Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0006022

Physical Location & Seq

Genomic Coordinates Reverse (-)

40997034 .. 41001369

Gene Structure 4336 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG229300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1332 bp

ATGTTTATGCAGAGGTTTAGTAAGATTTGTTCGTCCTCTTTTATTGTGAATCAGGATCTCGTGCTTCGACTTGATGTCCACAGGAAGCTGGACAAGCATAGAGGATGTGTGAACACTGTAAGCTTCAATGCTGATGGCGATATTTTGCTTTCGGGTTCTGATGACAGGCGGCTCATACTATGGAACTGGGAAACGGGGAAAGTTAAGTTGTCATTCCATTCCGGTCATAATAGCAATGTTTTCCAAGCAAAGTTCATGCCTTATAGTGATGATCGAAGCATTGTCACTTGTGCTGCTGATGGGCAGGTGAGACATACTCAGATTTTAGAACGAGGACAAGTGGAATGTTCAATGTTGGCCAGACACCGTGGACGCGCTCATAAGTTAGCTATTGAGCCTGGGAGCCCTCATATTTTCTATACCTGTGGTGAAGATGGACTGGTGCAACATTTTGATCTCAGAACTGGGGCTCCCACAAAACTTTTGACATGCCAAACACTTGATGGTAGAAGGAGTTACTTGCCAGTTATCAGTCTAAATGCAATTGCAATTGACCCAAGAAATCCAAATCTCTTTGCAGTCGCAGGTTCTGATGAGTATACCCGGCTTTTTGATATCCGCAAGTATAACTGGGATGGATCATCTGATTTTGGTCAACCCACGAACTACTTCTGCCCACCACATTTGAATGGTAATGACCAAGTTGGAATTACAGGCTTGGCCTTTTCAGAACAAAGTGAGCTTCTTGTATCATACAATGACGAGTTCATCTATCTTTTTACACGAGAAATGGGATTAGGACCTAATCCTCCCATTTCCATGAGTAGTGATACAAGTGAAATGAGTGATGATCACCAGTCTGAAGAATCTCCATCATCCATGGATACTGATGAAAAAACTGTTCCTCAAGTTTACAAGGGTCACTTGAACTCCGAGACAGTGAAAGGTGTGAACTTCTTTGGGCCGAAATGCGAGTATGTTGTGAGTGGGTCTGACTGTGGGCGGATATTCATATGGAAGAAAAAGGGTGGTGAGTTGATTCGTGTCATGGAAGGAGATAAGGATGTAGTAAACTGTATCAAGTCTCATCCTCACACCATGGTACTTGCAAGCAGTGGAATTGAAAATGATATTAAGATGTGGACTCCAAAGGCTCTAGAGAGAGCTACTCTGCCTCAGAACATTGAACAGGTATGCTTTGTTACCCTGAGCTGTTTATTTATGTGTATAATCTCAGTAAGGTTTATAAATTTGCTCATCCAACTTTCCCATGGGGCTTATCTTGCACATCCTAGTTGTGAGCTTAGATGGTGTTGTGGCCCTGAAGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005739 GO:0005829 GO:0031461 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0070013 GO:0080008 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

443

Amino Acids

49.74

Weight (kDa)

5.97

Isoelectric Point (pI)

39.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_TEP1_2nd	PF25047	19 - 115	1.3e-07	TEP-1 second beta-propeller
Beta-prop_WDR5	PF25175	24 - 163	1.1e-15	WDR5 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	27 - 151	6.7e-13	WDR3 first beta-propeller domain
WD40	PF00400	28 - 62	8.3e-07	WD domain, G-beta repeat
WDR55	PF24796	29 - 154	7.9e-08	WDR55
Beta-prop_WDR3_2nd	PF25172	29 - 149	7.8e-06	WDR3 second beta-propeller domain
WD40_CDC20-Fz	PF24807	30 - 206	2.3e-08	CDC20/Fizzy WD40 domain
Beta-prop_THOC3	PF25174	33 - 104	3.6e-10	THOC3 beta-propeller domain
WD40_Prp19	PF24814	37 - 245	3.8e-12	Prp19 WD40 domain
Beta-prop_WDR5	PF25175	295 - 381	7.6e-14	WDR5 beta-propeller domain

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: OG0006022)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35140 AT4G35140 AT4G38480 AT4G38480
fragaria_vesca	FvH4_2g15750 FvH4_2g15750 FvH4_2g15750
malus_domestica	MD05G1126500.v1.1
prunus_persica	Prupe.8G169900_v2.0.a1 Prupe.8G169900_v2.0.a1 Prupe.8G169900_v2.0.a1
pyrus_communis	pycom05g12230
rosa_chinensis	RchiOBHm_Chr6g0279061 RchiOBHm_Chr6g0279071
rosa_laevigata	RLG00000013169
rosa_multiflora	Rmu_co8384295.1_g000001
rosa_roxburghii	Rroxscaffold_7G00189170
rosa_rugosa	Rorug06G0121800 Rorug06G0121900 Rorug06G0122000
rosa_samantha	Rh6AG230800 Rh6BG235600 Rh6CG237700 Rh6DG229300
rosa_wichuraiana	Rw0G017050 Rw0G021130 Rw6G020200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1247
AarI	CACCTGC	1 cut(s)	295
Acc36I	ACCTGC	2 cut(s)	295, 575
AccI	GTMKAC	1 cut(s)	599
AccII	CGCG	1 cut(s)	375
AciI	CCGC	3 cut(s)	169, 619, 1003
AclWI	GGATC	2 cut(s)	63, 646
AcoI	YGGCCR	1 cut(s)	357
AcsI	RAATTY	1 cut(s)	1249
AcuI	CTGAAG	1 cut(s)	882
AfaI	GTAC	1 cut(s)	1104
AgsI	TTSAA	6 cut(s)	127, 351, 688, 928, 1124, 1187
AhdI	GACNNNNNGTC	1 cut(s)	74
AjnI	CCWGG	1 cut(s)	397
AloI	GAACNNNNNNTCC	2 cut(s)	454, 486
AluBI	AGCT	7 cut(s)	88, 123, 389, 742, 1166, 1212, 1303
AluI	AGCT	7 cut(s)	88, 123, 389, 742, 1166, 1212, 1303
Alw26I	GTCTC	3 cut(s)	304, 929, 1089
AlwI	GGATC	2 cut(s)	63, 646
AlwNI	CAGNNNCTG	1 cut(s)	590
AoxI	GGCC	4 cut(s)	357, 720, 962, 1318
ApeKI	GCWGC	1 cut(s)	293
ApoI	RAATTY	1 cut(s)	1249
Asp700I	GAANNNNTTC	1 cut(s)	668
AspLEI	GCGC	1 cut(s)	377
AspS9I	GGNCC	3 cut(s)	800, 962, 1319
AsuC2I	CCSGG	1 cut(s)	604
AsuHPI	GGTGA	4 cut(s)	319, 440, 845, 1043
AvaII	GGWCC	1 cut(s)	800
BalI	TGGCCA	1 cut(s)	359
BanII	GRGCYC	2 cut(s)	407, 472
BauI	CACGAG	2 cut(s)	59, 783
BbvI	GCAGC	1 cut(s)	280
BccI	CCATC	7 cut(s)	128, 293, 428, 497, 629, 880, 1302
BciT130I	CCWGG	1 cut(s)	399
BciVI	GTATCC	1 cut(s)	877
BclI	TGATCA	1 cut(s)	850
BcnI	CCSGG	1 cut(s)	604
BcoDI	GTCTC	3 cut(s)	304, 929, 1089
BfaI	CTAG	2 cut(s)	1157, 1293
BfuAI	ACCTGC	2 cut(s)	295, 575
BfuI	GTATCC	1 cut(s)	877
BisI	GCNGC	2 cut(s)	170, 294
BlsI	GCNGC	2 cut(s)	171, 295
Bme1390I	CCNGG	2 cut(s)	399, 604
Bme18I	GGWCC	1 cut(s)	800
BmeRI	GACNNNNNGTC	1 cut(s)	74
BmgT120I	GGNCC	3 cut(s)	800, 962, 1319
BmiI	GGNNCC	2 cut(s)	404, 471
BmrFI	CCNGG	2 cut(s)	399, 604
BmrI	ACTGGG	3 cut(s)	196, 474, 640
BmuI	ACTGGG	3 cut(s)	196, 474, 640
BplI	GAGNNNNNCTC	4 cut(s)	301, 333, 1153, 1185
Bpu10I	CCTNAGC	1 cut(s)	1208
BpuEI	CTTGAG	1 cut(s)	891
BpuMI	CCSGG	1 cut(s)	604
BsaJI	CCNNGG	5 cut(s)	367, 398, 879, 1098, 1270
BsaWI	WCCGGW	1 cut(s)	221
BsaXI	ACNNNNNCTCC	4 cut(s)	454, 484, 914, 944
Bse1I	ACTGG	6 cut(s)	191, 444, 469, 524, 635, 856
Bse3DI	GCAATG	1 cut(s)	241
BseBI	CCWGG	1 cut(s)	399
BseDI	CCNNGG	5 cut(s)	367, 398, 879, 1098, 1270
BseGI	GGATG	7 cut(s)	110, 640, 875, 1069, 1087, 1257, 1288
BseMI	GCAATG	1 cut(s)	241
BseMII	CTCAG	5 cut(s)	332, 472, 1190, 1199, 1248
BseNI	ACTGG	6 cut(s)	191, 444, 469, 524, 635, 856
BseXI	GCAGC	1 cut(s)	280
Bsh1236I	CGCG	1 cut(s)	375
BshFI	GGCC	4 cut(s)	359, 722, 964, 1320
BsiSI	CCGG	2 cut(s)	222, 604
BsmAI	GTCTC	3 cut(s)	304, 929, 1089
BsnI	GGCC	4 cut(s)	359, 722, 964, 1320
Bsp1286I	GDGCHC	2 cut(s)	407, 472
Bsp143I	GATC	5 cut(s)	55, 271, 454, 638, 850
Bsp19I	CCATGG	3 cut(s)	879, 1098, 1270
BspACI	CCGC	3 cut(s)	169, 619, 1003
BspANI	GGCC	4 cut(s)	359, 722, 964, 1320
BspCNI	CTCAG	5 cut(s)	331, 471, 1189, 1200, 1247
BspFNI	CGCG	1 cut(s)	375
BspLI	GGNNCC	2 cut(s)	404, 471
BspMI	ACCTGC	2 cut(s)	295, 575
BspPI	GGATC	2 cut(s)	63, 646
BsrDI	GCAATG	1 cut(s)	241
BsrI	ACTGG	6 cut(s)	191, 444, 469, 524, 635, 856
BssECI	CCNNGG	5 cut(s)	367, 398, 879, 1098, 1270
BssMI	GATC	5 cut(s)	55, 271, 454, 638, 850
BssNAI	GTATAC	1 cut(s)	600
BssSI	CACGAG	2 cut(s)	59, 783
BssT1I	CCWWGG	3 cut(s)	879, 1098, 1270
Bst1107I	GTATAC	1 cut(s)	600
Bst2BI	CACGAG	2 cut(s)	59, 783
Bst2UI	CCWGG	1 cut(s)	399
Bst4CI	ACNGT	6 cut(s)	118, 368, 901, 940, 998, 1076
BstC8I	GCNNGC	1 cut(s)	1111
BstDEI	CTNAG	6 cut(s)	318, 458, 1176, 1208, 1234, 1304
BstDSI	CCRYGG	4 cut(s)	367, 879, 1098, 1270
BstF5I	GGATG	7 cut(s)	110, 640, 875, 1069, 1087, 1257, 1288
BstFNI	CGCG	1 cut(s)	375
BstHHI	GCGC	1 cut(s)	377
BstKTI	GATC	5 cut(s)	58, 274, 457, 641, 853
BstMAI	GTCTC	3 cut(s)	304, 929, 1089
BstMBI	GATC	5 cut(s)	55, 271, 454, 638, 850
BstMWI	GCNNNNNNNGC	2 cut(s)	94, 1283
BstNI	CCWGG	1 cut(s)	399
BstNSI	RCATGY	1 cut(s)	492
BstSCI	CCNGG	2 cut(s)	397, 602
BstUI	CGCG	1 cut(s)	375
BstV1I	GCAGC	1 cut(s)	280
BstX2I	RGATCY	1 cut(s)	55
BstYI	RGATCY	1 cut(s)	55
BstZ17I	GTATAC	1 cut(s)	600
BsuI	GTATCC	1 cut(s)	877
BsuRI	GGCC	4 cut(s)	359, 722, 964, 1320
BtgI	CCRYGG	4 cut(s)	367, 879, 1098, 1270
BtsCI	GGATG	7 cut(s)	110, 640, 875, 1069, 1087, 1257, 1288
BtsI	GCAGTG	1 cut(s)	1120
BtsIMutI	CAGTG	3 cut(s)	114, 945, 1120
BveI	ACCTGC	2 cut(s)	295, 575
Cac8I	GCNNGC	1 cut(s)	1111
CaiI	CAGNNNCTG	1 cut(s)	590
CfoI	GCGC	1 cut(s)	377
Cfr13I	GGNCC	3 cut(s)	800, 962, 1319
CseI	GACGC	1 cut(s)	381
Csp6I	GTAC	1 cut(s)	1103
CspCI	CAANNNNNGTGG	2 cut(s)	666, 701
CviAII	CATG	7 cut(s)	256, 489, 820, 880, 1048, 1099, 1271
CviQI	GTAC	1 cut(s)	1103
DdeI	CTNAG	6 cut(s)	318, 458, 1176, 1208, 1234, 1304
DpnI	GATC	5 cut(s)	57, 273, 456, 640, 852
DpnII	GATC	5 cut(s)	55, 271, 454, 638, 850
DriI	GACNNNNNGTC	1 cut(s)	74
EaeI	YGGCCR	1 cut(s)	357
Eam1105I	GACNNNNNGTC	1 cut(s)	74
EciI	GGCGGA	1 cut(s)	1018
Eco130I	CCWWGG	3 cut(s)	879, 1098, 1270
Eco24I	GRGCYC	2 cut(s)	407, 472
Eco32I	GATATC	1 cut(s)	616
Eco47I	GGWCC	1 cut(s)	800
Eco57I	CTGAAG	1 cut(s)	882
EcoO109I	RGGNCCY	1 cut(s)	800
EcoRII	CCWGG	1 cut(s)	397
EcoRV	GATATC	1 cut(s)	616
EcoT14I	CCWWGG	3 cut(s)	879, 1098, 1270
EcoT38I	GRGCYC	2 cut(s)	407, 472
ErhI	CCWWGG	3 cut(s)	879, 1098, 1270
FaeI	CATG	7 cut(s)	259, 492, 823, 883, 1051, 1102, 1274
FalI	AAGNNNNNCTT	2 cut(s)	908, 940
FatI	CATG	7 cut(s)	255, 488, 819, 879, 1047, 1098, 1270
FauNDI	CATATG	1 cut(s)	1013
FbaI	TGATCA	1 cut(s)	850
FblI	GTMKAC	1 cut(s)	599
Fnu4HI	GCNGC	2 cut(s)	170, 294
FokI	GGATG	7 cut(s)	117, 647, 862, 1074, 1076, 1244, 1275
FriOI	GRGCYC	2 cut(s)	407, 472
Fsp4HI	GCNGC	2 cut(s)	170, 294
FspBI	CTAG	2 cut(s)	1157, 1293
GlaI	GCGC	1 cut(s)	376
GluI	GCNGC	2 cut(s)	170, 294
HaeIII	GGCC	4 cut(s)	359, 722, 964, 1320
HapII	CCGG	2 cut(s)	222, 604
HgaI	GACGC	1 cut(s)	381
HhaI	GCGC	1 cut(s)	377
Hin1II	CATG	7 cut(s)	259, 492, 823, 883, 1051, 1102, 1274
Hin6I	GCGC	1 cut(s)	375
HinP1I	GCGC	1 cut(s)	375
HincII	GTYRAC	1 cut(s)	656
HindII	GTYRAC	1 cut(s)	656
HindIII	AAGCTT	1 cut(s)	121
HinfI	GANTC	4 cut(s)	49, 866, 1039, 1144
HpaII	CCGG	2 cut(s)	222, 604
HphI	GGTGA	4 cut(s)	319, 440, 845, 1043
Hpy166II	GTNNAC	9 cut(s)	79, 112, 371, 600, 656, 913, 952, 1072, 1143
Hpy188III	TCNNGA	2 cut(s)	53, 1157
Hpy8I	GTNNAC	9 cut(s)	79, 112, 371, 600, 656, 913, 952, 1072, 1143
HpyAV	CCTTC	2 cut(s)	504, 1046
HpyCH4III	ACNGT	6 cut(s)	118, 368, 901, 940, 998, 1076
HpyCH4V	TGCA	7 cut(s)	10, 445, 542, 548, 578, 1109, 1286
HpyF10VI	GCNNNNNNNGC	2 cut(s)	94, 1283
HpyF3I	CTNAG	6 cut(s)	318, 458, 1176, 1208, 1234, 1304
Hsp92II	CATG	7 cut(s)	259, 492, 823, 883, 1051, 1102, 1274
HspAI	GCGC	1 cut(s)	375
Ksp22I	TGATCA	1 cut(s)	850
Kzo9I	GATC	5 cut(s)	55, 271, 454, 638, 850
LmnI	GCTCC	2 cut(s)	402, 475
Lsp1109I	GCAGC	1 cut(s)	280
MaeI	CTAG	2 cut(s)	1157, 1293
MaeIII	GTNAC	4 cut(s)	283, 515, 920, 1201
MalI	GATC	5 cut(s)	57, 273, 456, 640, 852
MboI	GATC	5 cut(s)	55, 271, 454, 638, 850
MboII	GAAGA	3 cut(s)	443, 875, 1030
MfeI	CAATTG	2 cut(s)	543, 549
MflI	RGATCY	1 cut(s)	55
MhlI	GDGCHC	2 cut(s)	407, 472
MlsI	TGGCCA	1 cut(s)	359
MluCI	AATT	5 cut(s)	543, 549, 708, 1119, 1249
MluNI	TGGCCA	1 cut(s)	359
MlyI	GAGTC	1 cut(s)	1138
MmeI	TCCRAC	2 cut(s)	685, 1285
MnlI	CCTC	9 cut(s)	6, 46, 95, 326, 417, 819, 915, 1101, 1185
Mox20I	TGGCCA	1 cut(s)	359
MroXI	GAANNNNTTC	1 cut(s)	668
MscI	TGGCCA	1 cut(s)	359
MseI	TTAA	2 cut(s)	204, 1134
MslI	CAYNNNNRTG	2 cut(s)	687, 818
Msp20I	TGGCCA	1 cut(s)	359
MspI	CCGG	2 cut(s)	222, 604
MspR9I	CCNGG	2 cut(s)	399, 604
MunI	CAATTG	2 cut(s)	543, 549
MvaI	CCWGG	1 cut(s)	399
MvnI	CGCG	1 cut(s)	375
MwoI	GCNNNNNNNGC	2 cut(s)	94, 1283
NciI	CCSGG	1 cut(s)	604
NcoI	CCATGG	3 cut(s)	879, 1098, 1270
NdeI	CATATG	1 cut(s)	1013
NdeII	GATC	5 cut(s)	55, 271, 454, 638, 850
NlaIII	CATG	7 cut(s)	259, 492, 823, 883, 1051, 1102, 1274
NlaIV	GGNNCC	2 cut(s)	404, 471
NmuCI	GTSAC	2 cut(s)	283, 920
NspI	RCATGY	1 cut(s)	492
PaqCI	CACCTGC	1 cut(s)	295
PdmI	GAANNNNTTC	1 cut(s)	668
PfeI	GAWTC	3 cut(s)	49, 866, 1039
PkrI	GCNGC	2 cut(s)	171, 295
PleI	GAGTC	1 cut(s)	1138
PpsI	GAGTC	1 cut(s)	1138
PpuMI	RGGWCCY	1 cut(s)	800
PsiI	TTATAA	1 cut(s)	1247
Psp5II	RGGWCCY	1 cut(s)	800
Psp6I	CCWGG	1 cut(s)	397
PspGI	CCWGG	1 cut(s)	397
PspN4I	GGNNCC	2 cut(s)	404, 471
PspPI	GGNCC	3 cut(s)	800, 962, 1319
PspPPI	RGGWCCY	1 cut(s)	800
PsrI	GAACNNNNNNTAC	2 cut(s)	13, 45
PstNI	CAGNNNCTG	1 cut(s)	590
PsuI	RGATCY	1 cut(s)	55
RsaI	GTAC	1 cut(s)	1104
RsaNI	GTAC	1 cut(s)	1103
RseI	CAYNNNNRTG	2 cut(s)	687, 818
SaqAI	TTAA	2 cut(s)	204, 1134
SatI	GCNGC	2 cut(s)	170, 294
Sau3AI	GATC	5 cut(s)	55, 271, 454, 638, 850
Sau96I	GGNCC	3 cut(s)	800, 962, 1319
SchI	GAGTC	1 cut(s)	1138
ScrFI	CCNGG	2 cut(s)	399, 604
SduI	GDGCHC	2 cut(s)	407, 472
SinI	GGWCC	1 cut(s)	800
SmiMI	CAYNNNNRTG	2 cut(s)	687, 818
SmlI	CTYRAG	1 cut(s)	906
SmoI	CTYRAG	1 cut(s)	906
Sse9I	AATT	5 cut(s)	543, 549, 708, 1119, 1249
SsiI	CCGC	3 cut(s)	169, 619, 1003
SspMI	CTAG	2 cut(s)	1157, 1293
StyD4I	CCNGG	2 cut(s)	397, 602
StyI	CCWWGG	3 cut(s)	879, 1098, 1270
TaaI	ACNGT	6 cut(s)	118, 368, 901, 940, 998, 1076
TaqI	TCGA	2 cut(s)	67, 274
TasI	AATT	5 cut(s)	543, 549, 708, 1119, 1249
TauI	GCSGC	1 cut(s)	172
TfiI	GAWTC	3 cut(s)	49, 866, 1039
Tru1I	TTAA	2 cut(s)	204, 1134
Tru9I	TTAA	2 cut(s)	204, 1134
TscAI	CASTG	3 cut(s)	121, 945, 1120
TseFI	GTSAC	2 cut(s)	283, 920
TseI	GCWGC	1 cut(s)	293
Tsp45I	GTSAC	2 cut(s)	283, 920
TspDTI	ATGAA	4 cut(s)	244, 757, 906, 1000
TspRI	CASTG	3 cut(s)	121, 945, 1120
VpaK11BI	GGWCC	1 cut(s)	800
XapI	RAATTY	1 cut(s)	1249
XbaI	TCTAGA	1 cut(s)	1156
XceI	RCATGY	1 cut(s)	492
XcmI	CCANNNNNNNNNTGG	2 cut(s)	500, 1268
XmiI	GTMKAC	1 cut(s)	599
XmnI	GAANNNNTTC	1 cut(s)	668
XspI	CTAG	2 cut(s)	1157, 1293

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