Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0005198

Physical Location & Seq

Genomic Coordinates Forward (+)

29436707 .. 29439531

Gene Structure 2825 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G023490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1302 bp

ATGGATGGGCACAATGAACTTGACCTGATTGCTGAGAGTTTCGACCCCGGGATTATTGGGAGATTGAGGGAAGAGGAGTTTGACCAGAGCCGGTCAGGCAGTGACCACTTTGATGGGGCATCCGGTGATGATCAAGACCCTGTCGACGAGGATGATCGGCCACGGAGGAAGAAGAAGTATCATCGTCATACCCCCAGCCAAATCCAAGAACTGGAATCTTTCTTTAAGGAATGCCCACATCCTGATGAAAAGCAAAGGTTGGACCTCAGCAGGAGGCTTGGCTTGGAGGCTAAGCAAGTCAAGTTTTGGTTCCAGAATAGAAGAACTCAAATGAAGAATCGATGGACAGATATGTTCCCTACTTTGGTTGCTAGAGCCTCCACCATTGGCATGATTTCCAGCGGCCCAAACGGAACCAGAAATGGTACTATTCAAATGATGCATGCCGAGCTTCAAATGCTTTCGCCATTGGTTCCAGTCCGTCCACTCAAGTTCCTCCGTTTTTCCAAGCAGCATGCAGAGGGTGTGTGGGCTGTTGTCGATGTTTCCATTGACATCCAGCAAGATGCTTCCAGTGTCAACTGCCGGAGGCTTCCTTCTGGCTTCATTGTGCAAGATATGCCCAATGGTTACTCCAAGGTGACTTGGATAGAACATTTAGAATATAATGAGAGTGGTGTTCACCAATTGTTACAGCCATTACTACGTTCTGGTATTGGCTTTGGTGCACAGAGGTGGCTTGCCACTCTCCGGAGGGAATGTGAGTCCCTGACTTTCCTCATGTCCTCTACCAATCCTAATGAAGTTCCTAGAGGGTTAAGTATGAATTCAAAGAAAAGCATGCTAAGGTTGGCACAGCGGATGATGCAAAGCTTTTGTTCTGGGGTTTGTGGCTCATCAGTGCGCCAGTGGGACAAACTCTGTATTGATAATGTTAGTGACAACGTGAGGGTAATGGTGCGTCAGAGTTTGGAGGTCGGTGAGCCATCTGGCTTCGTGTTGAGTGCTGCAACATCTGTTTGGATGCCAGTATCAAGGTCAAGGCTGTTTGATTTCTTGCGAGACTGGCAATTAAGGGGGCAGTGGGACATTTTGGTCAGCTGTCGTCCACTGCAAGCCATGGTTCAGGTTGACAAGGATCACGGAGGTGGCAACAGTGTTTCTCTCTTTAATGCCAAGGGTCTTGTTGCCAACAACAATAATAACATGCTGATGTTCCAAGAGACTAGGACGGATGCTTCAGGGTCAATAGTTGTGTATGCACCGATCACTTCAACAAGTAAAGGCCGAAAGAAATTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox START

Protein Analysis

433

Amino Acids

49.08

Weight (kDa)

8.79

Isoelectric Point (pI)

54.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	57 - 113	5.6e-20	Homeodomain
START	PF01852	111 - 255	9.5e-34	START domain
PDF2_C	PF25797	275 - 425	1.1e-49	PDF2-like, C-terminal 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: OG0005198)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g29130 FvH4_7g29130 FvH4_7g29130 FvH4_7g29130 FvH4_7g29130 FvH4_7g29130 FvH4_7g29130 FvH4_7g29130
malus_domestica	MD01G1198100.v1.1 MD07G1266200.v1.1
prunus_persica	Prupe.2G291400_v2.0.a1
pyrus_communis	pycom01g20820 pycom07g24390
rosa_chinensis	RchiOBHm_Chr1g0376881
rosa_laevigata	RLG00000026562
rosa_multiflora	Rmu_co8045660.1_g000001 Rmu_sc0002113.1_g000002 Rmu_ssc0000125.1_g000012
rosa_roxburghii	Rroxscaffold_4G00281650
rosa_rugosa	Rorug01G0399300 Rorug01G0399400 Rorug01G0399500 Rorug01G0399600 Rorug01G0399600
rosa_samantha	Rh1AG416600 Rh1BG375800 Rh1CG389600 Rh1DG406400
rosa_wichuraiana	Rw1G036550 Rw3G023490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1094
AccB7I	CCANNNNNTGG	1 cut(s)	211
AccI	GTMKAC	1 cut(s)	144
AccIII	TCCGGA	1 cut(s)	750
AciI	CCGC	2 cut(s)	402, 859
AclWI	GGATC	1 cut(s)	1146
AcoI	YGGCCR	1 cut(s)	158
AcsI	RAATTY	1 cut(s)	826
AcuI	CTGAAG	1 cut(s)	1224
AfaI	GTAC	1 cut(s)	427
AfiI	CCNNNNNNNGG	3 cut(s)	211, 364, 750
AgsI	TTSAA	4 cut(s)	434, 455, 831, 1275
AleI	CACNNNNGTG	2 cut(s)	733, 1146
AluBI	AGCT	3 cut(s)	451, 873, 1101
AluI	AGCT	3 cut(s)	451, 873, 1101
Alw21I	GWGCWC	1 cut(s)	730
Alw26I	GTCTC	2 cut(s)	1056, 1217
Alw44I	GTGCAC	1 cut(s)	726
AlwI	GGATC	1 cut(s)	1146
Ama87I	CYCGRG	1 cut(s)	47
Aor13HI	TCCGGA	1 cut(s)	750
AoxI	GGCC	3 cut(s)	158, 403, 1285
ApaLI	GTGCAC	1 cut(s)	726
ApeKI	GCWGC	2 cut(s)	511, 1007
ApoI	RAATTY	1 cut(s)	826
AspLEI	GCGC	1 cut(s)	906
AspS9I	GGNCC	2 cut(s)	262, 404
AsuC2I	CCSGG	2 cut(s)	48, 49
AsuHPI	GGTGA	4 cut(s)	137, 652, 674, 992
AvaI	CYCGRG	1 cut(s)	47
AvaII	GGWCC	1 cut(s)	262
BaeGI	GKGCMC	2 cut(s)	12, 730
Bbv12I	GWGCWC	1 cut(s)	730
BbvCI	CCTCAGC	1 cut(s)	266
BbvI	GCAGC	2 cut(s)	523, 994
BccI	CCATC	3 cut(s)	107, 336, 994
BclI	TGATCA	1 cut(s)	130
BcnI	CCSGG	2 cut(s)	48, 49
BcoDI	GTCTC	2 cut(s)	1056, 1217
BfaI	CTAG	3 cut(s)	372, 810, 1227
BglI	GCCNNNNNGGC	1 cut(s)	96
BisI	GCNGC	3 cut(s)	403, 512, 1008
BlpI	GCTNAGC	1 cut(s)	291
BlsI	GCNGC	3 cut(s)	404, 513, 1009
Bme1390I	CCNGG	2 cut(s)	48, 49
Bme18I	GGWCC	1 cut(s)	262
BmeT110I	CYCGRG	1 cut(s)	47
BmgT120I	GGNCC	2 cut(s)	262, 404
BmiI	GGNNCC	3 cut(s)	311, 415, 474
BmrFI	CCNGG	2 cut(s)	48, 49
BmsI	GCATC	6 cut(s)	128, 429, 556, 855, 1014, 1225
Bpu10I	CCTNAGC	2 cut(s)	266, 845
Bpu1102I	GCTNAGC	1 cut(s)	291
BpuEI	CTTGAG	1 cut(s)	473
BpuMI	CCSGG	2 cut(s)	48, 49
Bsa29I	ATCGAT	1 cut(s)	340
BsaJI	CCNNGG	6 cut(s)	46, 47, 161, 636, 1119, 1176
BsaWI	WCCGGW	2 cut(s)	122, 750
BsaXI	ACNNNNNCTCC	2 cut(s)	745, 775
Bsc4I	CCNNNNNNNGG	3 cut(s)	211, 364, 750
Bse118I	RCCGGY	1 cut(s)	90
Bse1I	ACTGG	6 cut(s)	216, 476, 573, 907, 1028, 1070
BseAI	TCCGGA	1 cut(s)	750
BseCI	ATCGAT	1 cut(s)	340
BseDI	CCNNGG	6 cut(s)	46, 47, 161, 636, 1119, 1176
BseGI	GGATG	8 cut(s)	10, 119, 157, 238, 555, 867, 1029, 1240
BseLI	CCNNNNNNNGG	3 cut(s)	211, 364, 750
BseMII	CTCAG	2 cut(s)	24, 280
BseNI	ACTGG	6 cut(s)	216, 476, 573, 907, 1028, 1070
BseRI	GAGGAG	1 cut(s)	89
BseSI	GKGCMC	2 cut(s)	12, 730
BseXI	GCAGC	2 cut(s)	523, 994
BseYI	CCCAGC	1 cut(s)	194
BshFI	GGCC	3 cut(s)	160, 405, 1287
BshVI	ATCGAT	1 cut(s)	340
BsiHKAI	GWGCWC	1 cut(s)	730
BsiHKCI	CYCGRG	1 cut(s)	47
BsiSI	CCGG	5 cut(s)	48, 91, 123, 586, 751
BslFI	GGGAC	3 cut(s)	751, 926, 1100
BslI	CCNNNNNNNGG	3 cut(s)	211, 364, 750
BsmAI	GTCTC	2 cut(s)	1056, 1217
BsmFI	GGGAC	3 cut(s)	751, 926, 1100
BsmI	GAATGC	1 cut(s)	236
BsnI	GGCC	3 cut(s)	160, 405, 1287
BsoBI	CYCGRG	1 cut(s)	47
Bsp1286I	GDGCHC	2 cut(s)	12, 730
Bsp13I	TCCGGA	1 cut(s)	750
Bsp143I	GATC	4 cut(s)	130, 154, 1138, 1266
Bsp1720I	GCTNAGC	1 cut(s)	291
Bsp19I	CCATGG	1 cut(s)	1119
BspACI	CCGC	2 cut(s)	402, 859
BspANI	GGCC	3 cut(s)	160, 405, 1287
BspCNI	CTCAG	2 cut(s)	25, 279
BspDI	ATCGAT	1 cut(s)	340
BspEI	TCCGGA	1 cut(s)	750
BspLI	GGNNCC	3 cut(s)	311, 415, 474
BspPI	GGATC	1 cut(s)	1146
BsrFI	RCCGGY	1 cut(s)	90
BsrI	ACTGG	6 cut(s)	216, 476, 573, 907, 1028, 1070
BssAI	RCCGGY	1 cut(s)	90
BssECI	CCNNGG	6 cut(s)	46, 47, 161, 636, 1119, 1176
BssMI	GATC	4 cut(s)	130, 154, 1138, 1266
BssT1I	CCWWGG	3 cut(s)	636, 1119, 1176
Bst4CI	ACNGT	1 cut(s)	1157
Bst6I	CTCTTC	1 cut(s)	66
BstAPI	GCANNNNNTGC	1 cut(s)	619
BstC8I	GCNNGC	5 cut(s)	444, 516, 741, 842, 1116
BstDEI	CTNAG	4 cut(s)	33, 266, 291, 845
BstDSI	CCRYGG	2 cut(s)	161, 1119
BstF5I	GGATG	8 cut(s)	10, 119, 157, 238, 555, 867, 1029, 1240
BstHHI	GCGC	1 cut(s)	906
BstKTI	GATC	4 cut(s)	133, 157, 1141, 1269
BstMAI	GTCTC	2 cut(s)	1056, 1217
BstMBI	GATC	4 cut(s)	130, 154, 1138, 1266
BstMWI	GCNNNNNNNGC	6 cut(s)	96, 448, 457, 619, 865, 1066
BstNSI	RCATGY	4 cut(s)	446, 518, 844, 1210
BstSCI	CCNGG	2 cut(s)	46, 47
BstSLI	GKGCMC	2 cut(s)	12, 730
BstV1I	GCAGC	2 cut(s)	523, 994
BstXI	CCANNNNNNTGG	1 cut(s)	113
Bsu15I	ATCGAT	1 cut(s)	340
BsuRI	GGCC	3 cut(s)	160, 405, 1287
BsuTUI	ATCGAT	1 cut(s)	340
BtgI	CCRYGG	2 cut(s)	161, 1119
BtsCI	GGATG	8 cut(s)	10, 119, 157, 238, 555, 867, 1029, 1240
BtsI	GCAGTG	3 cut(s)	106, 1088, 1109
BtsIMutI	CAGTG	7 cut(s)	106, 580, 906, 914, 1088, 1109, 1162
Cac8I	GCNNGC	5 cut(s)	444, 516, 741, 842, 1116
CfoI	GCGC	1 cut(s)	906
Cfr10I	RCCGGY	1 cut(s)	90
Cfr13I	GGNCC	2 cut(s)	262, 404
Cfr9I	CCCGGG	1 cut(s)	47
ClaI	ATCGAT	1 cut(s)	340
CseI	GACGC	1 cut(s)	950
Csp6I	GTAC	1 cut(s)	426
CviAII	CATG	7 cut(s)	391, 443, 515, 781, 841, 1120, 1207
CviQI	GTAC	1 cut(s)	426
DdeI	CTNAG	4 cut(s)	33, 266, 291, 845
DpnI	GATC	4 cut(s)	132, 156, 1140, 1268
DpnII	GATC	4 cut(s)	130, 154, 1138, 1266
DrdI	GACNNNNNNGTC	1 cut(s)	1094
DseDI	GACNNNNNNGTC	1 cut(s)	1094
EaeI	YGGCCR	1 cut(s)	158
Eam1104I	CTCTTC	1 cut(s)	66
EarI	CTCTTC	1 cut(s)	66
Eco130I	CCWWGG	3 cut(s)	636, 1119, 1176
Eco47I	GGWCC	1 cut(s)	262
Eco57I	CTGAAG	1 cut(s)	1224
Eco88I	CYCGRG	1 cut(s)	47
EcoRI	GAATTC	1 cut(s)	826
EcoT14I	CCWWGG	3 cut(s)	636, 1119, 1176
EcoT22I	ATGCAT	1 cut(s)	444
ErhI	CCWWGG	3 cut(s)	636, 1119, 1176
FaeI	CATG	7 cut(s)	394, 446, 518, 784, 844, 1123, 1210
FaqI	GGGAC	3 cut(s)	751, 926, 1100
FatI	CATG	7 cut(s)	390, 442, 514, 780, 840, 1119, 1206
FbaI	TGATCA	1 cut(s)	130
FblI	GTMKAC	1 cut(s)	144
Fnu4HI	GCNGC	3 cut(s)	403, 512, 1008
FokI	GGATG	8 cut(s)	17, 106, 164, 225, 542, 874, 1036, 1247
Fsp4HI	GCNGC	3 cut(s)	403, 512, 1008
FspBI	CTAG	3 cut(s)	372, 810, 1227
GlaI	GCGC	1 cut(s)	905
GluI	GCNGC	3 cut(s)	403, 512, 1008
GsaI	CCCAGC	1 cut(s)	198
HaeIII	GGCC	3 cut(s)	160, 405, 1287
HapII	CCGG	5 cut(s)	48, 91, 123, 586, 751
HgaI	GACGC	1 cut(s)	950
HhaI	GCGC	1 cut(s)	906
Hin1II	CATG	7 cut(s)	394, 446, 518, 784, 844, 1123, 1210
Hin6I	GCGC	1 cut(s)	904
HinP1I	GCGC	1 cut(s)	904
HincII	GTYRAC	3 cut(s)	145, 580, 1132
HindII	GTYRAC	3 cut(s)	145, 580, 1132
HindIII	AAGCTT	1 cut(s)	871
HinfI	GANTC	3 cut(s)	215, 337, 764
HpaII	CCGG	5 cut(s)	48, 91, 123, 586, 751
HphI	GGTGA	4 cut(s)	137, 652, 674, 992
Hpy166II	GTNNAC	7 cut(s)	145, 485, 580, 682, 728, 1109, 1132
Hpy188I	TCNGA	1 cut(s)	966
Hpy188III	TCNNGA	4 cut(s)	134, 242, 313, 751
Hpy8I	GTNNAC	7 cut(s)	145, 485, 580, 682, 728, 1109, 1132
Hpy99I	CGWCG	1 cut(s)	149
HpyAV	CCTTC	1 cut(s)	606
HpyCH4III	ACNGT	1 cut(s)	1157
HpyCH4IV	ACGT	2 cut(s)	706, 945
HpyCH4V	TGCA	8 cut(s)	442, 518, 613, 728, 868, 1010, 1114, 1262
HpyF10VI	GCNNNNNNNGC	6 cut(s)	96, 448, 457, 619, 865, 1066
HpyF3I	CTNAG	4 cut(s)	33, 266, 291, 845
HpySE526I	ACGT	2 cut(s)	706, 945
Hsp92II	CATG	7 cut(s)	394, 446, 518, 784, 844, 1123, 1210
HspAI	GCGC	1 cut(s)	904
Kpn2I	TCCGGA	1 cut(s)	750
Ksp22I	TGATCA	1 cut(s)	130
Kzo9I	GATC	4 cut(s)	130, 154, 1138, 1266
Lsp1109I	GCAGC	2 cut(s)	523, 994
LweI	GCATC	6 cut(s)	128, 429, 556, 855, 1014, 1225
MaeI	CTAG	3 cut(s)	372, 810, 1227
MaeII	ACGT	2 cut(s)	706, 945
MaeIII	GTNAC	5 cut(s)	101, 629, 640, 690, 938
MalI	GATC	4 cut(s)	132, 156, 1140, 1268
MboI	GATC	4 cut(s)	130, 154, 1138, 1266
MboII	GAAGA	5 cut(s)	83, 181, 184, 333, 346
MfeI	CAATTG	1 cut(s)	686
MhlI	GDGCHC	2 cut(s)	12, 730
MluCI	AATT	4 cut(s)	686, 826, 1070, 1295
MlyI	GAGTC	1 cut(s)	773
MmeI	TCCRAC	1 cut(s)	240
Mph1103I	ATGCAT	1 cut(s)	444
MroI	TCCGGA	1 cut(s)	750
MseI	TTAA	4 cut(s)	225, 818, 1073, 1170
MslI	CAYNNNNRTG	6 cut(s)	111, 243, 389, 733, 1146, 1211
MspA1I	CMGCKG	3 cut(s)	402, 859, 1101
MspI	CCGG	5 cut(s)	48, 91, 123, 586, 751
MspR9I	CCNGG	2 cut(s)	48, 49
MunI	CAATTG	1 cut(s)	686
Mva1269I	GAATGC	1 cut(s)	236
MwoI	GCNNNNNNNGC	6 cut(s)	96, 448, 457, 619, 865, 1066
NciI	CCSGG	2 cut(s)	48, 49
NcoI	CCATGG	1 cut(s)	1119
NdeII	GATC	4 cut(s)	130, 154, 1138, 1266
NlaIII	CATG	7 cut(s)	394, 446, 518, 784, 844, 1123, 1210
NlaIV	GGNNCC	3 cut(s)	311, 415, 474
NmeAIII	GCCGAG	1 cut(s)	472
NmuCI	GTSAC	3 cut(s)	101, 640, 938
NsiI	ATGCAT	1 cut(s)	444
NspI	RCATGY	4 cut(s)	446, 518, 844, 1210
OliI	CACNNNNGTG	2 cut(s)	733, 1146
PaeI	GCATGC	3 cut(s)	446, 518, 844
PctI	GAATGC	1 cut(s)	236
PfeI	GAWTC	2 cut(s)	215, 337
PflFI	GACNNNGTC	1 cut(s)	140
PflMI	CCANNNNNTGG	1 cut(s)	211
PkrI	GCNGC	3 cut(s)	404, 513, 1009
PleI	GAGTC	1 cut(s)	772
PpsI	GAGTC	1 cut(s)	772
PspFI	CCCAGC	1 cut(s)	194
PspN4I	GGNNCC	3 cut(s)	311, 415, 474
PspPI	GGNCC	2 cut(s)	262, 404
PsyI	GACNNNGTC	1 cut(s)	140
PvuII	CAGCTG	1 cut(s)	1101
RsaI	GTAC	1 cut(s)	427
RsaNI	GTAC	1 cut(s)	426
RseI	CAYNNNNRTG	6 cut(s)	111, 243, 389, 733, 1146, 1211
SalI	GTCGAC	1 cut(s)	143
SaqAI	TTAA	4 cut(s)	225, 818, 1073, 1170
SatI	GCNGC	3 cut(s)	403, 512, 1008
Sau3AI	GATC	4 cut(s)	130, 154, 1138, 1266
Sau96I	GGNCC	2 cut(s)	262, 404
SchI	GAGTC	1 cut(s)	773
ScrFI	CCNGG	2 cut(s)	48, 49
SduI	GDGCHC	2 cut(s)	12, 730
SfaNI	GCATC	6 cut(s)	128, 429, 556, 855, 1014, 1225
SinI	GGWCC	1 cut(s)	262
SmaI	CCCGGG	1 cut(s)	49
SmiMI	CAYNNNNRTG	6 cut(s)	111, 243, 389, 733, 1146, 1211
SmlI	CTYRAG	1 cut(s)	488
SmoI	CTYRAG	1 cut(s)	488
SphI	GCATGC	3 cut(s)	446, 518, 844
Sse9I	AATT	4 cut(s)	686, 826, 1070, 1295
SsiI	CCGC	2 cut(s)	402, 859
SspMI	CTAG	3 cut(s)	372, 810, 1227
StyD4I	CCNGG	2 cut(s)	46, 47
StyI	CCWWGG	3 cut(s)	636, 1119, 1176
TaaI	ACNGT	1 cut(s)	1157
TaiI	ACGT	2 cut(s)	709, 948
TaqI	TCGA	4 cut(s)	42, 144, 340, 540
TasI	AATT	4 cut(s)	686, 826, 1070, 1295
TauI	GCSGC	1 cut(s)	405
TfiI	GAWTC	2 cut(s)	215, 337
Tru1I	TTAA	4 cut(s)	225, 818, 1073, 1170
Tru9I	TTAA	4 cut(s)	225, 818, 1073, 1170
TscAI	CASTG	7 cut(s)	106, 580, 906, 914, 1088, 1116, 1162
TseFI	GTSAC	3 cut(s)	101, 640, 938
TseI	GCWGC	2 cut(s)	511, 1007
Tsp45I	GTSAC	3 cut(s)	101, 640, 938
TspDTI	ATGAA	6 cut(s)	30, 261, 347, 595, 816, 839
TspGWI	ACGGA	6 cut(s)	178, 426, 470, 488, 1158, 1247
TspMI	CCCGGG	1 cut(s)	47
TspRI	CASTG	7 cut(s)	106, 580, 906, 914, 1088, 1116, 1162
Tth111I	GACNNNGTC	1 cut(s)	140
Van91I	CCANNNNNTGG	1 cut(s)	211
VneI	GTGCAC	1 cut(s)	726
VpaK11BI	GGWCC	1 cut(s)	262
XapI	RAATTY	1 cut(s)	826
XceI	RCATGY	4 cut(s)	446, 518, 844, 1210
XmaI	CCCGGG	1 cut(s)	47
XmiI	GTMKAC	1 cut(s)	144
XspI	CTAG	3 cut(s)	372, 810, 1227
Zsp2I	ATGCAT	1 cut(s)	444

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