Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0000579

Physical Location & Seq

Genomic Coordinates Reverse (-)

16803239 .. 16808165

Gene Structure 4927 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G007810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1257 bp

ATGATGACACCCCCAAACCTCTGGGGGGGTCTTCCTTCACTACTTAGCTCTGTTGTGCTTTTATGGATCGTTGCTTCATCTAGTTTTGGCATTGGGTATGGCCAAAATGGTAATCTTAGTGTACTTGATTTTGGTGCCTCTGGCGACGGCGTAGGAGATGATACCCAAGCTTTCTTGAATGCATGGAAAACACTTTGTGCGACTAACCAAGCCCTAATTATTCCTGCGGGGAAGACCTTTGTACTCAAACCTCTTCAACTTGTAGGTCCTTGCAAATCCAGTAGTGTTGTAATTCAGATTGATGGGAATATTGTTGGTCCATCCACTCTTAGCGAATGGGCAGATGTGTGCAAAATGGGACAGTGCTGGCTATGCTTCCAAAACGTGAAGGGCCTCGTCATCAAAGGGGGAGGACTTATAGATGGCAAGGGTTCAATTTGGTGGAACCAAAAAACCCAATCCATAAATGCTTTACACTTCCACAAATGCGACCAACTTCAATTATCTGGATTTACTTCCCGTGATAGTCCGAAAGGCCATATATTTATACATAGCAGCAACGATGTACGTATCTCAAACATTCATTTGAATGCACCGCAGAACAGCCCAAATACTGATGGCATCGGCATCTCTTTATCAAGCCGAGTAACCATACAAGACTCTTCCATTGGAACTGGTGATGATTGTATTGCAATTAAGGGAGGGTCTTCTTTTGTAAACGTAACTCATGTGACATGCGGACCAGGTCATGGTTTCAGTGTGGGTAGTTTAGGACAAGTTCCAGCTATTCCAGATAAAGTCGAACAAGTATACTTTCAAAATTGTATCTGTGACAAAACGATGAACTGCGCAAGAATCAAAACATGGATGGGAGGATCTGGGAATGCTAGGGCGATTTTCTTCAAACAAATTACCCTTAAACAGTCAAATAATCCTATTGTGATTGATCAACACTACTGCGATGGTGCAGCTAATTGCCCAGCTAAGACTGGAGCGGTGAAAGTTAGTGACGTAACTTTCAGTGGCTTCACTGGAACTTCAGCAAGTGAGCAAGCAATAACACTGAATTGCTCCGACTTGGGTTGCACCAATATTTTGATGGATCATGTCATCCTAACCTCCGCAATCGGAAAGCCACTTCGTTCTGTATGCAACAAGGCCAGTGGGAAAGCTAGTTTTACTTCACCTCCCGTTCCTTGTCTGTCGTCGAAGCAATCCCTGTCACCAACAATTGCACCAATCTCAATCGCACATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005618 GO:0005623 GO:0005886 GO:0009505 GO:0016020 GO:0030312 GO:0031224 GO:0031225 GO:0031226 GO:0044425 GO:0044459 GO:0044464 GO:0046658 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

Glyco_hydro_28 RVT_3

Protein Analysis

418

Amino Acids

43.94

Weight (kDa)

8.4

Isoelectric Point (pI)

37.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pect-lyase_RHGA_epim	PF12708	40 - 242	6.7e-09	Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28	PF00295	69 - 387	6.3e-77	Glycosyl hydrolases family 28

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: OG0000579)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32370 AT4G32375 AT4G32380 AT4G32380
fragaria_vesca	FvH4_2g29242 FvH4_2g29270 FvH4_4g07180 FvH4_4g07190 FvH4_6g32320 FvH4_6g35100
malus_domestica	MD03G1260700.v1.1 MD03G1260800.v1.1 MD09G1203400.v1.1 MD15G1065500.v1.1 MD15G1124200.v1.1 MD15G1124300.v1.1
prunus_persica	Prupe.1G247300_v2.0.a1 Prupe.1G247300_v2.0.a1 Prupe.1G479600_v2.0.a1 Prupe.1G479700_v2.0.a1 Prupe.3G043600_v2.0.a1 Prupe.4G130600_v2.0.a1 Prupe.7G064200_v2.0.a1
pyrus_communis	pycom03g20830 pycom15g06200
rosa_chinensis	RchiOBHm_Chr2g0140421 RchiOBHm_Chr2g0146281 RchiOBHm_Chr3g0458021 RchiOBHm_Chr3g0481551 RchiOBHm_Chr4g0399361 RchiOBHm_Chr4g0399381 RchiOBHm_Chr4g0399391 RchiOBHm_Chr4g0399401 RchiOBHm_Chr4g0399411 RchiOBHm_Chr4g0399471
rosa_laevigata	RLG00000009265 RLG00000009272 RLG00000011536 RLG00000011537 RLG00000019863 RLG00000020193 RLG00000023386
rosa_multiflora	Rmu_sc0000384.1_g000011 Rmu_sc0002800.1_g000011 Rmu_sc0002800.1_g000012 Rmu_sc0017309.1_g000001 Rmu_sc0022824.1_g000003
rosa_roxburghii	Rroxscaffold_153G00436780 Rroxscaffold_2G00100180 Rroxscaffold_5G00344320 Rroxscaffold_5G00344370 Rroxscaffold_6G00400330 Rroxscaffold_6G00421350 Rroxscaffold_7G00169940 Rroxscaffold_7G00169950
rosa_rugosa	Rorug02G0362600 Rorug02G0394100 Rorug03G0024300 Rorug03G0192500 Rorug04G0016900 Rorug04G0017100 Rorug06G0278700
rosa_samantha	Rh2CG399600 Rh2CG437200 Rh3AG084800 Rh3BG087600 Rh3CG088100 Rh3DG088500 Rh3DG270800 Rh4BG091900 Rh4BG092300 Rh5AG287300 Rh6DG389600
rosa_wichuraiana	Rw0G012400 Rw2G033880 Rw2G036760 Rw3G007220 Rw3G021790 Rw4G007750 Rw4G007770 Rw4G007810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	850
AccB1I	GGYRCC	1 cut(s)	134
AccB7I	CCANNNNNTGG	1 cut(s)	749
AccBSI	CCGCTC	1 cut(s)	995
AccI	GTMKAC	1 cut(s)	810
AciI	CCGC	5 cut(s)	227, 596, 738, 995, 1122
AclWI	GGATC	3 cut(s)	74, 883, 1110
AcoI	YGGCCR	1 cut(s)	100
AcuI	CTGAAG	1 cut(s)	1023
AdeI	CACNNNGTG	1 cut(s)	197
AfaI	GTAC	3 cut(s)	123, 243, 567
AfiI	CCNNNNNNNGG	2 cut(s)	25, 749
AgsI	TTSAA	7 cut(s)	178, 257, 435, 500, 589, 818, 904
AjnI	CCWGG	1 cut(s)	742
AluBI	AGCT	6 cut(s)	48, 170, 785, 971, 983, 1172
AluI	AGCT	6 cut(s)	48, 170, 785, 971, 983, 1172
AlwI	GGATC	3 cut(s)	74, 883, 1110
AoxI	GGCC	4 cut(s)	100, 391, 535, 1158
ApeKI	GCWGC	2 cut(s)	555, 968
AspLEI	GCGC	1 cut(s)	851
AspS9I	GGNCC	4 cut(s)	266, 317, 391, 740
AsuHPI	GGTGA	4 cut(s)	689, 1009, 1176, 1215
AvaII	GGWCC	3 cut(s)	266, 317, 740
BalI	TGGCCA	1 cut(s)	102
BanI	GGYRCC	1 cut(s)	134
BbsI	GAAGAC	3 cut(s)	23, 239, 699
BbvI	GCAGC	2 cut(s)	567, 980
BccI	CCATC	7 cut(s)	296, 328, 416, 611, 862, 956, 1093
BceAI	ACGGC	1 cut(s)	163
BciT130I	CCWGG	1 cut(s)	744
BclI	TGATCA	1 cut(s)	946
BfaI	CTAG	3 cut(s)	81, 888, 1173
BisI	GCNGC	2 cut(s)	556, 969
BlsI	GCNGC	2 cut(s)	557, 970
Bme1390I	CCNGG	1 cut(s)	744
Bme18I	GGWCC	3 cut(s)	266, 317, 740
BmgT120I	GGNCC	4 cut(s)	266, 317, 391, 740
BmiI	GGNNCC	2 cut(s)	136, 446
BmrFI	CCNGG	1 cut(s)	744
BmsI	GCATC	2 cut(s)	630, 636
BpiI	GAAGAC	3 cut(s)	23, 239, 699
BpmI	CTGGAG	1 cut(s)	1011
BsaAI	YACGTR	1 cut(s)	569
BsaXI	ACNNNNNCTCC	2 cut(s)	1171, 1201
Bsc4I	CCNNNNNNNGG	2 cut(s)	25, 749
Bse1I	ACTGG	5 cut(s)	279, 679, 994, 1036, 1161
BseBI	CCWGG	1 cut(s)	744
BseGI	GGATG	3 cut(s)	320, 873, 1110
BseLI	CCNNNNNNNGG	2 cut(s)	25, 749
BseNI	ACTGG	5 cut(s)	279, 679, 994, 1036, 1161
BseXI	GCAGC	2 cut(s)	567, 980
BseYI	CCCAGC	1 cut(s)	979
BsgI	GTGCAG	1 cut(s)	987
BshFI	GGCC	4 cut(s)	102, 393, 537, 1160
BshNI	GGYRCC	1 cut(s)	134
BslFI	GGGAC	1 cut(s)	372
BslI	CCNNNNNNNGG	2 cut(s)	25, 749
BsmFI	GGGAC	1 cut(s)	372
BsmI	GAATGC	3 cut(s)	184, 595, 889
BsnI	GGCC	4 cut(s)	102, 393, 537, 1160
Bsp143I	GATC	4 cut(s)	66, 875, 946, 1102
BspACI	CCGC	5 cut(s)	227, 596, 738, 995, 1122
BspANI	GGCC	4 cut(s)	102, 393, 537, 1160
BspLI	GGNNCC	2 cut(s)	136, 446
BspPI	GGATC	3 cut(s)	74, 883, 1110
BspT107I	GGYRCC	1 cut(s)	134
BsrBI	CCGCTC	1 cut(s)	995
BsrI	ACTGG	5 cut(s)	279, 679, 994, 1036, 1161
BssMI	GATC	4 cut(s)	66, 875, 946, 1102
BssNAI	GTATAC	1 cut(s)	811
Bst1107I	GTATAC	1 cut(s)	811
Bst2UI	CCWGG	1 cut(s)	744
Bst4CI	ACNGT	2 cut(s)	363, 924
Bst6I	CTCTTC	2 cut(s)	258, 667
BstBAI	YACGTR	1 cut(s)	569
BstC8I	GCNNGC	2 cut(s)	368, 1053
BstDEI	CTNAG	4 cut(s)	44, 116, 329, 984
BstF5I	GGATG	3 cut(s)	320, 873, 1110
BstHHI	GCGC	1 cut(s)	851
BstKTI	GATC	4 cut(s)	69, 878, 949, 1105
BstMBI	GATC	4 cut(s)	66, 875, 946, 1102
BstMWI	GCNNNNNNNGC	1 cut(s)	372
BstNI	CCWGG	1 cut(s)	744
BstNSI	RCATGY	1 cut(s)	738
BstSCI	CCNGG	1 cut(s)	742
BstSNI	TACGTA	1 cut(s)	569
BstV1I	GCAGC	2 cut(s)	567, 980
BstV2I	GAAGAC	3 cut(s)	23, 239, 699
BstX2I	RGATCY	1 cut(s)	875
BstXI	CCANNNNNNTGG	1 cut(s)	21
BstYI	RGATCY	1 cut(s)	875
BstZ17I	GTATAC	1 cut(s)	811
BsuRI	GGCC	4 cut(s)	102, 393, 537, 1160
BtgZI	GCGATG	1 cut(s)	975
BtsCI	GGATG	3 cut(s)	320, 873, 1110
BtsIMutI	CAGTG	6 cut(s)	368, 763, 1027, 1029, 1061, 1168
Cac8I	GCNNGC	2 cut(s)	368, 1053
CfoI	GCGC	1 cut(s)	851
Cfr13I	GGNCC	4 cut(s)	266, 317, 391, 740
CsiI	ACCWGGT	1 cut(s)	742
Csp6I	GTAC	3 cut(s)	122, 242, 566
CspCI	CAANNNNNGTGG	2 cut(s)	1144, 1179
CviAII	CATG	6 cut(s)	183, 728, 735, 749, 864, 1106
CviQI	GTAC	3 cut(s)	122, 242, 566
DdeI	CTNAG	4 cut(s)	44, 116, 329, 984
DpnI	GATC	4 cut(s)	68, 877, 948, 1104
DpnII	GATC	4 cut(s)	66, 875, 946, 1102
DraIII	CACNNNGTG	1 cut(s)	197
EaeI	YGGCCR	1 cut(s)	100
Eam1104I	CTCTTC	2 cut(s)	258, 667
EarI	CTCTTC	2 cut(s)	258, 667
Eco105I	TACGTA	1 cut(s)	569
Eco47I	GGWCC	3 cut(s)	266, 317, 740
Eco57I	CTGAAG	1 cut(s)	1023
EcoO109I	RGGNCCY	2 cut(s)	266, 391
EcoRII	CCWGG	1 cut(s)	742
EcoT22I	ATGCAT	1 cut(s)	184
FaeI	CATG	6 cut(s)	186, 731, 738, 752, 867, 1109
FaqI	GGGAC	1 cut(s)	372
FatI	CATG	6 cut(s)	182, 727, 734, 748, 863, 1105
FauI	CCCGC	1 cut(s)	220
FbaI	TGATCA	1 cut(s)	946
FblI	GTMKAC	1 cut(s)	810
Fnu4HI	GCNGC	2 cut(s)	556, 969
FokI	GGATG	3 cut(s)	307, 880, 1097
Fsp4HI	GCNGC	2 cut(s)	556, 969
FspBI	CTAG	3 cut(s)	81, 888, 1173
FspI	TGCGCA	1 cut(s)	850
GlaI	GCGC	1 cut(s)	850
GluI	GCNGC	2 cut(s)	556, 969
GsaI	CCCAGC	1 cut(s)	983
GsuI	CTGGAG	1 cut(s)	1011
HaeIII	GGCC	4 cut(s)	102, 393, 537, 1160
HhaI	GCGC	1 cut(s)	851
Hin1II	CATG	6 cut(s)	186, 731, 738, 752, 867, 1109
Hin6I	GCGC	1 cut(s)	849
HinP1I	GCGC	1 cut(s)	849
HindIII	AAGCTT	1 cut(s)	168
HinfI	GANTC	2 cut(s)	659, 855
HphI	GGTGA	4 cut(s)	689, 1009, 1176, 1215
Hpy166II	GTNNAC	3 cut(s)	122, 718, 811
Hpy188I	TCNGA	4 cut(s)	297, 531, 1075, 1130
Hpy188III	TCNNGA	3 cut(s)	175, 507, 791
Hpy8I	GTNNAC	3 cut(s)	122, 718, 811
Hpy99I	CGWCG	2 cut(s)	149, 1210
HpyAV	CCTTC	2 cut(s)	45, 382
HpyCH4III	ACNGT	2 cut(s)	363, 924
HpyCH4IV	ACGT	4 cut(s)	384, 568, 720, 1011
HpyCH4V	TGCA	9 cut(s)	182, 273, 351, 593, 692, 968, 1086, 1152, 1235
HpyF10VI	GCNNNNNNNGC	1 cut(s)	372
HpyF3I	CTNAG	4 cut(s)	44, 116, 329, 984
HpySE526I	ACGT	4 cut(s)	384, 568, 720, 1011
Hsp92II	CATG	6 cut(s)	186, 731, 738, 752, 867, 1109
HspAI	GCGC	1 cut(s)	849
Ksp22I	TGATCA	1 cut(s)	946
Kzo9I	GATC	4 cut(s)	66, 875, 946, 1102
LmnI	GCTCC	2 cut(s)	992, 1076
Lsp1109I	GCAGC	2 cut(s)	567, 980
LweI	GCATC	2 cut(s)	630, 636
MabI	ACCWGGT	1 cut(s)	742
MaeI	CTAG	3 cut(s)	81, 888, 1173
MaeII	ACGT	4 cut(s)	384, 568, 720, 1011
MaeIII	GTNAC	7 cut(s)	646, 721, 730, 830, 1007, 1012, 1221
MalI	GATC	4 cut(s)	68, 877, 948, 1104
MbiI	CCGCTC	1 cut(s)	995
MboI	GATC	4 cut(s)	66, 875, 946, 1102
MboII	GAAGA	6 cut(s)	23, 244, 245, 654, 699, 892
MfeI	CAATTG	1 cut(s)	1230
MflI	RGATCY	1 cut(s)	875
MlsI	TGGCCA	1 cut(s)	102
MluNI	TGGCCA	1 cut(s)	102
MlyI	GAGTC	1 cut(s)	653
MmeI	TCCRAC	1 cut(s)	1098
MnlI	CCTC	9 cut(s)	29, 148, 261, 404, 404, 695, 866, 1129, 1197
Mox20I	TGGCCA	1 cut(s)	102
Mph1103I	ATGCAT	1 cut(s)	184
MscI	TGGCCA	1 cut(s)	102
MseI	TTAA	3 cut(s)	696, 918, 1255
MslI	CAYNNNNRTG	1 cut(s)	588
Msp20I	TGGCCA	1 cut(s)	102
MspR9I	CCNGG	1 cut(s)	744
MunI	CAATTG	1 cut(s)	1230
Mva1269I	GAATGC	3 cut(s)	184, 595, 889
MvaI	CCWGG	1 cut(s)	744
MwoI	GCNNNNNNNGC	1 cut(s)	372
NdeII	GATC	4 cut(s)	66, 875, 946, 1102
NlaIII	CATG	6 cut(s)	186, 731, 738, 752, 867, 1109
NlaIV	GGNNCC	2 cut(s)	136, 446
NmeAIII	GCCGAG	1 cut(s)	668
NmuCI	GTSAC	4 cut(s)	730, 830, 1007, 1221
NsbI	TGCGCA	1 cut(s)	850
NsiI	ATGCAT	1 cut(s)	184
NspI	RCATGY	1 cut(s)	738
PctI	GAATGC	3 cut(s)	184, 595, 889
PfeI	GAWTC	1 cut(s)	855
PflFI	GACNNNGTC	1 cut(s)	744
PflMI	CCANNNNNTGG	1 cut(s)	749
PkrI	GCNGC	2 cut(s)	557, 970
PleI	GAGTC	1 cut(s)	653
PpsI	GAGTC	1 cut(s)	653
Ppu21I	YACGTR	1 cut(s)	569
PpuMI	RGGWCCY	1 cut(s)	266
Psp5II	RGGWCCY	1 cut(s)	266
Psp6I	CCWGG	1 cut(s)	742
PspFI	CCCAGC	1 cut(s)	979
PspGI	CCWGG	1 cut(s)	742
PspN4I	GGNNCC	2 cut(s)	136, 446
PspPI	GGNCC	4 cut(s)	266, 317, 391, 740
PspPPI	RGGWCCY	1 cut(s)	266
PsuI	RGATCY	1 cut(s)	875
PsyI	GACNNNGTC	1 cut(s)	744
RsaI	GTAC	3 cut(s)	123, 243, 567
RsaNI	GTAC	3 cut(s)	122, 242, 566
RseI	CAYNNNNRTG	1 cut(s)	588
SaqAI	TTAA	3 cut(s)	696, 918, 1255
SatI	GCNGC	2 cut(s)	556, 969
Sau3AI	GATC	4 cut(s)	66, 875, 946, 1102
Sau96I	GGNCC	4 cut(s)	266, 317, 391, 740
SchI	GAGTC	1 cut(s)	653
ScrFI	CCNGG	1 cut(s)	744
SexAI	ACCWGGT	1 cut(s)	742
SfaNI	GCATC	2 cut(s)	630, 636
SinI	GGWCC	3 cut(s)	266, 317, 740
SmiMI	CAYNNNNRTG	1 cut(s)	588
SnaBI	TACGTA	1 cut(s)	569
SsiI	CCGC	5 cut(s)	227, 596, 738, 995, 1122
SspI	AATATT	2 cut(s)	310, 1093
SspMI	CTAG	3 cut(s)	81, 888, 1173
StyD4I	CCNGG	1 cut(s)	742
TaaI	ACNGT	2 cut(s)	363, 924
TaiI	ACGT	4 cut(s)	387, 571, 723, 1014
TaqI	TCGA	2 cut(s)	801, 1208
TatI	WGTACW	2 cut(s)	121, 241
TfiI	GAWTC	1 cut(s)	855
Tru1I	TTAA	3 cut(s)	696, 918, 1255
Tru9I	TTAA	3 cut(s)	696, 918, 1255
TscAI	CASTG	6 cut(s)	368, 763, 1027, 1036, 1068, 1168
TseFI	GTSAC	4 cut(s)	730, 830, 1007, 1221
TseI	GCWGC	2 cut(s)	555, 968
Tsp45I	GTSAC	4 cut(s)	730, 830, 1007, 1221
TspDTI	ATGAA	3 cut(s)	66, 572, 857
TspRI	CASTG	6 cut(s)	368, 763, 1027, 1036, 1068, 1168
Tth111I	GACNNNGTC	1 cut(s)	744
Van91I	CCANNNNNTGG	1 cut(s)	749
VpaK11BI	GGWCC	3 cut(s)	266, 317, 740
XceI	RCATGY	1 cut(s)	738
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1096
XmiI	GTMKAC	1 cut(s)	810
XspI	CTAG	3 cut(s)	81, 888, 1173
Zsp2I	ATGCAT	1 cut(s)	184

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