Rroxscaffold_4G00315540

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0006827
Physical Location & Seq
Forward (+)
39853012 .. 39857035
4024 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00315540.1

Sequence Viewer

Length: 1455 bp
ATGCATGCTATAAAGGGTGGCTGGGTTGGGCAAACATTTGCCCTAGCTAAAAACAATGAGTCTGAAGGAAGGAAGTCCCGAATTCGGCGTTCAAAGGAGGAGAGGAAGGAAATGGTTGAAGCCTTTATAAAAAAGTATCAGATTCTACACAACGGGAGTTTCCCATCACTTAATCTGACCCACAAGGAAGTTGGTGGGTCTTTCTACACTGTACGAGAAATTGTCCGAGATGTAATCCAAGAAAATAGAGTGCTGGGTCCTGCCAAGTTGATTGCAGAGGATCAGACTATTGATCAGTTCTTGGAACGTAATCCACTTGGTTCGATTGCTGCAGAACCTCAAAATGCTTTGTCAGAAGCATCAAATGATTCTCAGTTTGCCAACAATCAACATCAGGGTACAGTTCAAGAAATGGTTTCGGCTTCTGATGGTCATTCGTTTACTCTTGAACATCAGATTCTCGACCATGGCCGAGCCATCAATGGCACTGCAGCAGAAGTGAATAGCAAAGAAGTGGAGAGTAAAGAGTTGCAAGTAACTGTGCCAGTGGAAACAGAGAAGAAGGTAGCTGAAGAATCTGTAGTTTCTGATGGGAATTGTATTTGTCATGAATATCAGATGTTTGACAATGGTGGCCAGGTAGATCAGGAAGACAAACAAACTGAGGAACTGACATGTGCAGAGCATAGAACAACTGTGCCTTTGGAAGTAGAGAAAAATGTTGAAGAAGTTTTGGCAATATCTAGGTCTAAGGTGACCTCCATAGAAGCAGATGTAATAGTTGAGACATTCCCCTTAACGCCTGTTACTAGGACTACTGAGAGCTTGGATGGAAAGGTAGAATTAGGAAATTTTGGTATATATACTGAGGATAAAGGAACCAAGGGGATGGGGTTAGCCACTGGTGTAGATAGTACACTGTCAGATTCAGTATATTCCGTGAATAGCTTGGTTGACGATAAAGTAGTGGTGAAAAGCCCCTTGGTTGGAGACAAATCCAGCTCAGTAAATGAGGAAGCCTTAGAAATTGTCAGAGACCCATCACTGGATACCTCAAATTGCTCCACCATTGAAGGAAATATTATACATGAAAAAGGAAGCACAGACATTAAGGTCAAAGCACCTGGAAATGACGTTCCAATATCTGAGAGCTTTGAACAAATTGAAGGGACTGCTGCAGCTAAGATAATAAAAGCTCCAGATACAAAGAACCTTAATGGTACCAGCGTTTGTGATGGGCTGTCACAAACCAAAGAGGTGCTTGTGATTGAAGATGAAGTTGGTGTGCACTCCAGCGCAGGCTTGCAAAAAGGAAGCAACACTTTAGACAGGATTAATCTCGAATCGTGGCAAAAGGCGTCTAGAAATTCCACAAATCGAGAAGGCAAATCTCTTTGGGCTGTATTTAAAGAGTATATAGACGCCATTGTGGAGTTTTGGTCTAGTGAGCTTTAA
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
No domains found.

Protein Analysis

484

Amino Acids

52.94

Weight (kDa)

4.82

Isoelectric Point (pI)

36.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HTH_AT3G52170 PF25896 31 - 79 4.7e-22 Helix-turn-helix domain in AT3G52170-like protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 128
AasI GACNNNNNNGTC 1 cut(s) 1112
Acc65I GGTACC 1 cut(s) 1220
AccB1I GGYRCC 1 cut(s) 1220
AclWI GGATC 1 cut(s) 288
AcoI YGGCCR 2 cut(s) 469, 634
AcsI RAATTY 3 cut(s) 81, 850, 1366
AcuI CTGAAG 2 cut(s) 84, 591
AcyI GRCGYC 2 cut(s) 1358, 1422
AfaI GTAC 4 cut(s) 213, 400, 916, 1222
AfiI CCNNNNNNNGG 3 cut(s) 84, 986, 1045
AflIII ACRYGT 1 cut(s) 674
AgsI TTSAA 9 cut(s) 93, 119, 407, 449, 725, 1073, 1157, 1166, 1271
AjnI CCWGG 2 cut(s) 636, 1123
AjuI GAANNNNNNNTTGG 4 cut(s) 965, 997, 1263, 1295
AloI GAACNNNNNNTCC 2 cut(s) 1119, 1151
AluBI AGCT 9 cut(s) 47, 569, 825, 948, 1002, 1152, 1181, 1196, 1450
AluI AGCT 9 cut(s) 47, 569, 825, 948, 1002, 1152, 1181, 1196, 1450
Alw21I GWGCWC 1 cut(s) 1290
Alw26I GTCTC 3 cut(s) 779, 984, 1029
Alw44I GTGCAC 1 cut(s) 1286
AlwI GGATC 1 cut(s) 288
AoxI GGCC 2 cut(s) 469, 634
ApaLI GTGCAC 1 cut(s) 1286
ApeKI GCWGC 4 cut(s) 329, 491, 1175, 1178
ApoI RAATTY 3 cut(s) 81, 850, 1366
AseI ATTAAT 1 cut(s) 1335
Asp718I GGTACC 1 cut(s) 1220
AspLEI GCGC 1 cut(s) 1298
AspS9I GGNCC 1 cut(s) 257
AsuHPI GGTGA 2 cut(s) 766, 982
AvaII GGWCC 1 cut(s) 257
BaeGI GKGCMC 1 cut(s) 1290
BaeI ACNNNNGTAYC 2 cut(s) 1212, 1245
BalI TGGCCA 1 cut(s) 636
BanI GGYRCC 1 cut(s) 1220
BbsI GAAGAC 1 cut(s) 657
Bbv12I GWGCWC 1 cut(s) 1290
BbvI GCAGC 4 cut(s) 316, 503, 1162, 1190
BccI CCATC 8 cut(s) 172, 422, 485, 584, 824, 883, 1048, 1229
BciT130I CCWGG 2 cut(s) 638, 1125
BciVI GTATCC 1 cut(s) 1042
BclI TGATCA 1 cut(s) 292
BcoDI GTCTC 3 cut(s) 779, 984, 1029
BfaI CTAG 5 cut(s) 44, 744, 810, 1362, 1443
BfmI CTRYAG 4 cut(s) 330, 489, 579, 1176
BfuI GTATCC 1 cut(s) 1042
BisI GCNGC 4 cut(s) 330, 492, 1176, 1179
BlsI GCNGC 4 cut(s) 331, 493, 1177, 1180
Bme1390I CCNGG 2 cut(s) 638, 1125
Bme18I GGWCC 1 cut(s) 257
BmgT120I GGNCC 1 cut(s) 257
BmiI GGNNCC 3 cut(s) 258, 880, 1222
BmrFI CCNGG 2 cut(s) 638, 1125
BmsI GCATC 1 cut(s) 368
BpiI GAAGAC 1 cut(s) 657
BpmI CTGGAG 2 cut(s) 1182, 1276
BsaHI GRCGYC 2 cut(s) 1358, 1422
BsaI GGTCTC 1 cut(s) 1029
BsaJI CCNNGG 3 cut(s) 466, 882, 981
BsaXI ACNNNNNCTCC 2 cut(s) 1424, 1454
Bsc4I CCNNNNNNNGG 3 cut(s) 84, 986, 1045
Bse1I ACTGG 3 cut(s) 545, 907, 1050
BseBI CCWGG 2 cut(s) 638, 1125
BseDI CCNNGG 3 cut(s) 466, 882, 981
BseGI GGATG 2 cut(s) 835, 894
BseLI CCNNNNNNNGG 3 cut(s) 84, 986, 1045
BseMII CTCAG 6 cut(s) 386, 654, 810, 858, 1017, 1137
BseNI ACTGG 3 cut(s) 545, 907, 1050
BseRI GAGGAG 1 cut(s) 113
BseSI GKGCMC 1 cut(s) 1290
BseXI GCAGC 4 cut(s) 316, 503, 1162, 1190
BseYI CCCAGC 2 cut(s) 21, 253
BsgI GTGCAG 1 cut(s) 699
BshFI GGCC 2 cut(s) 471, 636
BshNI GGYRCC 1 cut(s) 1220
BsiHKAI GWGCWC 1 cut(s) 1290
BslFI GGGAC 2 cut(s) 61, 1183
BslI CCNNNNNNNGG 3 cut(s) 84, 986, 1045
BsmAI GTCTC 3 cut(s) 779, 984, 1029
BsmFI GGGAC 2 cut(s) 61, 1183
BsnI GGCC 2 cut(s) 471, 636
Bso31I GGTCTC 1 cut(s) 1029
Bsp1286I GDGCHC 1 cut(s) 1290
Bsp143I GATC 3 cut(s) 280, 292, 643
Bsp19I CCATGG 1 cut(s) 466
BspANI GGCC 2 cut(s) 471, 636
BspCNI CTCAG 6 cut(s) 385, 655, 811, 859, 1016, 1138
BspHI TCATGA 1 cut(s) 607
BspLI GGNNCC 3 cut(s) 258, 880, 1222
BspMAI CTGCAG 3 cut(s) 334, 493, 1180
BspPI GGATC 1 cut(s) 288
BspT107I GGYRCC 1 cut(s) 1220
BspTNI GGTCTC 1 cut(s) 1029
BsrI ACTGG 3 cut(s) 545, 907, 1050
BssECI CCNNGG 3 cut(s) 466, 882, 981
BssMI GATC 3 cut(s) 280, 292, 643
BssNI GRCGYC 2 cut(s) 1358, 1422
BssT1I CCWWGG 3 cut(s) 466, 882, 981
Bst2UI CCWGG 2 cut(s) 638, 1125
Bst4CI ACNGT 5 cut(s) 211, 403, 541, 697, 921
BstACI GRCGYC 2 cut(s) 1358, 1422
BstC8I GCNNGC 3 cut(s) 6, 1300, 1304
BstDEI CTNAG 9 cut(s) 372, 663, 750, 819, 867, 1003, 1021, 1146, 1182
BstDSI CCRYGG 1 cut(s) 466
BstEII GGTNACC 1 cut(s) 754
BstF5I GGATG 2 cut(s) 835, 894
BstHHI GCGC 1 cut(s) 1298
BstKTI GATC 3 cut(s) 283, 295, 646
BstMAI GTCTC 3 cut(s) 779, 984, 1029
BstMBI GATC 3 cut(s) 280, 292, 643
BstNI CCWGG 2 cut(s) 638, 1125
BstNSI RCATGY 2 cut(s) 8, 678
BstPI GGTNACC 1 cut(s) 754
BstSCI CCNGG 2 cut(s) 636, 1123
BstSFI CTRYAG 4 cut(s) 330, 489, 579, 1176
BstSLI GKGCMC 1 cut(s) 1290
BstV1I GCAGC 4 cut(s) 316, 503, 1162, 1190
BstV2I GAAGAC 1 cut(s) 657
BstXI CCANNNNNNTGG 1 cut(s) 889
BsuI GTATCC 1 cut(s) 1042
BsuRI GGCC 2 cut(s) 471, 636
BtgI CCRYGG 1 cut(s) 466
BtsCI GGATG 2 cut(s) 835, 894
BtsI GCAGTG 1 cut(s) 486
BtsIMutI CAGTG 6 cut(s) 207, 486, 552, 900, 917, 1043
Cac8I GCNNGC 3 cut(s) 6, 1300, 1304
CciI TCATGA 1 cut(s) 607
CfoI GCGC 1 cut(s) 1298
Cfr13I GGNCC 1 cut(s) 257
CseI GACGC 2 cut(s) 1347, 1430
Csp6I GTAC 4 cut(s) 212, 399, 915, 1221
CviAII CATG 5 cut(s) 5, 467, 608, 675, 1088
CviQI GTAC 4 cut(s) 212, 399, 915, 1221
DdeI CTNAG 9 cut(s) 372, 663, 750, 819, 867, 1003, 1021, 1146, 1182
DpnI GATC 3 cut(s) 282, 294, 645
DpnII GATC 3 cut(s) 280, 292, 643
DraI TTTAAA 1 cut(s) 1408
DrdI GACNNNNNNGTC 1 cut(s) 1112
DseDI GACNNNNNNGTC 1 cut(s) 1112
EaeI YGGCCR 2 cut(s) 469, 634
Eco130I CCWWGG 3 cut(s) 466, 882, 981
Eco31I GGTCTC 1 cut(s) 1029
Eco47I GGWCC 1 cut(s) 257
Eco57I CTGAAG 2 cut(s) 84, 591
Eco91I GGTNACC 1 cut(s) 754
EcoO109I RGGNCCY 1 cut(s) 257
EcoO65I GGTNACC 1 cut(s) 754
EcoRI GAATTC 1 cut(s) 81
EcoRII CCWGG 2 cut(s) 636, 1123
EcoT14I CCWWGG 3 cut(s) 466, 882, 981
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 3 cut(s) 466, 882, 981
FaeI CATG 5 cut(s) 8, 470, 611, 678, 1091
FalI AAGNNNNNCTT 4 cut(s) 1245, 1277, 1306, 1338
FaqI GGGAC 2 cut(s) 61, 1183
FatI CATG 5 cut(s) 4, 466, 607, 674, 1087
FbaI TGATCA 1 cut(s) 292
Fnu4HI GCNGC 4 cut(s) 330, 492, 1176, 1179
FokI GGATG 2 cut(s) 842, 901
Fsp4HI GCNGC 4 cut(s) 330, 492, 1176, 1179
FspBI CTAG 5 cut(s) 44, 744, 810, 1362, 1443
GlaI GCGC 1 cut(s) 1297
GluI GCNGC 4 cut(s) 330, 492, 1176, 1179
GsaI CCCAGC 2 cut(s) 25, 257
GsuI CTGGAG 2 cut(s) 1182, 1276
HaeIII GGCC 2 cut(s) 471, 636
HgaI GACGC 2 cut(s) 1347, 1430
HhaI GCGC 1 cut(s) 1298
Hin1I GRCGYC 2 cut(s) 1358, 1422
Hin1II CATG 5 cut(s) 8, 470, 611, 678, 1091
Hin6I GCGC 1 cut(s) 1296
HinP1I GCGC 1 cut(s) 1296
HincII GTYRAC 1 cut(s) 955
HindII GTYRAC 1 cut(s) 955
HinfI GANTC 7 cut(s) 59, 142, 368, 457, 575, 926, 1343
HphI GGTGA 2 cut(s) 766, 982
Hpy166II GTNNAC 4 cut(s) 441, 917, 955, 1288
Hpy8I GTNNAC 4 cut(s) 441, 917, 955, 1288
HpyAV CCTTC 7 cut(s) 59, 63, 100, 556, 1067, 1160, 1376
HpyCH4III ACNGT 5 cut(s) 211, 403, 541, 697, 921
HpyCH4IV ACGT 2 cut(s) 307, 1134
HpyCH4V TGCA 9 cut(s) 4, 275, 332, 491, 532, 680, 1178, 1288, 1306
HpyF3I CTNAG 9 cut(s) 372, 663, 750, 819, 867, 1003, 1021, 1146, 1182
HpySE526I ACGT 2 cut(s) 307, 1134
Hsp92I GRCGYC 2 cut(s) 1358, 1422
Hsp92II CATG 5 cut(s) 8, 470, 611, 678, 1091
HspAI GCGC 1 cut(s) 1296
KpnI GGTACC 1 cut(s) 1224
Ksp22I TGATCA 1 cut(s) 292
Kzo9I GATC 3 cut(s) 280, 292, 643
LmnI GCTCC 2 cut(s) 1067, 1201
Lsp1109I GCAGC 4 cut(s) 316, 503, 1162, 1190
LweI GCATC 1 cut(s) 368
MaeI CTAG 5 cut(s) 44, 744, 810, 1362, 1443
MaeII ACGT 2 cut(s) 307, 1134
MaeIII GTNAC 4 cut(s) 535, 754, 805, 1242
MalI GATC 3 cut(s) 282, 294, 645
MboI GATC 3 cut(s) 280, 292, 643
MboII GAAGA 5 cut(s) 571, 584, 662, 737, 1283
MhlI GDGCHC 1 cut(s) 1290
MlsI TGGCCA 1 cut(s) 636
MluCI AATT 9 cut(s) 81, 219, 595, 842, 850, 1026, 1057, 1161, 1366
MluNI TGGCCA 1 cut(s) 636
MlyI GAGTC 1 cut(s) 68
MmeI TCCRAC 1 cut(s) 967
Mox20I TGGCCA 1 cut(s) 636
Mph1103I ATGCAT 1 cut(s) 6
MscI TGGCCA 1 cut(s) 636
MseI TTAA 7 cut(s) 171, 797, 1110, 1215, 1335, 1407, 1453
Msp20I TGGCCA 1 cut(s) 636
MspR9I CCNGG 2 cut(s) 638, 1125
MvaI CCWGG 2 cut(s) 638, 1125
NcoI CCATGG 1 cut(s) 466
NdeII GATC 3 cut(s) 280, 292, 643
NlaIII CATG 5 cut(s) 8, 470, 611, 678, 1091
NlaIV GGNNCC 3 cut(s) 258, 880, 1222
NmeAIII GCCGAG 1 cut(s) 497
NmuCI GTSAC 2 cut(s) 754, 1242
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 2 cut(s) 8, 678
PaeI GCATGC 1 cut(s) 8
PagI TCATGA 1 cut(s) 607
PciI ACATGT 1 cut(s) 674
PfeI GAWTC 6 cut(s) 142, 368, 457, 575, 926, 1343
PkrI GCNGC 4 cut(s) 331, 493, 1177, 1180
PleI GAGTC 1 cut(s) 67
PpsI GAGTC 1 cut(s) 67
PpuMI RGGWCCY 1 cut(s) 257
PscI ACATGT 1 cut(s) 674
PshBI ATTAAT 1 cut(s) 1335
PsiI TTATAA 1 cut(s) 128
Psp5II RGGWCCY 1 cut(s) 257
Psp6I CCWGG 2 cut(s) 636, 1123
PspEI GGTNACC 1 cut(s) 754
PspFI CCCAGC 2 cut(s) 21, 253
PspGI CCWGG 2 cut(s) 636, 1123
PspN4I GGNNCC 3 cut(s) 258, 880, 1222
PspPI GGNCC 1 cut(s) 257
PspPPI RGGWCCY 1 cut(s) 257
PstI CTGCAG 3 cut(s) 334, 493, 1180
RsaI GTAC 4 cut(s) 213, 400, 916, 1222
RsaNI GTAC 4 cut(s) 212, 399, 915, 1221
SaqAI TTAA 7 cut(s) 171, 797, 1110, 1215, 1335, 1407, 1453
SatI GCNGC 4 cut(s) 330, 492, 1176, 1179
Sau3AI GATC 3 cut(s) 280, 292, 643
Sau96I GGNCC 1 cut(s) 257
SchI GAGTC 1 cut(s) 68
ScrFI CCNGG 2 cut(s) 638, 1125
SduI GDGCHC 1 cut(s) 1290
SfaNI GCATC 1 cut(s) 368
SfcI CTRYAG 4 cut(s) 330, 489, 579, 1176
SinI GGWCC 1 cut(s) 257
SphI GCATGC 1 cut(s) 8
Sse9I AATT 9 cut(s) 81, 219, 595, 842, 850, 1026, 1057, 1161, 1366
SspI AATATT 1 cut(s) 1081
SspMI CTAG 5 cut(s) 44, 744, 810, 1362, 1443
StyD4I CCNGG 2 cut(s) 636, 1123
StyI CCWWGG 3 cut(s) 466, 882, 981
TaaI ACNGT 5 cut(s) 211, 403, 541, 697, 921
TaiI ACGT 2 cut(s) 310, 1137
TaqI TCGA 4 cut(s) 323, 462, 1341, 1378
TasI AATT 9 cut(s) 81, 219, 595, 842, 850, 1026, 1057, 1161, 1366
TatI WGTACW 1 cut(s) 914
TfiI GAWTC 6 cut(s) 142, 368, 457, 575, 926, 1343
Tru1I TTAA 7 cut(s) 171, 797, 1110, 1215, 1335, 1407, 1453
Tru9I TTAA 7 cut(s) 171, 797, 1110, 1215, 1335, 1407, 1453
TscAI CASTG 6 cut(s) 214, 493, 552, 907, 924, 1050
TseFI GTSAC 2 cut(s) 754, 1242
TseI GCWGC 4 cut(s) 329, 491, 1175, 1178
Tsp45I GTSAC 2 cut(s) 754, 1242
TspDTI ATGAA 3 cut(s) 624, 1104, 1290
TspGWI ACGGA 1 cut(s) 928
TspRI CASTG 6 cut(s) 214, 493, 552, 907, 924, 1050
VneI GTGCAC 1 cut(s) 1286
VpaK11BI GGWCC 1 cut(s) 257
VspI ATTAAT 1 cut(s) 1335
XapI RAATTY 3 cut(s) 81, 850, 1366
XbaI TCTAGA 1 cut(s) 1361
XceI RCATGY 2 cut(s) 8, 678
XcmI CCANNNNNNNNNTGG 1 cut(s) 188
XspI CTAG 5 cut(s) 44, 744, 810, 1362, 1443
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.