Rorug04G0449200

CLAVATA3 ESR-related

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0019139
Physical Location & Seq
Forward (+)
60442282 .. 60444239
1958 bp
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UTR
Exon/CDS
Intron
Rorug04G0449200.1

Sequence Viewer

Length: 1611 bp
ATGAGCTGGCCAGCCTCCTTGGATGTAATCATCCGATATAAGGATGTTAGCGTCACTAGTGATTCAGTGGATGACCTGTCTAAGGATGAAAGTTATGTTCAAAATTCAAAGGTCAGTGAGAGTTTGTTGCTGATGAAATTCTACTCCTTATCATCTGGGGTGGTGAATCACTTGCTCTCTGACCGTGAGGGTAGAGAGTTGGTTCTCCCATTTGAAGTTACTGACGAAGAAATGGAGGCCATACTTTACAATAGAAGTGCCTTCATAGTTGGGCGATCAGGCACTGGGAAGACCACTGTTTTAACAATGAAGTTATATCAGAAGCAGGAACAGTATTACAATATGTCAAAGGAAGGATTGTATGCTGTCGAGCAGAGTTCTGGAGGTTCTAATGCAACTGTTTTACGCCAGATATTTGTAACAGTTAGTCCAAAACTCTGTTTTGCAATCAAGCAACATGTATCGAACTTGAGAAGTTTTGCTTCTGATGTAAGCTGCCATTCAGCTGAATTCGGCTCGATTGGTCTGTATGATTGTGATGATGCAGAAGCAGAATTTAGGGATCTCCCAAATTCATTTCTTGATATTCCTTCCGAGCGTTATCCTCTTTTTATAACATTCCATAAATTTTTAATGATGCTGGATGGAAGTTTGAGTAATTCATACTTTGAAAGACTCCTTGACAACCTAAAACTATCTCATAGTCCACTACAAAATTCAAGATCAACTTTGCTGAAAAGCTTTATGAGGACAAAAGAGGTCAATTATGAAAGGTTTTGTTCATCATATTGGCCTCATTTTAATATGAAGTTTACGAAGCGGCTTGATGCCTTGAGAGTCTTTACGGAGATTATTTCTCATATCAAAGGTGGTCTTAGAGCTTTGGAAGCAGGTGATGGAAAACTCAGTCAGTCGGATTATGTGAAAATGTCCGAGTGCCGGGCTTCCAATTTATGCCAGAAAGAGAGAGAGATAATATATGATATTTTTCAGGCATATGAGAAAATGAAGACAAGAAATGGTGAATATGATATTGCTGATTTTGTAATTGATATTCACCGTCGGCTCCAACGTGAGAAATATAAGGGTGATGAAATTAATTTTGTGTACATCGATGAGGTACATGATCTAACGATGAGTCAAATCATGCTGTTCAAGCATATATGCAGTAATGTTGAGGAGGGTTTTGTTTTTTCGGGTGATACGGCCCAAACCATTTCAAAGGGTATTGATTTTAGATTCCAAGATATACGGCATCTGTTCTACAAGAAGTTTGTCTTGGATTCAAGAAGCAATAAGCATAACCAAAGGAATGACAAAGCAGAAATCTCAAAAATATTTCATTTGTCTCAAAACTTCCGCACACATGGTGGTGTACTGAGGTTATCACAGAGCATAATTGATCTACTCTGTCATTTTTTCCCCGAATCTATTGATAGTCTGAATCCTGAAACAAGTCCAATACATGGGGAAGCTCCAGTTTTGCTTCAATCTAGAGAAAATGAAGATATGATCATCAAGTTATTTGGGAGTAGTGCTACTAATTTTGTTGGGTTTGGAGCTGAGCAGGTCATCTTGGTGCGTGATGCTACCGTTCAAGGAGATTTCTAA

Protein Analysis

536

Amino Acids

61.45

Weight (kDa)

5.86

Isoelectric Point (pI)

48.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UvrD-helicase PF00580 318 - 406 2.6e-06 UvrD/REP helicase N-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0019139)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G06225 AT2G31081
fragaria_vesca FvH4_3g08100
prunus_persica Prupe.3G124600_v2.0.a1
rosa_chinensis RchiOBHm_Chr6g0272431
rosa_roxburghii Rroxscaffold_2G00115070
rosa_rugosa Rorug04G0449200
rosa_wichuraiana Rw2G027170

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 614
AarI CACCTGC 1 cut(s) 881
Acc36I ACCTGC 2 cut(s) 881, 1558
AccB7I CCANNNNNTGG 1 cut(s) 1466
AciI CCGC 2 cut(s) 820, 1360
AclWI GGATC 1 cut(s) 570
AcoI YGGCCR 1 cut(s) 8
AcsI RAATTY 7 cut(s) 103, 137, 509, 554, 571, 626, 715
AdeI CACNNNGTG 1 cut(s) 1370
AfaI GTAC 3 cut(s) 1109, 1122, 1377
AfiI CCNNNNNNNGG 4 cut(s) 40, 82, 939, 1466
AflIII ACRYGT 1 cut(s) 457
AhlI ACTAGT 1 cut(s) 56
AjuI GAANNNNNNNTTGG 2 cut(s) 1262, 1294
AluBI AGCT 7 cut(s) 6, 495, 506, 741, 881, 1475, 1562
AluI AGCT 7 cut(s) 6, 495, 506, 741, 881, 1475, 1562
Alw26I GTCTC 1 cut(s) 1353
AlwI GGATC 1 cut(s) 570
AlwNI CAGNNNCTG 1 cut(s) 284
AoxI GGCC 4 cut(s) 8, 237, 791, 1206
ApeKI GCWGC 1 cut(s) 495
ApoI RAATTY 7 cut(s) 103, 137, 509, 554, 571, 626, 715
AseI ATTAAT 1 cut(s) 1098
AspS9I GGNCC 1 cut(s) 1207
AsuC2I CCSGG 1 cut(s) 941
AsuHPI GGTGA 6 cut(s) 175, 905, 1034, 1049, 1100, 1211
BalI TGGCCA 1 cut(s) 10
BbsI GAAGAC 2 cut(s) 296, 1016
BbvI GCAGC 1 cut(s) 482
BccI CCATC 2 cut(s) 638, 890
BceAI ACGGC 2 cut(s) 1221, 1268
BclI TGATCA 1 cut(s) 1512
BcnI CCSGG 1 cut(s) 941
BcoDI GTCTC 1 cut(s) 1353
BcuI ACTAGT 1 cut(s) 56
BfaI CTAG 2 cut(s) 57, 1494
BfuAI ACCTGC 2 cut(s) 881, 1558
BisI GCNGC 2 cut(s) 496, 821
BlpI GCTNAGC 1 cut(s) 1563
BlsI GCNGC 2 cut(s) 497, 822
Bme1390I CCNGG 1 cut(s) 941
BmgT120I GGNCC 1 cut(s) 1207
BmiI GGNNCC 1 cut(s) 1067
BmrFI CCNGG 1 cut(s) 941
BmrI ACTGGG 1 cut(s) 294
BmsI GCATC 5 cut(s) 532, 627, 817, 1264, 1576
BmuI ACTGGG 1 cut(s) 294
BpiI GAAGAC 2 cut(s) 296, 1016
BpmI CTGGAG 2 cut(s) 402, 1461
Bpu1102I GCTNAGC 1 cut(s) 1563
BpuEI CTTGAG 2 cut(s) 490, 853
BpuMI CCSGG 1 cut(s) 941
Bsa29I ATCGAT 1 cut(s) 1113
BsaJI CCNNGG 1 cut(s) 18
Bsc4I CCNNNNNNNGG 4 cut(s) 40, 82, 939, 1466
Bse1I ACTGG 2 cut(s) 289, 1478
BseCI ATCGAT 1 cut(s) 1113
BseDI CCNNGG 1 cut(s) 18
BseGI GGATG 6 cut(s) 28, 30, 49, 76, 91, 649
BseLI CCNNNNNNNGG 4 cut(s) 40, 82, 939, 1466
BseMII CTCAG 3 cut(s) 919, 1370, 1554
BseNI ACTGG 2 cut(s) 289, 1478
BseRI GAGGAG 1 cut(s) 1193
BseXI GCAGC 1 cut(s) 482
BshFI GGCC 4 cut(s) 10, 239, 793, 1208
BshVI ATCGAT 1 cut(s) 1113
BsiSI CCGG 1 cut(s) 940
BslI CCNNNNNNNGG 4 cut(s) 40, 82, 939, 1466
BsmAI GTCTC 1 cut(s) 1353
BsnI GGCC 4 cut(s) 10, 239, 793, 1208
Bsp1407I TGTACA 1 cut(s) 1107
Bsp143I GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
Bsp1720I GCTNAGC 1 cut(s) 1563
BspACI CCGC 2 cut(s) 820, 1360
BspANI GGCC 4 cut(s) 10, 239, 793, 1208
BspCNI CTCAG 3 cut(s) 918, 1371, 1555
BspDI ATCGAT 1 cut(s) 1113
BspLI GGNNCC 1 cut(s) 1067
BspMI ACCTGC 2 cut(s) 881, 1558
BspPI GGATC 1 cut(s) 570
BsrGI TGTACA 1 cut(s) 1107
BsrI ACTGG 2 cut(s) 289, 1478
BssECI CCNNGG 1 cut(s) 18
BssMI GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
BssT1I CCWWGG 1 cut(s) 18
Bst4CI ACNGT 7 cut(s) 185, 298, 333, 400, 424, 1061, 1594
BstAUI TGTACA 1 cut(s) 1107
BstC8I GCNNGC 2 cut(s) 8, 12
BstDEI CTNAG 5 cut(s) 81, 875, 905, 1379, 1563
BstENI CCTNNNNNAGG 1 cut(s) 80
BstF5I GGATG 6 cut(s) 28, 30, 49, 76, 91, 649
BstKTI GATC 6 cut(s) 278, 565, 725, 1129, 1405, 1515
BstMAI GTCTC 1 cut(s) 1353
BstMBI GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
BstMWI GCNNNNNNNGC 2 cut(s) 887, 1156
BstNSI RCATGY 1 cut(s) 461
BstSCI CCNGG 1 cut(s) 939
BstV1I GCAGC 1 cut(s) 482
BstV2I GAAGAC 2 cut(s) 296, 1016
BstX2I RGATCY 1 cut(s) 562
BstYI RGATCY 1 cut(s) 562
Bsu15I ATCGAT 1 cut(s) 1113
BsuRI GGCC 4 cut(s) 10, 239, 793, 1208
BsuTUI ATCGAT 1 cut(s) 1113
BtsCI GGATG 6 cut(s) 28, 30, 49, 76, 91, 649
BtsIMutI CAGTG 4 cut(s) 72, 121, 282, 294
BveI ACCTGC 2 cut(s) 881, 1558
Cac8I GCNNGC 2 cut(s) 8, 12
CaiI CAGNNNCTG 1 cut(s) 284
Cfr13I GGNCC 1 cut(s) 1207
ClaI ATCGAT 1 cut(s) 1113
CseI GACGC 1 cut(s) 40
Csp6I GTAC 3 cut(s) 1108, 1121, 1376
CviAII CATG 5 cut(s) 458, 1124, 1147, 1367, 1466
CviQI GTAC 3 cut(s) 1108, 1121, 1376
DdeI CTNAG 5 cut(s) 81, 875, 905, 1379, 1563
DpnI GATC 6 cut(s) 277, 564, 724, 1128, 1404, 1514
DpnII GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
DraIII CACNNNGTG 1 cut(s) 1370
EaeI YGGCCR 1 cut(s) 8
Eco130I CCWWGG 1 cut(s) 18
EcoNI CCTNNNNNAGG 1 cut(s) 80
EcoRI GAATTC 1 cut(s) 509
EcoT14I CCWWGG 1 cut(s) 18
ErhI CCWWGG 1 cut(s) 18
FaeI CATG 5 cut(s) 461, 1127, 1150, 1370, 1469
FalI AAGNNNNNCTT 8 cut(s) 466, 498, 712, 744, 858, 890, 1262, 1294
FatI CATG 5 cut(s) 457, 1123, 1146, 1366, 1465
FauNDI CATATG 1 cut(s) 997
FbaI TGATCA 1 cut(s) 1512
Fnu4HI GCNGC 2 cut(s) 496, 821
FokI GGATG 6 cut(s) 17, 35, 56, 83, 98, 656
Fsp4HI GCNGC 2 cut(s) 496, 821
FspBI CTAG 2 cut(s) 57, 1494
GluI GCNGC 2 cut(s) 496, 821
GsuI CTGGAG 2 cut(s) 402, 1461
HaeIII GGCC 4 cut(s) 10, 239, 793, 1208
HapII CCGG 1 cut(s) 940
HgaI GACGC 1 cut(s) 40
Hin1II CATG 5 cut(s) 461, 1127, 1150, 1370, 1469
HindIII AAGCTT 1 cut(s) 739
HinfI GANTC 9 cut(s) 62, 166, 675, 837, 1138, 1239, 1283, 1427, 1444
HpaII CCGG 1 cut(s) 940
HphI GGTGA 6 cut(s) 175, 905, 1034, 1049, 1100, 1211
Hpy166II GTNNAC 4 cut(s) 707, 813, 1108, 1376
Hpy188I TCNGA 8 cut(s) 35, 181, 321, 487, 595, 916, 934, 1443
Hpy188III TCNNGA 6 cut(s) 381, 581, 720, 1287, 1448, 1494
Hpy8I GTNNAC 4 cut(s) 707, 813, 1108, 1376
Hpy99I CGWCG 1 cut(s) 1065
HpyAV CCTTC 3 cut(s) 271, 347, 600
HpyCH4III ACNGT 7 cut(s) 185, 298, 333, 400, 424, 1061, 1594
HpyCH4IV ACGT 1 cut(s) 1072
HpyCH4V TGCA 4 cut(s) 395, 446, 545, 1167
HpyF10VI GCNNNNNNNGC 2 cut(s) 887, 1156
HpyF3I CTNAG 5 cut(s) 81, 875, 905, 1379, 1563
HpySE526I ACGT 1 cut(s) 1072
Hsp92II CATG 5 cut(s) 461, 1127, 1150, 1370, 1469
Ksp22I TGATCA 1 cut(s) 1512
Kzo9I GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
LmnI GCTCC 3 cut(s) 1071, 1480, 1559
Lsp1109I GCAGC 1 cut(s) 482
LweI GCATC 5 cut(s) 532, 627, 817, 1264, 1576
MaeI CTAG 2 cut(s) 57, 1494
MaeII ACGT 1 cut(s) 1072
MaeIII GTNAC 3 cut(s) 52, 217, 418
MalI GATC 6 cut(s) 277, 564, 724, 1128, 1404, 1514
MboI GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
MboII GAAGA 4 cut(s) 239, 301, 1021, 1517
MflI RGATCY 1 cut(s) 562
MlsI TGGCCA 1 cut(s) 10
MluNI TGGCCA 1 cut(s) 10
MlyI GAGTC 3 cut(s) 669, 846, 1147
MmeI TCCRAC 2 cut(s) 894, 1093
Mox20I TGGCCA 1 cut(s) 10
MscI TGGCCA 1 cut(s) 10
MseI TTAA 4 cut(s) 302, 632, 801, 1098
MslI CAYNNNNRTG 2 cut(s) 1371, 1577
Msp20I TGGCCA 1 cut(s) 10
MspA1I CMGCKG 1 cut(s) 506
MspI CCGG 1 cut(s) 940
MspR9I CCNGG 1 cut(s) 941
MwoI GCNNNNNNNGC 2 cut(s) 887, 1156
NciI CCSGG 1 cut(s) 941
NdeI CATATG 1 cut(s) 997
NdeII GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
NlaIII CATG 5 cut(s) 461, 1127, 1150, 1370, 1469
NlaIV GGNNCC 1 cut(s) 1067
NmuCI GTSAC 1 cut(s) 52
NspI RCATGY 1 cut(s) 461
PaqCI CACCTGC 1 cut(s) 881
PciI ACATGT 1 cut(s) 457
PcsI WCGNNNNNNNCGW 1 cut(s) 1069
PfeI GAWTC 6 cut(s) 62, 166, 1239, 1283, 1427, 1444
PflMI CCANNNNNTGG 1 cut(s) 1466
PkrI GCNGC 2 cut(s) 497, 822
PleI GAGTC 3 cut(s) 669, 845, 1146
PpsI GAGTC 3 cut(s) 669, 845, 1146
PscI ACATGT 1 cut(s) 457
PshBI ATTAAT 1 cut(s) 1098
PsiI TTATAA 1 cut(s) 614
PspN4I GGNNCC 1 cut(s) 1067
PspPI GGNCC 1 cut(s) 1207
PstNI CAGNNNCTG 1 cut(s) 284
PsuI RGATCY 1 cut(s) 562
PvuII CAGCTG 1 cut(s) 506
RsaI GTAC 3 cut(s) 1109, 1122, 1377
RsaNI GTAC 3 cut(s) 1108, 1121, 1376
RseI CAYNNNNRTG 2 cut(s) 1371, 1577
SaqAI TTAA 4 cut(s) 302, 632, 801, 1098
SatI GCNGC 2 cut(s) 496, 821
Sau3AI GATC 6 cut(s) 275, 562, 722, 1126, 1402, 1512
Sau96I GGNCC 1 cut(s) 1207
SchI GAGTC 3 cut(s) 669, 846, 1147
ScrFI CCNGG 1 cut(s) 941
SfaNI GCATC 5 cut(s) 532, 627, 817, 1264, 1576
SmiMI CAYNNNNRTG 2 cut(s) 1371, 1577
SmlI CTYRAG 2 cut(s) 469, 832
SmoI CTYRAG 2 cut(s) 469, 832
SpeI ACTAGT 1 cut(s) 56
SsiI CCGC 2 cut(s) 820, 1360
SspI AATATT 1 cut(s) 1338
SspMI CTAG 2 cut(s) 57, 1494
StyD4I CCNGG 1 cut(s) 939
StyI CCWWGG 1 cut(s) 18
TaaI ACNGT 7 cut(s) 185, 298, 333, 400, 424, 1061, 1594
TaiI ACGT 1 cut(s) 1075
TaqI TCGA 4 cut(s) 369, 464, 518, 1113
TatI WGTACW 2 cut(s) 1107, 1375
TauI GCSGC 1 cut(s) 823
TfiI GAWTC 6 cut(s) 62, 166, 1239, 1283, 1427, 1444
Tru1I TTAA 4 cut(s) 302, 632, 801, 1098
Tru9I TTAA 4 cut(s) 302, 632, 801, 1098
TscAI CASTG 4 cut(s) 72, 121, 289, 301
TseFI GTSAC 1 cut(s) 52
TseI GCWGC 1 cut(s) 495
Tsp45I GTSAC 1 cut(s) 52
TspGWI ACGGA 1 cut(s) 860
TspRI CASTG 4 cut(s) 72, 121, 289, 301
Van91I CCANNNNNTGG 1 cut(s) 1466
VspI ATTAAT 1 cut(s) 1098
XagI CCTNNNNNAGG 1 cut(s) 80
XapI RAATTY 7 cut(s) 103, 137, 509, 554, 571, 626, 715
XbaI TCTAGA 1 cut(s) 1493
XceI RCATGY 1 cut(s) 461
XspI CTAG 2 cut(s) 57, 1494
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.