Rh6CG070000

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0002618
Physical Location & Seq
Forward (+)
6916064 .. 6918232
2169 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG070000.1

Sequence Viewer

Length: 1530 bp
ATGGCTCTCTCCAAACTGCTAGTTTTTGTTCCAATTATCTTCCTAATTCTGATGGGAATGATGACCGAGGCAGCAACTCCTCCGGGAATTGCCAAGAACCCTAGCAATGCAAGGTGTTTGATAAAGAAGTACAAGCATTGTTACAATTTGGTGCATGTGTGCCCCAAGTTTTGTCCCGATAAGTGCACAGTTGAGTGTGTGTCATGTAAACCCATCTGTTCAGGGGGCACATCTCCCACTACACCTTCACCAACACCTACACCTACACCACCAACTCCTACTCCATCACCTCCCAAATATTACCCTTCTCCTCCTCCTAAAACTCCGACACCACCAACCCCAACCCCAACCCCAACCCCAACACCGCCAACTCCAACTCCATCACCTCCCAAATATTACCCTCCTCCTCCTAAAACGCCCACACCGCCAACTCCATCACCTCCAACTCCAACTCCAACTCCCACACCACCAACCCCGACCCCAACACCTCCAACTCCCACACCGCCAACCCCTACTCCCTCACCCCCAACCCCCACTCCCTCACCGCCAACCCCAACTCCCTCACCCCCAACCCCTACTCCCTCACCGCCAACCCCTACTCCTTCACCTCCATCAACTCCTACTCCACCAAAGAAAGGAAAGTGCAAGAACAAGAACTACCCCCAGTGCTACAACATTGAACATGCATGCCCTAGCTCCTGCCCTGGTGGATGTGAAGTGGATTGTGTCACTTGCAAGCCAGTCTGTAAGTGTGATCAACCCGGAGCAGTGTGCCAAGACCCTCGTTTCATAGGCGGTGACGGCATTACCTTTTACTTCCACGGCAAGAAAAATCACAATTTCTGCCTCTTATCCGACTCCAACCTTCACATCAATGCCCACTTCATCGGCAAGCGAAATGCCAACATGAAACGCGACTTCACATGGGTCCAATCCATCGCCATCCTCTTTGGAAAACACCAACTCTTCATCGGCGCCCAAAAAACTGCTACATGGGATGATTCCGTTGACCGCCTTGCCCTCTCCTTCGACGGCGAGCCAATCACCCTCCGGGAATCCGAAGGCGCTAGGTGGCAATCCGAGAGCTTCCCACATGTCTCATTCGTAAGGGTGGGTGACACCAACAATGTGATGGTTGAAGTTGAAGGCAGGTTTAGGATCACAGCCAAGGTTGTGCCTATAACTGAAGAAGACTCTAGAGTTCACAACTATGGTGTGACAAAAGATGATGCGTTGGCTCATCTTGATCTTGGGTTTAAGTTCTTCTCTTTGAGCAACCGAGTTAATGGTGTGTTGGGTCAGACTTACAGACCCGATTACGTGAGCCGAGTCAAGATTGGAGCCAACATGCCTGTGATGGGTGGTGACAGGGAGTTCCAAACTTCAGGACTTTTTGCTGCGGATTGTGCCAATGCTAGGTTTAATGGTGCTAGTGGCTCTGAGAATGAAGGGTCTGTTGAGGGTTTGGAGTTTCCAAGCTTGAACTGTGCTAGTGGGATTGAAGGTCGAGGAGTTGTGTGCAAGAGATAG
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
Root_cap

Protein Analysis

509

Amino Acids

54.62

Weight (kDa)

8.74

Isoelectric Point (pI)

54.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 418 - 474 9.6e-30 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1140
AccB1I GGYRCC 1 cut(s) 974
AccII CGCG 1 cut(s) 915
AciI CCGC 8 cut(s) 365, 425, 503, 545, 587, 795, 1012, 1400
AclWI GGATC 1 cut(s) 1166
AcuI CTGAAG 2 cut(s) 1206, 1368
AcyI GRCGYC 1 cut(s) 975
AfaI GTAC 1 cut(s) 131
AfiI CCNNNNNNNGG 3 cut(s) 635, 1358, 1416
AflIII ACRYGT 1 cut(s) 1093
AgsI TTSAA 5 cut(s) 680, 1139, 1145, 1483, 1502
AjnI CCWGG 1 cut(s) 703
AluBI AGCT 3 cut(s) 696, 1086, 1479
AluI AGCT 3 cut(s) 696, 1086, 1479
Alw21I GWGCWC 1 cut(s) 188
Alw26I GTCTC 1 cut(s) 1102
Alw44I GTGCAC 1 cut(s) 184
AlwI GGATC 1 cut(s) 1166
ApaLI GTGCAC 1 cut(s) 184
ApeKI GCWGC 2 cut(s) 71, 1397
AspLEI GCGC 2 cut(s) 977, 1067
AspS9I GGNCC 1 cut(s) 928
AsuC2I CCSGG 3 cut(s) 84, 762, 1052
AvaII GGWCC 1 cut(s) 928
BaeGI GKGCMC 3 cut(s) 164, 188, 230
BanI GGYRCC 1 cut(s) 974
BbsI GAAGAC 1 cut(s) 1197
Bbv12I GWGCWC 1 cut(s) 188
BbvI GCAGC 2 cut(s) 83, 1384
BceAI ACGGC 3 cut(s) 817, 838, 1048
BciT130I CCWGG 1 cut(s) 705
BclI TGATCA 1 cut(s) 754
BcnI CCSGG 3 cut(s) 84, 762, 1052
BcoDI GTCTC 1 cut(s) 1102
BfaI CTAG 8 cut(s) 20, 102, 693, 1068, 1197, 1416, 1431, 1491
BfoI RGCGCY 2 cut(s) 978, 1068
BfuAI ACCTGC 1 cut(s) 1140
BisI GCNGC 2 cut(s) 72, 1398
BlsI GCNGC 2 cut(s) 73, 1399
Bme1390I CCNGG 4 cut(s) 84, 705, 762, 1052
Bme18I GGWCC 1 cut(s) 928
BmgT120I GGNCC 1 cut(s) 928
BmiI GGNNCC 3 cut(s) 929, 976, 1342
BmrFI CCNGG 4 cut(s) 84, 705, 762, 1052
BmrI ACTGGG 1 cut(s) 658
BmsI GCATC 1 cut(s) 1219
BmuI ACTGGG 1 cut(s) 658
BpiI GAAGAC 1 cut(s) 1197
BpuMI CCSGG 3 cut(s) 84, 762, 1052
BsaAI YACGTR 1 cut(s) 1321
BsaHI GRCGYC 1 cut(s) 975
BsaJI CCNNGG 4 cut(s) 66, 703, 820, 1167
Bsc4I CCNNNNNNNGG 3 cut(s) 635, 1358, 1416
Bse1I ACTGG 2 cut(s) 664, 740
Bse3DI GCAATG 1 cut(s) 112
BseBI CCWGG 1 cut(s) 705
BseDI CCNNGG 4 cut(s) 66, 703, 820, 1167
BseGI GGATG 3 cut(s) 716, 942, 1003
BseLI CCNNNNNNNGG 3 cut(s) 635, 1358, 1416
BseMI GCAATG 1 cut(s) 112
BseMII CTCAG 1 cut(s) 1431
BseNI ACTGG 2 cut(s) 664, 740
BseRI GAGGAG 6 cut(s) 69, 300, 303, 393, 396, 1524
BseSI GKGCMC 3 cut(s) 164, 188, 230
BseXI GCAGC 2 cut(s) 83, 1384
Bsh1236I CGCG 1 cut(s) 915
BshNI GGYRCC 1 cut(s) 974
BsiHKAI GWGCWC 1 cut(s) 188
BsiSI CCGG 3 cut(s) 83, 762, 1051
BslFI GGGAC 1 cut(s) 159
BslI CCNNNNNNNGG 3 cut(s) 635, 1358, 1416
BsmAI GTCTC 1 cut(s) 1102
BsmFI GGGAC 1 cut(s) 159
Bsp1286I GDGCHC 3 cut(s) 164, 188, 230
Bsp143I GATC 3 cut(s) 754, 1158, 1246
BspACI CCGC 8 cut(s) 365, 425, 503, 545, 587, 795, 1012, 1400
BspCNI CTCAG 1 cut(s) 1432
BspFNI CGCG 1 cut(s) 915
BspLI GGNNCC 3 cut(s) 929, 976, 1342
BspMI ACCTGC 1 cut(s) 1140
BspPI GGATC 1 cut(s) 1166
BspT107I GGYRCC 1 cut(s) 974
BsrDI GCAATG 1 cut(s) 112
BsrI ACTGG 2 cut(s) 664, 740
BssECI CCNNGG 4 cut(s) 66, 703, 820, 1167
BssMI GATC 3 cut(s) 754, 1158, 1246
BssNI GRCGYC 1 cut(s) 975
BssT1I CCWWGG 1 cut(s) 1167
Bst2UI CCWGG 1 cut(s) 705
Bst4CI ACNGT 2 cut(s) 190, 1487
Bst6I CTCTTC 1 cut(s) 971
BstACI GRCGYC 1 cut(s) 975
BstBAI YACGTR 1 cut(s) 1321
BstC8I GCNNGC 4 cut(s) 688, 737, 893, 1037
BstDEI CTNAG 1 cut(s) 1440
BstDSI CCRYGG 1 cut(s) 820
BstF5I GGATG 3 cut(s) 716, 942, 1003
BstFNI CGCG 1 cut(s) 915
BstH2I RGCGCY 2 cut(s) 978, 1068
BstHHI GCGC 2 cut(s) 977, 1067
BstKTI GATC 3 cut(s) 757, 1161, 1249
BstMAI GTCTC 1 cut(s) 1102
BstMBI GATC 3 cut(s) 754, 1158, 1246
BstMWI GCNNNNNNNGC 3 cut(s) 424, 801, 1406
BstNI CCWGG 1 cut(s) 705
BstNSI RCATGY 5 cut(s) 158, 686, 690, 1097, 1351
BstSCI CCNGG 4 cut(s) 82, 703, 760, 1050
BstSLI GKGCMC 3 cut(s) 164, 188, 230
BstUI CGCG 1 cut(s) 915
BstV1I GCAGC 2 cut(s) 83, 1384
BstV2I GAAGAC 1 cut(s) 1197
BtgI CCRYGG 1 cut(s) 820
BtgZI GCGATG 1 cut(s) 922
BtsCI GGATG 3 cut(s) 716, 942, 1003
BtsI GCAGTG 1 cut(s) 774
BtsIMutI CAGTG 2 cut(s) 671, 774
BveI ACCTGC 1 cut(s) 1140
Cac8I GCNNGC 4 cut(s) 688, 737, 893, 1037
CfoI GCGC 2 cut(s) 977, 1067
Cfr13I GGNCC 1 cut(s) 928
Csp6I GTAC 1 cut(s) 130
CviAII CATG 9 cut(s) 155, 204, 683, 687, 907, 924, 993, 1094, 1348
CviQI GTAC 1 cut(s) 130
DdeI CTNAG 1 cut(s) 1440
DinI GGCGCC 1 cut(s) 976
DpnI GATC 3 cut(s) 756, 1160, 1248
DpnII GATC 3 cut(s) 754, 1158, 1246
Eam1104I CTCTTC 1 cut(s) 971
EarI CTCTTC 1 cut(s) 971
Eco130I CCWWGG 1 cut(s) 1167
Eco47I GGWCC 1 cut(s) 928
Eco57I CTGAAG 2 cut(s) 1206, 1368
EcoRII CCWGG 1 cut(s) 703
EcoT14I CCWWGG 1 cut(s) 1167
EcoT22I ATGCAT 1 cut(s) 688
EgeI GGCGCC 1 cut(s) 976
EheI GGCGCC 1 cut(s) 976
ErhI CCWWGG 1 cut(s) 1167
FaeI CATG 9 cut(s) 158, 207, 686, 690, 910, 927, 996, 1097, 1351
FaqI GGGAC 1 cut(s) 159
FatI CATG 9 cut(s) 154, 203, 682, 686, 906, 923, 992, 1093, 1347
FbaI TGATCA 1 cut(s) 754
Fnu4HI GCNGC 2 cut(s) 72, 1398
FokI GGATG 3 cut(s) 723, 929, 1010
Fsp4HI GCNGC 2 cut(s) 72, 1398
FspBI CTAG 8 cut(s) 20, 102, 693, 1068, 1197, 1416, 1431, 1491
GlaI GCGC 2 cut(s) 976, 1066
GluI GCNGC 2 cut(s) 72, 1398
HaeII RGCGCY 2 cut(s) 978, 1068
HapII CCGG 3 cut(s) 83, 762, 1051
HhaI GCGC 2 cut(s) 977, 1067
Hin1I GRCGYC 1 cut(s) 975
Hin1II CATG 9 cut(s) 158, 207, 686, 690, 910, 927, 996, 1097, 1351
Hin6I GCGC 2 cut(s) 975, 1065
HinP1I GCGC 2 cut(s) 975, 1065
HincII GTYRAC 1 cut(s) 1009
HindII GTYRAC 1 cut(s) 1009
HindIII AAGCTT 1 cut(s) 1477
HinfI GANTC 5 cut(s) 857, 1001, 1055, 1193, 1329
HpaII CCGG 3 cut(s) 83, 762, 1051
Hpy166II GTNNAC 4 cut(s) 186, 209, 1009, 1204
Hpy188I TCNGA 7 cut(s) 51, 327, 856, 1060, 1081, 1302, 1441
Hpy188III TCNNGA 5 cut(s) 176, 1197, 1244, 1333, 1386
Hpy8I GTNNAC 4 cut(s) 186, 209, 1009, 1204
Hpy99I CGWCG 1 cut(s) 1034
HpyAV CCTTC 9 cut(s) 255, 315, 612, 875, 1036, 1055, 1139, 1442, 1496
HpyCH4III ACNGT 2 cut(s) 190, 1487
HpyCH4IV ACGT 1 cut(s) 1320
HpyCH4V TGCA 7 cut(s) 110, 154, 186, 645, 686, 735, 1521
HpyF10VI GCNNNNNNNGC 3 cut(s) 424, 801, 1406
HpyF3I CTNAG 1 cut(s) 1440
HpySE526I ACGT 1 cut(s) 1320
Hsp92I GRCGYC 1 cut(s) 975
Hsp92II CATG 9 cut(s) 158, 207, 686, 690, 910, 927, 996, 1097, 1351
HspAI GCGC 2 cut(s) 975, 1065
KasI GGCGCC 1 cut(s) 974
Ksp22I TGATCA 1 cut(s) 754
Kzo9I GATC 3 cut(s) 754, 1158, 1246
LmnI GCTCC 3 cut(s) 701, 764, 1340
Lsp1109I GCAGC 2 cut(s) 83, 1384
LweI GCATC 1 cut(s) 1219
MaeI CTAG 8 cut(s) 20, 102, 693, 1068, 1197, 1416, 1431, 1491
MaeII ACGT 1 cut(s) 1320
MaeIII GTNAC 6 cut(s) 140, 727, 797, 1115, 1216, 1364
MalI GATC 3 cut(s) 756, 1160, 1248
MboI GATC 3 cut(s) 754, 1158, 1246
MboII GAAGA 5 cut(s) 31, 958, 1199, 1202, 1255
MhlI GDGCHC 3 cut(s) 164, 188, 230
MluCI AATT 5 cut(s) 33, 45, 87, 145, 838
Mly113I GGCGCC 1 cut(s) 975
MlyI GAGTC 3 cut(s) 851, 1187, 1338
MmeI TCCRAC 8 cut(s) 350, 398, 467, 473, 479, 515, 879, 885
Mph1103I ATGCAT 1 cut(s) 688
MseI TTAA 3 cut(s) 1257, 1284, 1422
MslI CAYNNNNRTG 3 cut(s) 873, 1209, 1352
MspI CCGG 3 cut(s) 83, 762, 1051
MspR9I CCNGG 4 cut(s) 84, 705, 762, 1052
MvaI CCWGG 1 cut(s) 705
MvnI CGCG 1 cut(s) 915
MwoI GCNNNNNNNGC 3 cut(s) 424, 801, 1406
NarI GGCGCC 1 cut(s) 975
NciI CCSGG 3 cut(s) 84, 762, 1052
NdeII GATC 3 cut(s) 754, 1158, 1246
NlaIII CATG 9 cut(s) 158, 207, 686, 690, 910, 927, 996, 1097, 1351
NlaIV GGNNCC 3 cut(s) 929, 976, 1342
NmeAIII GCCGAG 1 cut(s) 1352
NmuCI GTSAC 5 cut(s) 727, 797, 1115, 1216, 1364
NsiI ATGCAT 1 cut(s) 688
NspI RCATGY 5 cut(s) 158, 686, 690, 1097, 1351
PaeI GCATGC 1 cut(s) 690
PciI ACATGT 1 cut(s) 1093
PfeI GAWTC 2 cut(s) 1001, 1055
PfoI TCCNGGA 2 cut(s) 82, 1050
PkrI GCNGC 2 cut(s) 73, 1399
PleI GAGTC 3 cut(s) 851, 1187, 1337
PluTI GGCGCC 1 cut(s) 978
PpsI GAGTC 3 cut(s) 851, 1187, 1337
Ppu21I YACGTR 1 cut(s) 1321
PscI ACATGT 1 cut(s) 1093
Psp6I CCWGG 1 cut(s) 703
PspGI CCWGG 1 cut(s) 703
PspN4I GGNNCC 3 cut(s) 929, 976, 1342
PspPI GGNCC 1 cut(s) 928
PsrI GAACNNNNNNTAC 2 cut(s) 641, 673
RsaI GTAC 1 cut(s) 131
RsaNI GTAC 1 cut(s) 130
RseI CAYNNNNRTG 3 cut(s) 873, 1209, 1352
SaqAI TTAA 3 cut(s) 1257, 1284, 1422
SatI GCNGC 2 cut(s) 72, 1398
Sau3AI GATC 3 cut(s) 754, 1158, 1246
Sau96I GGNCC 1 cut(s) 928
SchI GAGTC 3 cut(s) 851, 1187, 1338
ScrFI CCNGG 4 cut(s) 84, 705, 762, 1052
SduI GDGCHC 3 cut(s) 164, 188, 230
SfaNI GCATC 1 cut(s) 1219
SfoI GGCGCC 1 cut(s) 976
SinI GGWCC 1 cut(s) 928
SmiMI CAYNNNNRTG 3 cut(s) 873, 1209, 1352
SphI GCATGC 1 cut(s) 690
Sse9I AATT 5 cut(s) 33, 45, 87, 145, 838
SsiI CCGC 8 cut(s) 365, 425, 503, 545, 587, 795, 1012, 1400
SspDI GGCGCC 1 cut(s) 974
SspI AATATT 2 cut(s) 299, 395
SspMI CTAG 8 cut(s) 20, 102, 693, 1068, 1197, 1416, 1431, 1491
StyD4I CCNGG 4 cut(s) 82, 703, 760, 1050
StyI CCWWGG 1 cut(s) 1167
TaaI ACNGT 2 cut(s) 190, 1487
TaiI ACGT 1 cut(s) 1323
TaqI TCGA 2 cut(s) 1029, 1507
TaqII GACCGA 1 cut(s) 80
TasI AATT 5 cut(s) 33, 45, 87, 145, 838
TatI WGTACW 1 cut(s) 129
TfiI GAWTC 2 cut(s) 1001, 1055
Tru1I TTAA 3 cut(s) 1257, 1284, 1422
Tru9I TTAA 3 cut(s) 1257, 1284, 1422
TscAI CASTG 2 cut(s) 671, 774
TseFI GTSAC 5 cut(s) 727, 797, 1115, 1216, 1364
TseI GCWGC 2 cut(s) 71, 1397
Tsp45I GTSAC 5 cut(s) 727, 797, 1115, 1216, 1364
TspDTI ATGAA 5 cut(s) 778, 874, 923, 958, 1461
TspGWI ACGGA 1 cut(s) 994
TspRI CASTG 2 cut(s) 671, 774
VneI GTGCAC 1 cut(s) 184
VpaK11BI GGWCC 1 cut(s) 928
XbaI TCTAGA 1 cut(s) 1196
XceI RCATGY 5 cut(s) 158, 686, 690, 1097, 1351
XcmI CCANNNNNNNNNTGG 1 cut(s) 1129
XspI CTAG 8 cut(s) 20, 102, 693, 1068, 1197, 1416, 1431, 1491
Zsp2I ATGCAT 1 cut(s) 688
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.