Rh5CG393000

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0002618
Physical Location & Seq
Forward (+)
51779725 .. 51781809
2085 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG393000.1

Sequence Viewer

Length: 1659 bp
ATGACAAAATTTCTTCACAAAACCACTATAAAAAAAGAGGCCAGCTTCAATAGAAGTCACAATTACAAACGAATTCAGTTGCATTCCGAGCTTGAGCACCAAATGGCTCATAAAGCTATGGTGCGTTTGGGTGCGGTTTTGGTCATTCTGTTGATTGCTTTTGTTGTAGCTGAGGGATCTCCTAAACCAAAGGCTAAGAAAGTCAAGTGCCAAGACAAGAAGTTCTACAAGTGTTACCACAAAGATCTCTACTGCCCAGCAGCATGCCTCCGCACTTGTGTTGTGGATTGTAAGAAATGCAAAGCTGTTTGTAAGGCGCCGCCTCCCCCACCACCACCTCCTCCACCGCCGCCACCCAGACGTAAGTGGCGCTACCCACCCCCTCCTCCCCCAAAGAGTTATCACCGCTCACCGCCTCCTCCTCCCAAGACTTATCCATCACCACCACCTGCCCCTTCAGTTGTTCTTACTCCCCCTCCTTCAACTACAACTCCACCTCCGTCACCCCCTATCTCCACCCCGTCGTCACCACCGTTGCCTCCTACTACTACCCCATCACCACCGCCATCCCCTATTCCTACCCCGTCACCACCGTCTTTGCCCCCTACGTCTACACCGTCACCGCCACCACCCCCTACTCCTACCCCGTCAACCGCGCCACCCCCTACTCCTACTCCATCACCACCGCTGCCTCCTACTCCTACCCCATCAGTACCTTCTTTGTATCCTCCCCCACCACCGCCATCATCAGAGGCCGCGGGTGAAAAGAGAGTCAAATGCAAGAACAAGAACTACCCTCATTGCTATGGTCTGGAGCTAAGTTGTCCTAGTGGGTGCCCTGAGCAATGTGAGGTTGACTGCGTTACATGCAGTCCCGTTTGTAACTGCAACAGGCCAGGTGCAGTGTGCCAAGACCCCAGATTCATAGGTGGTGATGGTATAACCTTCTACTTTCATGGCAAGCGAGACCAAGACTTCTGCCTCGTTTCTGATTCCAATCTGCACATCAACGCCCACTTCATCGGAAAAAGAAACAAAAATATGGGGAGAGACTTCACTTGGGTCCAGTCTCTAGGTATCCTCTTCAACAACCGCAGGCTCTTCATTGGTGCCAAACCAACCTCCACTTGGGATGATACCGTCGACCGCTTAACCCTAGCCATCGACGATGAAACCATCAGCCTTCCCGACAACGAAGGCGCATACTGGCAATCGCAAGGACTCAGCATCACAAGGAGCAAGAACACAAATGCTGTAGAAATTAAAGCCGAAGGGAACTTCAAGATCAAAGCTGTAGTGGTGCCGATAACGGAGAAAGAGTCAGTGATGCACAAGTATGGGATTACGCAGGAGGATTGCTTTGCTCACCTGGACTTGAGCTTCAAGTTTTATGCACTAAGTGAAGAAGTGAATGGTGTGTTAGGGCAGACGTACGGTGAGAACTATGTGAGTAGGGTTAAAATGGGTATTGTGATGCCTGTTTTGGGTGGCGATAAAGAATTTGCATCGTCTAGCATCTTTTCCTCTGATTGTTCTGTTGCTAGGTTTAGCGGTGAGTTCAGCGAAAGCAACGGTTCTGATCGGGAGAATTCCAAGTATGTTAATACTATGAATTGTGCTAGTGGGATGGATGGCCGTGGAGTTGTTTGTAAGAGGTAA
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

552

Amino Acids

60.17

Weight (kDa)

9.05

Isoelectric Point (pI)

66.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 460 - 516 3.2e-27 Root cap
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)
AarI CACCTGC 1 cut(s) 457
Acc36I ACCTGC 1 cut(s) 457
AccB1I GGYRCC 4 cut(s) 316, 834, 1109, 1300
AccBSI CCGCTC 1 cut(s) 408
AccI GTMKAC 2 cut(s) 611, 1143
AccII CGCG 2 cut(s) 656, 758
AclWI GGATC 1 cut(s) 184
AcoI YGGCCR 1 cut(s) 1633
AcsI RAATTY 4 cut(s) 8, 72, 1499, 1588
AcuI CTGAAG 1 cut(s) 441
AcyI GRCGYC 1 cut(s) 317
AdeI CACNNNGTG 1 cut(s) 1400
AfaI GTAC 2 cut(s) 714, 1433
AfiI CCNNNNNNNGG 2 cut(s) 1128, 1484
AgsI TTSAA 5 cut(s) 49, 483, 1087, 1282, 1384
AjnI CCWGG 2 cut(s) 895, 1368
AluBI AGCT 8 cut(s) 45, 91, 116, 170, 305, 817, 1292, 1380
AluI AGCT 8 cut(s) 45, 91, 116, 170, 305, 817, 1292, 1380
Alw21I GWGCWC 1 cut(s) 99
Alw26I GTCTC 3 cut(s) 960, 1044, 1074
AlwI GGATC 1 cut(s) 184
AoxI GGCC 4 cut(s) 39, 753, 893, 1633
ApeKI GCWGC 2 cut(s) 260, 688
ApoI RAATTY 4 cut(s) 8, 72, 1499, 1588
AspLEI GCGC 4 cut(s) 319, 372, 658, 1202
AspS9I GGNCC 1 cut(s) 1063
AvaII GGWCC 1 cut(s) 1063
BaeGI GKGCMC 1 cut(s) 839
BanI GGYRCC 4 cut(s) 316, 834, 1109, 1300
Bbv12I GWGCWC 1 cut(s) 99
BbvCI CCTCAGC 1 cut(s) 171
BbvI GCAGC 2 cut(s) 272, 675
BceAI ACGGC 1 cut(s) 1620
BciT130I CCWGG 2 cut(s) 897, 1370
BciVI GTATCC 2 cut(s) 735, 1088
BcoDI GTCTC 3 cut(s) 960, 1044, 1074
BfaI CTAG 6 cut(s) 828, 1073, 1157, 1512, 1542, 1620
BfmI CTRYAG 2 cut(s) 1254, 1293
BfoI RGCGCY 2 cut(s) 320, 373
BfuAI ACCTGC 1 cut(s) 457
BfuI GTATCC 2 cut(s) 735, 1088
BglII AGATCT 1 cut(s) 244
BisI GCNGC 5 cut(s) 261, 320, 350, 689, 756
BlsI GCNGC 5 cut(s) 262, 321, 351, 690, 757
Bme1390I CCNGG 2 cut(s) 897, 1370
Bme18I GGWCC 1 cut(s) 1063
BmgT120I GGNCC 1 cut(s) 1063
BmiI GGNNCC 5 cut(s) 318, 836, 1064, 1111, 1302
BmrFI CCNGG 2 cut(s) 897, 1370
BmsI GCATC 5 cut(s) 1236, 1317, 1464, 1514, 1524
BpmI CTGGAG 1 cut(s) 833
Bpu10I CCTNAGC 2 cut(s) 171, 840
BpuEI CTTGAG 2 cut(s) 113, 1396
BsaBI GATNNNNATC 1 cut(s) 996
BsaHI GRCGYC 1 cut(s) 317
BsaI GGTCTC 1 cut(s) 960
BsaJI CCNNGG 2 cut(s) 756, 1636
Bsc4I CCNNNNNNNGG 2 cut(s) 1128, 1484
Bse1I ACTGG 2 cut(s) 1066, 1211
Bse3DI GCAATG 2 cut(s) 799, 851
Bse8I GATNNNNATC 1 cut(s) 996
BseBI CCWGG 2 cut(s) 897, 1370
BseDI CCNNGG 2 cut(s) 756, 1636
BseGI GGATG 4 cut(s) 566, 1138, 1632, 1636
BseJI GATNNNNATC 1 cut(s) 996
BseLI CCNNNNNNNGG 2 cut(s) 1128, 1484
BseMI GCAATG 2 cut(s) 799, 851
BseMII CTCAG 3 cut(s) 162, 831, 1237
BseNI ACTGG 2 cut(s) 1066, 1211
BseRI GAGGAG 4 cut(s) 330, 375, 408, 411
BseSI GKGCMC 1 cut(s) 839
BseXI GCAGC 2 cut(s) 272, 675
BseYI CCCAGC 1 cut(s) 256
BsgI GTGCAG 2 cut(s) 921, 986
Bsh1236I CGCG 2 cut(s) 656, 758
Bsh1285I CGRYCG 1 cut(s) 1147
BshFI GGCC 4 cut(s) 41, 755, 895, 1635
BshNI GGYRCC 4 cut(s) 316, 834, 1109, 1300
BsiEI CGRYCG 1 cut(s) 1147
BsiHKAI GWGCWC 1 cut(s) 99
BsiWI CGTACG 1 cut(s) 1431
BslFI GGGAC 1 cut(s) 858
BslI CCNNNNNNNGG 2 cut(s) 1128, 1484
BsmAI GTCTC 3 cut(s) 960, 1044, 1074
BsmFI GGGAC 1 cut(s) 858
BsmI GAATGC 1 cut(s) 82
BsnI GGCC 4 cut(s) 41, 755, 895, 1635
Bso31I GGTCTC 1 cut(s) 960
Bsp1286I GDGCHC 2 cut(s) 99, 839
Bsp143I GATC 4 cut(s) 176, 244, 1284, 1579
BspANI GGCC 4 cut(s) 41, 755, 895, 1635
BspCNI CTCAG 3 cut(s) 163, 832, 1236
BspFNI CGCG 2 cut(s) 656, 758
BspLI GGNNCC 5 cut(s) 318, 836, 1064, 1111, 1302
BspMI ACCTGC 1 cut(s) 457
BspPI GGATC 1 cut(s) 184
BspQI GCTCTTC 1 cut(s) 1106
BspT107I GGYRCC 4 cut(s) 316, 834, 1109, 1300
BspTNI GGTCTC 1 cut(s) 960
BsrBI CCGCTC 1 cut(s) 408
BsrDI GCAATG 2 cut(s) 799, 851
BsrI ACTGG 2 cut(s) 1066, 1211
BssECI CCNNGG 2 cut(s) 756, 1636
BssMI GATC 4 cut(s) 176, 244, 1284, 1579
BssNI GRCGYC 1 cut(s) 317
Bst2UI CCWGG 2 cut(s) 897, 1370
Bst4CI ACNGT 6 cut(s) 534, 594, 618, 1141, 1436, 1574
Bst6I CTCTTC 2 cut(s) 1088, 1106
BstACI GRCGYC 1 cut(s) 317
BstC8I GCNNGC 4 cut(s) 43, 265, 962, 1097
BstDEI CTNAG 6 cut(s) 171, 195, 818, 840, 1223, 1397
BstDSI CCRYGG 2 cut(s) 756, 1636
BstF5I GGATG 4 cut(s) 566, 1138, 1632, 1636
BstFNI CGCG 2 cut(s) 656, 758
BstH2I RGCGCY 2 cut(s) 320, 373
BstHHI GCGC 4 cut(s) 319, 372, 658, 1202
BstKTI GATC 4 cut(s) 179, 247, 1287, 1582
BstMAI GTCTC 3 cut(s) 960, 1044, 1074
BstMBI GATC 4 cut(s) 176, 244, 1284, 1579
BstMCI CGRYCG 1 cut(s) 1147
BstMWI GCNNNNNNNGC 3 cut(s) 88, 113, 867
BstNI CCWGG 2 cut(s) 897, 1370
BstNSI RCATGY 2 cut(s) 267, 870
BstSCI CCNGG 2 cut(s) 895, 1368
BstSFI CTRYAG 2 cut(s) 1254, 1293
BstSLI GKGCMC 1 cut(s) 839
BstUI CGCG 2 cut(s) 656, 758
BstV1I GCAGC 2 cut(s) 272, 675
BstX2I RGATCY 2 cut(s) 176, 244
BstYI RGATCY 2 cut(s) 176, 244
BsuI GTATCC 2 cut(s) 735, 1088
BsuRI GGCC 4 cut(s) 41, 755, 895, 1635
BtgI CCRYGG 2 cut(s) 756, 1636
BtsCI GGATG 4 cut(s) 566, 1138, 1632, 1636
BtsI GCAGTG 1 cut(s) 909
BtsIMutI CAGTG 2 cut(s) 909, 1329
BveI ACCTGC 1 cut(s) 457
Cac8I GCNNGC 4 cut(s) 43, 265, 962, 1097
CfoI GCGC 4 cut(s) 319, 372, 658, 1202
Cfr13I GGNCC 1 cut(s) 1063
Cfr42I CCGCGG 1 cut(s) 759
Csp6I GTAC 2 cut(s) 713, 1432
CspCI CAANNNNNGTGG 2 cut(s) 579, 614
CviAII CATG 3 cut(s) 264, 867, 956
CviQI GTAC 2 cut(s) 713, 1432
DdeI CTNAG 6 cut(s) 171, 195, 818, 840, 1223, 1397
DinI GGCGCC 1 cut(s) 318
DpnI GATC 4 cut(s) 178, 246, 1286, 1581
DpnII GATC 4 cut(s) 176, 244, 1284, 1579
DraIII CACNNNGTG 1 cut(s) 1400
EaeI YGGCCR 1 cut(s) 1633
Eam1104I CTCTTC 2 cut(s) 1088, 1106
EarI CTCTTC 2 cut(s) 1088, 1106
Eco31I GGTCTC 1 cut(s) 960
Eco47I GGWCC 1 cut(s) 1063
Eco57I CTGAAG 1 cut(s) 441
EcoRI GAATTC 2 cut(s) 72, 1588
EcoRII CCWGG 2 cut(s) 895, 1368
EgeI GGCGCC 1 cut(s) 318
EheI GGCGCC 1 cut(s) 318
FaeI CATG 3 cut(s) 267, 870, 959
FaqI GGGAC 1 cut(s) 858
FatI CATG 3 cut(s) 263, 866, 955
FauI CCCGC 1 cut(s) 751
FblI GTMKAC 2 cut(s) 611, 1143
Fnu4HI GCNGC 5 cut(s) 261, 320, 350, 689, 756
FokI GGATG 4 cut(s) 553, 1145, 1639, 1643
Fsp4HI GCNGC 5 cut(s) 261, 320, 350, 689, 756
FspBI CTAG 6 cut(s) 828, 1073, 1157, 1512, 1542, 1620
GlaI GCGC 4 cut(s) 318, 371, 657, 1201
GluI GCNGC 5 cut(s) 261, 320, 350, 689, 756
GsaI CCCAGC 1 cut(s) 260
GsuI CTGGAG 1 cut(s) 833
HaeII RGCGCY 2 cut(s) 320, 373
HaeIII GGCC 4 cut(s) 41, 755, 895, 1635
HhaI GCGC 4 cut(s) 319, 372, 658, 1202
Hin1I GRCGYC 1 cut(s) 317
Hin1II CATG 3 cut(s) 267, 870, 959
Hin6I GCGC 4 cut(s) 317, 370, 656, 1200
HinP1I GCGC 4 cut(s) 317, 370, 656, 1200
HincII GTYRAC 3 cut(s) 651, 856, 1144
HindII GTYRAC 3 cut(s) 651, 856, 1144
HinfI GANTC 5 cut(s) 771, 921, 992, 1221, 1319
Hpy166II GTNNAC 4 cut(s) 612, 651, 856, 1144
Hpy188I TCNGA 6 cut(s) 88, 751, 991, 1025, 1528, 1579
Hpy188III TCNNGA 4 cut(s) 812, 1187, 1282, 1583
Hpy8I GTNNAC 4 cut(s) 612, 651, 856, 1144
Hpy99I CGWCG 3 cut(s) 526, 1145, 1169
HpyAV CCTTC 7 cut(s) 465, 489, 726, 955, 1190, 1193, 1265
HpyCH4III ACNGT 6 cut(s) 534, 594, 618, 1141, 1436, 1574
HpyCH4IV ACGT 3 cut(s) 361, 608, 1430
HpyF10VI GCNNNNNNNGC 3 cut(s) 88, 113, 867
HpyF3I CTNAG 6 cut(s) 171, 195, 818, 840, 1223, 1397
HpySE526I ACGT 3 cut(s) 361, 608, 1430
Hsp92I GRCGYC 1 cut(s) 317
Hsp92II CATG 3 cut(s) 267, 870, 959
HspAI GCGC 4 cut(s) 317, 370, 656, 1200
KasI GGCGCC 1 cut(s) 316
KspI CCGCGG 1 cut(s) 759
Kzo9I GATC 4 cut(s) 176, 244, 1284, 1579
LguI GCTCTTC 1 cut(s) 1106
LmnI GCTCC 2 cut(s) 814, 1236
Lsp1109I GCAGC 2 cut(s) 272, 675
LweI GCATC 5 cut(s) 1236, 1317, 1464, 1514, 1524
MaeI CTAG 6 cut(s) 828, 1073, 1157, 1512, 1542, 1620
MaeII ACGT 3 cut(s) 361, 608, 1430
MaeIII GTNAC 8 cut(s) 56, 233, 501, 525, 585, 618, 862, 881
MalI GATC 4 cut(s) 178, 246, 1286, 1581
MbiI CCGCTC 1 cut(s) 408
MboI GATC 4 cut(s) 176, 244, 1284, 1579
MboII GAAGA 4 cut(s) 5, 1075, 1093, 1415
MflI RGATCY 2 cut(s) 176, 244
MhlI GDGCHC 2 cut(s) 99, 839
MluCI AATT 7 cut(s) 8, 61, 72, 1260, 1499, 1588, 1612
Mly113I GGCGCC 1 cut(s) 317
MlyI GAGTC 3 cut(s) 780, 1215, 1328
MseI TTAA 4 cut(s) 1151, 1263, 1458, 1602
MslI CAYNNNNRTG 2 cut(s) 804, 1335
MspA1I CMGCKG 2 cut(s) 688, 758
MspR9I CCNGG 2 cut(s) 897, 1370
Mva1269I GAATGC 1 cut(s) 82
MvaI CCWGG 2 cut(s) 897, 1370
MvnI CGCG 2 cut(s) 656, 758
MwoI GCNNNNNNNGC 3 cut(s) 88, 113, 867
NarI GGCGCC 1 cut(s) 317
NdeII GATC 4 cut(s) 176, 244, 1284, 1579
NlaIII CATG 3 cut(s) 267, 870, 959
NlaIV GGNNCC 5 cut(s) 318, 836, 1064, 1111, 1302
NmuCI GTSAC 5 cut(s) 56, 501, 525, 585, 618
NspI RCATGY 2 cut(s) 267, 870
PaeI GCATGC 1 cut(s) 267
PaqCI CACCTGC 1 cut(s) 457
PciSI GCTCTTC 1 cut(s) 1106
PcsI WCGNNNNNNNCGW 2 cut(s) 530, 614
PctI GAATGC 1 cut(s) 82
PfeI GAWTC 2 cut(s) 921, 992
Pfl23II CGTACG 1 cut(s) 1431
PkrI GCNGC 5 cut(s) 262, 321, 351, 690, 757
PleI GAGTC 3 cut(s) 779, 1215, 1327
PluTI GGCGCC 1 cut(s) 320
PpsI GAGTC 3 cut(s) 779, 1215, 1327
Psp6I CCWGG 2 cut(s) 895, 1368
PspFI CCCAGC 1 cut(s) 256
PspGI CCWGG 2 cut(s) 895, 1368
PspLI CGTACG 1 cut(s) 1431
PspN4I GGNNCC 5 cut(s) 318, 836, 1064, 1111, 1302
PspPI GGNCC 1 cut(s) 1063
PsrI GAACNNNNNNTAC 2 cut(s) 776, 808
PsuI RGATCY 2 cut(s) 176, 244
RsaI GTAC 2 cut(s) 714, 1433
RsaNI GTAC 2 cut(s) 713, 1432
RseI CAYNNNNRTG 2 cut(s) 804, 1335
SacII CCGCGG 1 cut(s) 759
SalI GTCGAC 1 cut(s) 1142
SapI GCTCTTC 1 cut(s) 1106
SaqAI TTAA 4 cut(s) 1151, 1263, 1458, 1602
SatI GCNGC 5 cut(s) 261, 320, 350, 689, 756
Sau3AI GATC 4 cut(s) 176, 244, 1284, 1579
Sau96I GGNCC 1 cut(s) 1063
SchI GAGTC 3 cut(s) 780, 1215, 1328
ScrFI CCNGG 2 cut(s) 897, 1370
SduI GDGCHC 2 cut(s) 99, 839
SfaNI GCATC 5 cut(s) 1236, 1317, 1464, 1514, 1524
SfcI CTRYAG 2 cut(s) 1254, 1293
SfoI GGCGCC 1 cut(s) 318
Sfr303I CCGCGG 1 cut(s) 759
SgrBI CCGCGG 1 cut(s) 759
SinI GGWCC 1 cut(s) 1063
SmiMI CAYNNNNRTG 2 cut(s) 804, 1335
SmlI CTYRAG 2 cut(s) 92, 1375
SmoI CTYRAG 2 cut(s) 92, 1375
SphI GCATGC 1 cut(s) 267
Sse9I AATT 7 cut(s) 8, 61, 72, 1260, 1499, 1588, 1612
SspDI GGCGCC 1 cut(s) 316
SspMI CTAG 6 cut(s) 828, 1073, 1157, 1512, 1542, 1620
StyD4I CCNGG 2 cut(s) 895, 1368
TaaI ACNGT 6 cut(s) 534, 594, 618, 1141, 1436, 1574
TaiI ACGT 3 cut(s) 364, 611, 1433
TaqI TCGA 2 cut(s) 1143, 1164
TasI AATT 7 cut(s) 8, 61, 72, 1260, 1499, 1588, 1612
TauI GCSGC 3 cut(s) 322, 352, 758
TfiI GAWTC 2 cut(s) 921, 992
Tru1I TTAA 4 cut(s) 1151, 1263, 1458, 1602
Tru9I TTAA 4 cut(s) 1151, 1263, 1458, 1602
TscAI CASTG 2 cut(s) 909, 1329
TseFI GTSAC 5 cut(s) 56, 501, 525, 585, 618
TseI GCWGC 2 cut(s) 260, 688
Tsp45I GTSAC 5 cut(s) 56, 501, 525, 585, 618
TspDTI ATGAA 6 cut(s) 913, 944, 1009, 1093, 1185, 1625
TspGWI ACGGA 2 cut(s) 489, 1325
TspRI CASTG 2 cut(s) 909, 1329
VpaK11BI GGWCC 1 cut(s) 1063
XapI RAATTY 4 cut(s) 8, 72, 1499, 1588
XceI RCATGY 2 cut(s) 267, 870
XcmI CCANNNNNNNNNTGG 1 cut(s) 1125
XmiI GTMKAC 2 cut(s) 611, 1143
XspI CTAG 6 cut(s) 828, 1073, 1157, 1512, 1542, 1620
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.