Rh5DG384300

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0002618
Physical Location & Seq
Forward (+)
59155139 .. 59157032
1894 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG384300.1

Sequence Viewer

Length: 1485 bp
ATGGCTCATAAAGCTATGGCTCGCCTGGGTGCGGTTTTGGTCATTCTGTTGATTGCTTTTGTTGTAGCTGAGGGATCTCCTAAACCAAAGGCTAAGAAAGTCAAGTGCCAAGACAAGAAGTTCTACAAGTGTTACCATAAAGATCTCTACTGCCCAGCAGCATGCCTCCGCACTTGTGTTGTGGATTGTAAGAAATGCAAAGCTGTTTGTAAGGCGCCGCCTCCACCACCACCACCTCCTCCGCCTCCGCCACCCAGACGAAAGTGGCACCACCCACCCCCTCCTCCCCCAAAGAGTTATCACCACTCACCGCCTCCTCCTCCCAAGACTTATCCTTCACCACCACCTGCCCCTTCAGTTGTTCCTACTCCCCCTCCTCCAGCTACAACTCCACCTCCGTCACCCCCTATCTCTACCCCGTCGTCACAACCGATGCCTCCTGCTACTACCCCATCACCACCGCCATCCCCTATTACTACTCCATCACCACCTTTGTCCACACCATCATCACCGCCACCCCCTACTCCTACTCCATCACCACCGCTGCCCCCTACTTCTACACCGCCTTCTTTCTATCCTCCACCACCGCCTTCATCAGAGGCCGCGGGTGAAAAGAGAGTCAAATGCAAGAATAAGAACTACCCTCATTGCTATGGTCTGGAGCTAAGTTGTCCAAGTGGGTGCCCTGAGCAATGTGAAGTTGACTGCGTCACATGCAGTCCCGTTTGTAACTGCAACAAACCAGGTGCTGTTTGCCAAGACCCTAGATTTATTGGTGGTGATGGTATAACCTTCTACTTCCATGGCAAGCGAGACCAAGACTTCTGTCTCGTATCTGATTCCAACATCCACATCAACGCCCATTTCATCGGAAAAAGAGACCAAAATATGAAGAGGGACTTCACTTGGGTCCAATCTGTAGGTATCCTCTTTGACAATCGCAAGCTCTTCATAGGTGCCAAACCGACCTCCACTTGGGATGACACCGTCGACCGCCTAACCCTAGCCATTGACGACGAAACCATTAGCCTTGCCGACAACGAAGGCGCATATTGGCAATCACAAGGACTCAAGATCACAAGGAGCAAGAACACAAATGCTGTGGAAATTGAAGCTGAAGGGAACTTCAAGATCAAAGCAGTGGTGGTGCCGATAACGGAGAAAGAGTCGGTGATACACAGGTATGGGATTACACAGGAGGATTGCTTTGCTCACCTTGACTTGAGCTTCAAGTTTTATGCCCTAAGTGGGGAAGTTAATGGCGTGCTAGGACAGACATACGCTGAGAACTATGTTAGTAGGGTCAAGATGGGTGTCGTGATGCCTGTTTTGGGTGGCGATAGAGAATTTTCATCGTCTAGCATCTTTGCCTCGGATTGTGCTGTTGCTAGGTTTAGCGGTGAGTCTAGTGAAAAGTCCAAGTATGCTAGTACTATGAATTGCGCTAGTGGGATGGATGGCCGTGGAGTTGTTTGTAAGAGGTAA
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

494

Amino Acids

53.43

Weight (kDa)

8.8

Isoelectric Point (pI)

68.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 409 - 465 3e-27 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)
AarI CACCTGC 1 cut(s) 355
Acc36I ACCTGC 1 cut(s) 355
AccB1I GGYRCC 5 cut(s) 214, 267, 681, 956, 1147
AccI GTMKAC 1 cut(s) 990
AccII CGCG 1 cut(s) 605
AclWI GGATC 1 cut(s) 82
AcoI YGGCCR 1 cut(s) 1459
AcsI RAATTY 1 cut(s) 1346
AcuI CTGAAG 2 cut(s) 339, 1137
AcyI GRCGYC 1 cut(s) 215
AfaI GTAC 1 cut(s) 1432
AfiI CCNNNNNNNGG 5 cut(s) 31, 975, 1248, 1249, 1331
AgsI TTSAA 3 cut(s) 1112, 1129, 1231
AjnI CCWGG 2 cut(s) 24, 742
AluBI AGCT 8 cut(s) 14, 68, 203, 383, 664, 946, 1115, 1227
AluI AGCT 8 cut(s) 14, 68, 203, 383, 664, 946, 1115, 1227
Alw26I GTCTC 3 cut(s) 807, 833, 873
AlwI GGATC 1 cut(s) 82
AlwNI CAGNNNCTG 1 cut(s) 749
AoxI GGCC 2 cut(s) 600, 1459
ApeKI GCWGC 2 cut(s) 158, 544
ApoI RAATTY 1 cut(s) 1346
AspLEI GCGC 3 cut(s) 217, 1049, 1445
AspS9I GGNCC 1 cut(s) 910
AvaII GGWCC 1 cut(s) 910
BaeGI GKGCMC 1 cut(s) 686
BaeI ACNNNNGTAYC 2 cut(s) 1166, 1199
BanI GGYRCC 5 cut(s) 214, 267, 681, 956, 1147
BbvCI CCTCAGC 1 cut(s) 69
BbvI GCAGC 2 cut(s) 170, 531
BccI CCATC 9 cut(s) 460, 472, 490, 511, 541, 776, 1303, 1447, 1451
BceAI ACGGC 1 cut(s) 1446
BciT130I CCWGG 2 cut(s) 26, 744
BciVI GTATCC 1 cut(s) 935
BcoDI GTCTC 3 cut(s) 807, 833, 873
BfaI CTAG 8 cut(s) 765, 1004, 1268, 1359, 1389, 1407, 1428, 1446
BfmI CTRYAG 1 cut(s) 918
BfoI RGCGCY 1 cut(s) 218
BfuAI ACCTGC 1 cut(s) 355
BfuI GTATCC 1 cut(s) 935
BglII AGATCT 1 cut(s) 142
BisI GCNGC 4 cut(s) 159, 218, 545, 603
BlsI GCNGC 4 cut(s) 160, 219, 546, 604
BmcAI AGTACT 1 cut(s) 1432
Bme1390I CCNGG 2 cut(s) 26, 744
Bme18I GGWCC 1 cut(s) 910
BmgT120I GGNCC 1 cut(s) 910
BmiI GGNNCC 6 cut(s) 216, 269, 683, 911, 958, 1149
BmrFI CCNGG 2 cut(s) 26, 744
BmsI GCATC 3 cut(s) 423, 1311, 1371
BoxI GACNNNNGTC 1 cut(s) 825
BpmI CTGGAG 2 cut(s) 363, 680
Bpu10I CCTNAGC 2 cut(s) 69, 687
BpuEI CTTGAG 2 cut(s) 1055, 1243
BsaHI GRCGYC 1 cut(s) 215
BsaI GGTCTC 2 cut(s) 807, 873
BsaJI CCNNGG 5 cut(s) 25, 603, 802, 1371, 1462
BsaXI ACNNNNNCTCC 8 cut(s) 358, 379, 388, 409, 514, 544, 1151, 1181
Bsc4I CCNNNNNNNGG 5 cut(s) 31, 975, 1248, 1249, 1331
Bse3DI GCAATG 2 cut(s) 646, 698
BseBI CCWGG 2 cut(s) 26, 744
BseDI CCNNGG 5 cut(s) 25, 603, 802, 1371, 1462
BseGI GGATG 5 cut(s) 464, 846, 985, 1458, 1462
BseLI CCNNNNNNNGG 5 cut(s) 31, 975, 1248, 1249, 1331
BseMI GCAATG 2 cut(s) 646, 698
BseMII CTCAG 3 cut(s) 60, 678, 1275
BseRI GAGGAG 5 cut(s) 228, 273, 306, 309, 366
BseSI GKGCMC 1 cut(s) 686
BseXI GCAGC 2 cut(s) 170, 531
BseYI CCCAGC 1 cut(s) 154
Bsh1236I CGCG 1 cut(s) 605
Bsh1285I CGRYCG 1 cut(s) 994
BshFI GGCC 2 cut(s) 602, 1461
BshNI GGYRCC 5 cut(s) 214, 267, 681, 956, 1147
BsiEI CGRYCG 1 cut(s) 994
BslFI GGGAC 2 cut(s) 705, 911
BslI CCNNNNNNNGG 5 cut(s) 31, 975, 1248, 1249, 1331
BsmAI GTCTC 3 cut(s) 807, 833, 873
BsmFI GGGAC 2 cut(s) 705, 911
BsnI GGCC 2 cut(s) 602, 1461
Bso31I GGTCTC 2 cut(s) 807, 873
Bsp1286I GDGCHC 1 cut(s) 686
Bsp143I GATC 4 cut(s) 74, 142, 1074, 1131
Bsp19I CCATGG 1 cut(s) 802
BspANI GGCC 2 cut(s) 602, 1461
BspCNI CTCAG 3 cut(s) 61, 679, 1276
BspFNI CGCG 1 cut(s) 605
BspLI GGNNCC 6 cut(s) 216, 269, 683, 911, 958, 1149
BspMI ACCTGC 1 cut(s) 355
BspPI GGATC 1 cut(s) 82
BspQI GCTCTTC 1 cut(s) 953
BspT107I GGYRCC 5 cut(s) 214, 267, 681, 956, 1147
BspTNI GGTCTC 2 cut(s) 807, 873
BsrDI GCAATG 2 cut(s) 646, 698
BssECI CCNNGG 5 cut(s) 25, 603, 802, 1371, 1462
BssMI GATC 4 cut(s) 74, 142, 1074, 1131
BssNI GRCGYC 1 cut(s) 215
BssT1I CCWWGG 1 cut(s) 802
Bst2UI CCWGG 2 cut(s) 26, 744
Bst4CI ACNGT 1 cut(s) 988
Bst6I CTCTTC 2 cut(s) 887, 953
BstACI GRCGYC 1 cut(s) 215
BstC8I GCNNGC 5 cut(s) 22, 163, 809, 944, 1265
BstDEI CTNAG 6 cut(s) 69, 93, 665, 687, 1244, 1284
BstDSI CCRYGG 3 cut(s) 603, 802, 1462
BstF5I GGATG 5 cut(s) 464, 846, 985, 1458, 1462
BstFNI CGCG 1 cut(s) 605
BstH2I RGCGCY 1 cut(s) 218
BstHHI GCGC 3 cut(s) 217, 1049, 1445
BstKTI GATC 4 cut(s) 77, 145, 1077, 1134
BstMAI GTCTC 3 cut(s) 807, 833, 873
BstMBI GATC 4 cut(s) 74, 142, 1074, 1131
BstMCI CGRYCG 1 cut(s) 994
BstMWI GCNNNNNNNGC 2 cut(s) 11, 714
BstNI CCWGG 2 cut(s) 26, 744
BstNSI RCATGY 2 cut(s) 165, 717
BstPAI GACNNNNGTC 1 cut(s) 825
BstSCI CCNGG 2 cut(s) 24, 742
BstSFI CTRYAG 1 cut(s) 918
BstSLI GKGCMC 1 cut(s) 686
BstUI CGCG 1 cut(s) 605
BstV1I GCAGC 2 cut(s) 170, 531
BstX2I RGATCY 2 cut(s) 74, 142
BstYI RGATCY 2 cut(s) 74, 142
BsuI GTATCC 1 cut(s) 935
BsuRI GGCC 2 cut(s) 602, 1461
BtgI CCRYGG 3 cut(s) 603, 802, 1462
BtsCI GGATG 5 cut(s) 464, 846, 985, 1458, 1462
BtsI GCAGTG 1 cut(s) 1146
BtsIMutI CAGTG 1 cut(s) 1146
BveI ACCTGC 1 cut(s) 355
Cac8I GCNNGC 5 cut(s) 22, 163, 809, 944, 1265
CaiI CAGNNNCTG 1 cut(s) 749
CfoI GCGC 3 cut(s) 217, 1049, 1445
Cfr13I GGNCC 1 cut(s) 910
Cfr42I CCGCGG 1 cut(s) 606
CseI GACGC 1 cut(s) 697
CsiI ACCWGGT 1 cut(s) 742
Csp6I GTAC 1 cut(s) 1431
CspCI CAANNNNNGTGG 2 cut(s) 1083, 1118
CviAII CATG 3 cut(s) 162, 714, 803
CviQI GTAC 1 cut(s) 1431
DdeI CTNAG 6 cut(s) 69, 93, 665, 687, 1244, 1284
DinI GGCGCC 1 cut(s) 216
DpnI GATC 4 cut(s) 76, 144, 1076, 1133
DpnII GATC 4 cut(s) 74, 142, 1074, 1131
EaeI YGGCCR 1 cut(s) 1459
Eam1104I CTCTTC 2 cut(s) 887, 953
EarI CTCTTC 2 cut(s) 887, 953
EciI GGCGGA 2 cut(s) 231, 237
Eco130I CCWWGG 1 cut(s) 802
Eco31I GGTCTC 2 cut(s) 807, 873
Eco47I GGWCC 1 cut(s) 910
Eco57I CTGAAG 2 cut(s) 339, 1137
EcoRII CCWGG 2 cut(s) 24, 742
EcoT14I CCWWGG 1 cut(s) 802
EgeI GGCGCC 1 cut(s) 216
EheI GGCGCC 1 cut(s) 216
ErhI CCWWGG 1 cut(s) 802
FaeI CATG 3 cut(s) 165, 717, 806
FalI AAGNNNNNCTT 2 cut(s) 884, 916
FaqI GGGAC 2 cut(s) 705, 911
FatI CATG 3 cut(s) 161, 713, 802
FauI CCCGC 1 cut(s) 598
FblI GTMKAC 1 cut(s) 990
Fnu4HI GCNGC 4 cut(s) 159, 218, 545, 603
FokI GGATG 5 cut(s) 451, 833, 992, 1465, 1469
Fsp4HI GCNGC 4 cut(s) 159, 218, 545, 603
FspBI CTAG 8 cut(s) 765, 1004, 1268, 1359, 1389, 1407, 1428, 1446
GlaI GCGC 3 cut(s) 216, 1048, 1444
GluI GCNGC 4 cut(s) 159, 218, 545, 603
GsaI CCCAGC 1 cut(s) 158
GsuI CTGGAG 2 cut(s) 363, 680
HaeII RGCGCY 1 cut(s) 218
HaeIII GGCC 2 cut(s) 602, 1461
HgaI GACGC 1 cut(s) 697
HhaI GCGC 3 cut(s) 217, 1049, 1445
Hin1I GRCGYC 1 cut(s) 215
Hin1II CATG 3 cut(s) 165, 717, 806
Hin6I GCGC 3 cut(s) 215, 1047, 1443
HinP1I GCGC 3 cut(s) 215, 1047, 1443
HincII GTYRAC 2 cut(s) 703, 991
HindII GTYRAC 2 cut(s) 703, 991
HinfI GANTC 5 cut(s) 618, 839, 1068, 1166, 1403
Hpy166II GTNNAC 3 cut(s) 498, 703, 991
Hpy188I TCNGA 4 cut(s) 598, 838, 872, 1375
Hpy188III TCNNGA 5 cut(s) 659, 1072, 1129, 1306, 1318
Hpy8I GTNNAC 3 cut(s) 498, 703, 991
Hpy99I CGWCG 3 cut(s) 424, 992, 1019
HpyAV CCTTC 7 cut(s) 345, 363, 576, 600, 802, 1037, 1112
HpyCH4III ACNGT 1 cut(s) 988
HpyCH4V TGCA 4 cut(s) 198, 627, 717, 735
HpyF10VI GCNNNNNNNGC 2 cut(s) 11, 714
HpyF3I CTNAG 6 cut(s) 69, 93, 665, 687, 1244, 1284
Hsp92I GRCGYC 1 cut(s) 215
Hsp92II CATG 3 cut(s) 165, 717, 806
HspAI GCGC 3 cut(s) 215, 1047, 1443
KasI GGCGCC 1 cut(s) 214
KspI CCGCGG 1 cut(s) 606
Kzo9I GATC 4 cut(s) 74, 142, 1074, 1131
LguI GCTCTTC 1 cut(s) 953
LmnI GCTCC 2 cut(s) 661, 1083
Lsp1109I GCAGC 2 cut(s) 170, 531
LweI GCATC 3 cut(s) 423, 1311, 1371
MabI ACCWGGT 1 cut(s) 742
MaeI CTAG 8 cut(s) 765, 1004, 1268, 1359, 1389, 1407, 1428, 1446
MaeIII GTNAC 5 cut(s) 131, 399, 423, 709, 728
MalI GATC 4 cut(s) 76, 144, 1076, 1133
MboI GATC 4 cut(s) 74, 142, 1074, 1131
MboII GAAGA 2 cut(s) 904, 940
MflI RGATCY 2 cut(s) 74, 142
MhlI GDGCHC 1 cut(s) 686
MluCI AATT 3 cut(s) 1107, 1346, 1438
Mly113I GGCGCC 1 cut(s) 215
MlyI GAGTC 4 cut(s) 627, 1062, 1175, 1412
MmeI TCCRAC 1 cut(s) 867
MseI TTAA 1 cut(s) 1257
MslI CAYNNNNRTG 2 cut(s) 651, 1182
MspA1I CMGCKG 2 cut(s) 544, 605
MspR9I CCNGG 2 cut(s) 26, 744
MvaI CCWGG 2 cut(s) 26, 744
MvnI CGCG 1 cut(s) 605
MwoI GCNNNNNNNGC 2 cut(s) 11, 714
NarI GGCGCC 1 cut(s) 215
NcoI CCATGG 1 cut(s) 802
NdeII GATC 4 cut(s) 74, 142, 1074, 1131
NlaIII CATG 3 cut(s) 165, 717, 806
NlaIV GGNNCC 6 cut(s) 216, 269, 683, 911, 958, 1149
NmuCI GTSAC 3 cut(s) 399, 423, 709
NspI RCATGY 2 cut(s) 165, 717
PaeI GCATGC 1 cut(s) 165
PaqCI CACCTGC 1 cut(s) 355
PciSI GCTCTTC 1 cut(s) 953
PcsI WCGNNNNNNNCGW 1 cut(s) 428
PfeI GAWTC 1 cut(s) 839
PflFI GACNNNGTC 2 cut(s) 707, 986
PkrI GCNGC 4 cut(s) 160, 219, 546, 604
PleI GAGTC 4 cut(s) 626, 1062, 1174, 1411
PluTI GGCGCC 1 cut(s) 218
PpsI GAGTC 4 cut(s) 626, 1062, 1174, 1411
PshAI GACNNNNGTC 1 cut(s) 825
Psp6I CCWGG 2 cut(s) 24, 742
PspFI CCCAGC 1 cut(s) 154
PspGI CCWGG 2 cut(s) 24, 742
PspN4I GGNNCC 6 cut(s) 216, 269, 683, 911, 958, 1149
PspPI GGNCC 1 cut(s) 910
PstNI CAGNNNCTG 1 cut(s) 749
PsuI RGATCY 2 cut(s) 74, 142
PsyI GACNNNGTC 2 cut(s) 707, 986
RsaI GTAC 1 cut(s) 1432
RsaNI GTAC 1 cut(s) 1431
RseI CAYNNNNRTG 2 cut(s) 651, 1182
SacII CCGCGG 1 cut(s) 606
SalI GTCGAC 1 cut(s) 989
SapI GCTCTTC 1 cut(s) 953
SaqAI TTAA 1 cut(s) 1257
SatI GCNGC 4 cut(s) 159, 218, 545, 603
Sau3AI GATC 4 cut(s) 74, 142, 1074, 1131
Sau96I GGNCC 1 cut(s) 910
ScaI AGTACT 1 cut(s) 1432
SchI GAGTC 4 cut(s) 627, 1062, 1175, 1412
ScrFI CCNGG 2 cut(s) 26, 744
SduI GDGCHC 1 cut(s) 686
SexAI ACCWGGT 1 cut(s) 742
SfaNI GCATC 3 cut(s) 423, 1311, 1371
SfcI CTRYAG 1 cut(s) 918
SfoI GGCGCC 1 cut(s) 216
Sfr303I CCGCGG 1 cut(s) 606
SgrBI CCGCGG 1 cut(s) 606
SinI GGWCC 1 cut(s) 910
SmiMI CAYNNNNRTG 2 cut(s) 651, 1182
SmlI CTYRAG 2 cut(s) 1070, 1222
SmoI CTYRAG 2 cut(s) 1070, 1222
SphI GCATGC 1 cut(s) 165
Sse9I AATT 3 cut(s) 1107, 1346, 1438
SspDI GGCGCC 1 cut(s) 214
SspMI CTAG 8 cut(s) 765, 1004, 1268, 1359, 1389, 1407, 1428, 1446
StyD4I CCNGG 2 cut(s) 24, 742
StyI CCWWGG 1 cut(s) 802
TaaI ACNGT 1 cut(s) 988
TaqI TCGA 1 cut(s) 990
TasI AATT 3 cut(s) 1107, 1346, 1438
TatI WGTACW 1 cut(s) 1430
TauI GCSGC 2 cut(s) 220, 605
TfiI GAWTC 1 cut(s) 839
Tru1I TTAA 1 cut(s) 1257
Tru9I TTAA 1 cut(s) 1257
TscAI CASTG 1 cut(s) 1146
TseFI GTSAC 3 cut(s) 399, 423, 709
TseI GCWGC 2 cut(s) 158, 544
Tsp45I GTSAC 3 cut(s) 399, 423, 709
TspDTI ATGAA 6 cut(s) 582, 856, 905, 940, 1341, 1451
TspGWI ACGGA 2 cut(s) 387, 1172
TspRI CASTG 1 cut(s) 1146
Tth111I GACNNNGTC 2 cut(s) 707, 986
VpaK11BI GGWCC 1 cut(s) 910
XapI RAATTY 1 cut(s) 1346
XceI RCATGY 2 cut(s) 165, 717
XmiI GTMKAC 1 cut(s) 990
XspI CTAG 8 cut(s) 765, 1004, 1268, 1359, 1389, 1407, 1428, 1446
ZrmI AGTACT 1 cut(s) 1432
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.