 539, 574, 1223, 1265
BssMI	GATC	4 cut(s)	55, 492, 706, 1284
BssSI	CACGAG	1 cut(s)	230
BssT1I	CCWWGG	3 cut(s)	456, 539, 1223
Bst2BI	CACGAG	1 cut(s)	230
Bst2UI	CCWGG	1 cut(s)	575
Bst4CI	ACNGT	6 cut(s)	219, 630, 957, 987, 1323, 1336
BstAPI	GCANNNNNTGC	1 cut(s)	486
BstBI	TTCGAA	1 cut(s)	855
BstDEI	CTNAG	4 cut(s)	108, 476, 593, 1103
BstDSI	CCRYGG	1 cut(s)	1265
BstF5I	GGATG	2 cut(s)	378, 570
BstFNI	CGCG	2 cut(s)	84, 611
BstKTI	GATC	4 cut(s)	58, 495, 709, 1287
BstMBI	GATC	4 cut(s)	55, 492, 706, 1284
BstMWI	GCNNNNNNNGC	4 cut(s)	90, 486, 585, 594
BstNI	CCWGG	1 cut(s)	575
BstNSI	RCATGY	2 cut(s)	176, 701
BstSCI	CCNGG	1 cut(s)	573
BstUI	CGCG	2 cut(s)	84, 611
BstV1I	GCAGC	3 cut(s)	77, 261, 1301
BstV2I	GAAGAC	1 cut(s)	352
BstXI	CCANNNNNNTGG	1 cut(s)	1033
Bsu36I	CCTNAGG	1 cut(s)	108
BsuRI	GGCC	1 cut(s)	317
BtgI	CCRYGG	1 cut(s)	1265
BtgZI	GCGATG	1 cut(s)	456
BtsCI	GGATG	2 cut(s)	378, 570
BtsIMutI	CAGTG	2 cut(s)	992, 1195
CciI	TCATGA	3 cut(s)	676, 1006, 1339
Cfr13I	GGNCC	4 cut(s)	164, 316, 351, 862
Csp6I	GTAC	4 cut(s)	12, 223, 398, 1319
CviJI	RGCY	9 cut(s)	5, 90, 235, 317, 447, 535, 653, 746, 1102
CviKI_1	RGCY	9 cut(s)	5, 90, 235, 317, 447, 535, 653, 746, 1102
CviQI	GTAC	4 cut(s)	12, 223, 398, 1319
DdeI	CTNAG	4 cut(s)	108, 476, 593, 1103
DpnI	GATC	4 cut(s)	57, 494, 708, 1286
DpnII	GATC	4 cut(s)	55, 492, 706, 1284
Eco130I	CCWWGG	3 cut(s)	456, 539, 1223
Eco32I	GATATC	1 cut(s)	346
Eco47I	GGWCC	3 cut(s)	164, 351, 862
Eco57I	CTGAAG	1 cut(s)	1131
Eco81I	CCTNAGG	1 cut(s)	108
EcoO109I	RGGNCCY	1 cut(s)	862
EcoRI	GAATTC	1 cut(s)	921
EcoRII	CCWGG	1 cut(s)	573
EcoRV	GATATC	1 cut(s)	346
EcoT14I	CCWWGG	3 cut(s)	456, 539, 1223
ErhI	CCWWGG	3 cut(s)	456, 539, 1223
Fnu4HI	GCNGC	3 cut(s)	91, 275, 1290
FokI	GGATG	2 cut(s)	385, 557
Fsp4HI	GCNGC	3 cut(s)	91, 275, 1290
FspBI	CTAG	3 cut(s)	932, 1224, 1316
GluI	GCNGC	3 cut(s)	91, 275, 1290
GsuI	CTGGAG	1 cut(s)	536
HaeIII	GGCC	1 cut(s)	317
HincII	GTYRAC	1 cut(s)	948
HindII	GTYRAC	1 cut(s)	948
HindIII	AAGCTT	1 cut(s)	744
HinfI	GANTC	4 cut(s)	335, 433, 1138, 1343
HphI	GGTGA	3 cut(s)	223, 770, 1303
Hpy166II	GTNNAC	3 cut(s)	948, 1195, 1269
Hpy188I	TCNGA	6 cut(s)	119, 164, 411, 716, 751, 784
Hpy188III	TCNNGA	8 cut(s)	107, 179, 553, 677, 964, 1007, 1340, 1347
Hpy8I	GTNNAC	3 cut(s)	948, 1195, 1269
HpyAV	CCTTC	1 cut(s)	127
HpyCH4III	ACNGT	6 cut(s)	219, 630, 957, 987, 1323, 1336
HpyCH4IV	ACGT	1 cut(s)	294
HpyCH4V	TGCA	8 cut(s)	93, 158, 332, 489, 775, 824, 1185, 1366
HpyF10VI	GCNNNNNNNGC	4 cut(s)	90, 486, 585, 594
HpyF3I	CTNAG	4 cut(s)	108, 476, 593, 1103
HpySE526I	ACGT	1 cut(s)	294
Kzo9I	GATC	4 cut(s)	55, 492, 706, 1284
LmnI	GCTCC	3 cut(s)	120, 257, 1267
Lsp1109I	GCAGC	3 cut(s)	77, 261, 1301
LweI	GCATC	2 cut(s)	102, 1249
MaeI	CTAG	3 cut(s)	932, 1224, 1316
MaeII	ACGT	1 cut(s)	294
MaeIII	GTNAC	1 cut(s)	295
MalI	GATC	4 cut(s)	57, 494, 708, 1286
MboI	GATC	4 cut(s)	55, 492, 706, 1284
MboII	GAAGA	6 cut(s)	352, 649, 797, 800, 1120, 1124
MfeI	CAATTG	1 cut(s)	1213
MhlI	GDGCHC	2 cut(s)	117, 992
MmeI	TCCRAC	2 cut(s)	475, 784
MseI	TTAA	1 cut(s)	288
MslI	CAYNNNNRTG	7 cut(s)	441, 681, 696, 1005, 1031, 1173, 1190
MspR9I	CCNGG	1 cut(s)	575
MunI	CAATTG	1 cut(s)	1213
MvaI	CCWGG	1 cut(s)	575
MvnI	CGCG	2 cut(s)	84, 611
MwoI	GCNNNNNNNGC	4 cut(s)	90, 486, 585, 594
NdeII	GATC	4 cut(s)	55, 492, 706, 1284
NlaIV	GGNNCC	1 cut(s)	968
NspI	RCATGY	2 cut(s)	176, 701
NspV	TTCGAA	1 cut(s)	855
OliI	CACNNNNGTG	1 cut(s)	1190
PagI	TCATGA	3 cut(s)	676, 1006, 1339
PciI	ACATGT	1 cut(s)	172
PcsI	WCGNNNNNNNCGW	1 cut(s)	237
PfeI	GAWTC	4 cut(s)	335, 433, 1138, 1343
PflMI	CCANNNNNTGG	1 cut(s)	803
PkrI	GCNGC	3 cut(s)	92, 276, 1291
PpuMI	RGGWCCY	1 cut(s)	862
PscI	ACATGT	1 cut(s)	172
PsiI	TTATAA	1 cut(s)	423
Psp5II	RGGWCCY	1 cut(s)	862
Psp6I	CCWGG	1 cut(s)	573
PspGI	CCWGG	1 cut(s)	573
PspN4I	GGNNCC	1 cut(s)	968
PspPI	GGNCC	4 cut(s)	164, 316, 351, 862
PspPPI	RGGWCCY	1 cut(s)	862
PsrI	GAACNNNNNNTAC	2 cut(s)	1187, 1219
RsaI	GTAC	4 cut(s)	13, 224, 399, 1320
RsaNI	GTAC	4 cut(s)	12, 223, 398, 1319
RseI	CAYNNNNRTG	7 cut(s)	441, 681, 696, 1005, 1031, 1173, 1190
SaqAI	TTAA	1 cut(s)	288
SatI	GCNGC	3 cut(s)	91, 275, 1290
Sau3AI	GATC	4 cut(s)	55, 492, 706, 1284
Sau96I	GGNCC	4 cut(s)	164, 316, 351, 862
ScaI	AGTACT	1 cut(s)	13
ScrFI	CCNGG	1 cut(s)	575
SduI	GDGCHC	2 cut(s)	117, 992
SfaNI	GCATC	2 cut(s)	102, 1249
SfuI	TTCGAA	1 cut(s)	855
SinI	GGWCC	3 cut(s)	164, 351, 862
SmiMI	CAYNNNNRTG	7 cut(s)	441, 681, 696, 1005, 1031, 1173, 1190
SpeI	ACTAGT	1 cut(s)	931
SsiI	CCGC	3 cut(s)	82, 586, 611
SspI	AATATT	1 cut(s)	500
SspMI	CTAG	3 cut(s)	932, 1224, 1316
StyD4I	CCNGG	1 cut(s)	573
StyI	CCWWGG	3 cut(s)	456, 539, 1223
TaaI	ACNGT	6 cut(s)	219, 630, 957, 987, 1323, 1336
TaiI	ACGT	1 cut(s)	297
TaqI	TCGA	6 cut(s)	178, 240, 525, 722, 738, 855
TatI	WGTACW	3 cut(s)	11, 397, 1318
TfiI	GAWTC	4 cut(s)	335, 433, 1138, 1343
Tru1I	TTAA	1 cut(s)	288
Tru9I	TTAA	1 cut(s)	288
TscAI	CASTG	2 cut(s)	992, 1195
TseI	GCWGC	3 cut(s)	90, 274, 1289
TspGWI	ACGGA	1 cut(s)	1254
TspRI	CASTG	2 cut(s)	992, 1195
Van91I	CCANNNNNTGG	1 cut(s)	803
VpaK11BI	GGWCC	3 cut(s)	164, 351, 862
XapI	RAATTY	6 cut(s)	620, 851, 899, 921, 1067, 1237
XceI	RCATGY	2 cut(s)	176, 701
XcmI	CCANNNNNNNNNTGG	1 cut(s)	478
XmaJI	CCTAGG	1 cut(s)	1223
XspI	CTAG	3 cut(s)	932, 1224, 1316
ZrmI	AGTACT	1 cut(s)	13

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