Rh6DG067200

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0002618
Physical Location & Seq
Forward (+)
6835763 .. 6837880
2118 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG067200.1

Sequence Viewer

Length: 1479 bp
ATGGGAATGATGACCGAGGCAGCAACTCCTCCGGGAATTGCCAAGAACCCTAGCAATGCAAGGTGTTTGATAAAGAAGTACAAGCATTGTTACAATTTGGTGCATGTGTGCCCCAAGTTTTGTCCCGATAAGTGCACAGTTGAGTGTGTGTCATGTAAACCCATCTGTTCAGGGGGCACATCTCCCACTACACCTTCACCAACACCTACACCTACACCACCAACTCCTACTCCATCACCTCCCAAATATTACCCTTCTCCTCCTCCTAAAACTCCGACACCACCAACCCCAACCCCAACCCCAACCCCAACACCGCCAACTCCAACTCCATCACCTCCCAAATATTACCCTCCTCCTCCTAAAACGCCCACACCGCCAACTCCATCACCTCCAACTCCAACTCCAACTCCCACACCACCAACCCCGACCCCAACACCTCCAACTCCCACACCGCCAACCCCTACTCCCTCACCCCCAACCCCCACTCCCTCACCGCCAACCCCAACTCCCTCACCCCCAACCCCTACTCCCTCACCGCCAACCCCTACTCCTTCACCTCCATCAACTCCTACTCCACCAAAGAAAGGAAAGTGCAAGAACAAGAACTACCCCCAGTGCTACAACATTGAACATGCATGCCCTAGCTCCTGCCCTGGTGGATGTGAAGTGGATTGTGTCACTTGCAAGCCAGTCTGTAAGTGTGATCAACCCGGAGCAGTGTGCCAAGACCCTCGTTTCATAGGCGGTGACGGCATTACCTTTTACTTCCACGGCAAGAAAAATCACAATTTCTGCCTCTTATCCGACTCCAACCTTCACATCAATGCCCACTTCATCGGCAAGCGAAATGCCAACATGAAACGCGACTTCACATGGGTCCAATCCATCGCCATCCTCTTTGGAAAACACCAACTCTTCATCGGCGCCCAAAAAACTGCTACATGGGATGATTCCGTTGACCGCCTTGCCCTCTCCTTCGACGGCGAGCCAATCACCCTCCGGGAATCCGAAGGCGCTAGGTGGCAATCCGAGAGCTTCCCACATGTCTCATTCGTAAGGGTGGGTGACACCAACAATGTGATGGTTGAAGTTGAAGGCAGGTTTAGGATCACAGCCAAGGTTGTGCCTATAACTGAAGAAGACTCTAGAGTTCACAACTATGGTGTGACAAAAGATGATGCGTTGGCTCATCTTGATCTTGGGTTTAAGTTCTTCTCTTTGAGCAACCGAGTTAATGGTGTGTTGGGTCAGACTTACAGACCCGATTACGTGAGCCGAGTCAAGATTGGAGCCAACATGCCTGTGATGGGTGGTGACAGGGAGTTCCAAACTTCAGGACTTTTTGCTGCGGATTGTGCCAATGCTAGGTTTAATGGTGCTAGTGGCTCTGAGAATGAAGGGTCTGTTGAGGGTTTGGAGTTTCCAAGCTTGAACTGTGCTAGTGGGATTGAAGGTCGAGGAGTTGTGTGCAAGAGATAG
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

492

Amino Acids

52.71

Weight (kDa)

8.68

Isoelectric Point (pI)

54.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 401 - 457 9.2e-30 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)
Acc36I ACCTGC 1 cut(s) 1089
AccB1I GGYRCC 1 cut(s) 923
AccII CGCG 1 cut(s) 864
AciI CCGC 8 cut(s) 314, 374, 452, 494, 536, 744, 961, 1349
AclWI GGATC 1 cut(s) 1115
AcuI CTGAAG 2 cut(s) 1155, 1317
AcyI GRCGYC 1 cut(s) 924
AfaI GTAC 1 cut(s) 80
AfiI CCNNNNNNNGG 3 cut(s) 584, 1307, 1365
AflIII ACRYGT 1 cut(s) 1042
AgsI TTSAA 5 cut(s) 629, 1088, 1094, 1432, 1451
AjnI CCWGG 1 cut(s) 652
AluBI AGCT 3 cut(s) 645, 1035, 1428
AluI AGCT 3 cut(s) 645, 1035, 1428
Alw21I GWGCWC 1 cut(s) 137
Alw26I GTCTC 1 cut(s) 1051
Alw44I GTGCAC 1 cut(s) 133
AlwI GGATC 1 cut(s) 1115
ApaLI GTGCAC 1 cut(s) 133
ApeKI GCWGC 2 cut(s) 20, 1346
AspLEI GCGC 2 cut(s) 926, 1016
AspS9I GGNCC 1 cut(s) 877
AsuC2I CCSGG 3 cut(s) 33, 711, 1001
AvaII GGWCC 1 cut(s) 877
BaeGI GKGCMC 3 cut(s) 113, 137, 179
BanI GGYRCC 1 cut(s) 923
BbsI GAAGAC 1 cut(s) 1146
Bbv12I GWGCWC 1 cut(s) 137
BbvI GCAGC 2 cut(s) 32, 1333
BccI CCATC 9 cut(s) 170, 241, 337, 391, 568, 893, 899, 1075, 1300
BceAI ACGGC 3 cut(s) 766, 787, 997
BciT130I CCWGG 1 cut(s) 654
BclI TGATCA 1 cut(s) 703
BcnI CCSGG 3 cut(s) 33, 711, 1001
BcoDI GTCTC 1 cut(s) 1051
BfaI CTAG 7 cut(s) 51, 642, 1017, 1146, 1365, 1380, 1440
BfoI RGCGCY 2 cut(s) 927, 1017
BfuAI ACCTGC 1 cut(s) 1089
BisI GCNGC 2 cut(s) 21, 1347
BlsI GCNGC 2 cut(s) 22, 1348
Bme1390I CCNGG 4 cut(s) 33, 654, 711, 1001
Bme18I GGWCC 1 cut(s) 877
BmgT120I GGNCC 1 cut(s) 877
BmiI GGNNCC 3 cut(s) 878, 925, 1291
BmrFI CCNGG 4 cut(s) 33, 654, 711, 1001
BmrI ACTGGG 1 cut(s) 607
BmsI GCATC 1 cut(s) 1168
BmuI ACTGGG 1 cut(s) 607
BpiI GAAGAC 1 cut(s) 1146
BpuMI CCSGG 3 cut(s) 33, 711, 1001
BsaAI YACGTR 1 cut(s) 1270
BsaHI GRCGYC 1 cut(s) 924
BsaJI CCNNGG 4 cut(s) 15, 652, 769, 1116
Bsc4I CCNNNNNNNGG 3 cut(s) 584, 1307, 1365
Bse1I ACTGG 2 cut(s) 613, 689
Bse3DI GCAATG 1 cut(s) 61
BseBI CCWGG 1 cut(s) 654
BseDI CCNNGG 4 cut(s) 15, 652, 769, 1116
BseGI GGATG 3 cut(s) 665, 891, 952
BseLI CCNNNNNNNGG 3 cut(s) 584, 1307, 1365
BseMI GCAATG 1 cut(s) 61
BseMII CTCAG 1 cut(s) 1380
BseNI ACTGG 2 cut(s) 613, 689
BseRI GAGGAG 6 cut(s) 18, 249, 252, 342, 345, 1473
BseSI GKGCMC 3 cut(s) 113, 137, 179
BseXI GCAGC 2 cut(s) 32, 1333
Bsh1236I CGCG 1 cut(s) 864
BshNI GGYRCC 1 cut(s) 923
BsiHKAI GWGCWC 1 cut(s) 137
BsiSI CCGG 3 cut(s) 32, 711, 1000
BslFI GGGAC 1 cut(s) 108
BslI CCNNNNNNNGG 3 cut(s) 584, 1307, 1365
BsmAI GTCTC 1 cut(s) 1051
BsmFI GGGAC 1 cut(s) 108
Bsp1286I GDGCHC 3 cut(s) 113, 137, 179
Bsp143I GATC 3 cut(s) 703, 1107, 1195
BspACI CCGC 8 cut(s) 314, 374, 452, 494, 536, 744, 961, 1349
BspCNI CTCAG 1 cut(s) 1381
BspFNI CGCG 1 cut(s) 864
BspLI GGNNCC 3 cut(s) 878, 925, 1291
BspMI ACCTGC 1 cut(s) 1089
BspPI GGATC 1 cut(s) 1115
BspT107I GGYRCC 1 cut(s) 923
BsrDI GCAATG 1 cut(s) 61
BsrI ACTGG 2 cut(s) 613, 689
BssECI CCNNGG 4 cut(s) 15, 652, 769, 1116
BssMI GATC 3 cut(s) 703, 1107, 1195
BssNI GRCGYC 1 cut(s) 924
BssT1I CCWWGG 1 cut(s) 1116
Bst2UI CCWGG 1 cut(s) 654
Bst4CI ACNGT 2 cut(s) 139, 1436
Bst6I CTCTTC 1 cut(s) 920
BstACI GRCGYC 1 cut(s) 924
BstBAI YACGTR 1 cut(s) 1270
BstC8I GCNNGC 4 cut(s) 637, 686, 842, 986
BstDEI CTNAG 1 cut(s) 1389
BstDSI CCRYGG 1 cut(s) 769
BstF5I GGATG 3 cut(s) 665, 891, 952
BstFNI CGCG 1 cut(s) 864
BstH2I RGCGCY 2 cut(s) 927, 1017
BstHHI GCGC 2 cut(s) 926, 1016
BstKTI GATC 3 cut(s) 706, 1110, 1198
BstMAI GTCTC 1 cut(s) 1051
BstMBI GATC 3 cut(s) 703, 1107, 1195
BstMWI GCNNNNNNNGC 3 cut(s) 373, 750, 1355
BstNI CCWGG 1 cut(s) 654
BstNSI RCATGY 5 cut(s) 107, 635, 639, 1046, 1300
BstSCI CCNGG 4 cut(s) 31, 652, 709, 999
BstSLI GKGCMC 3 cut(s) 113, 137, 179
BstUI CGCG 1 cut(s) 864
BstV1I GCAGC 2 cut(s) 32, 1333
BstV2I GAAGAC 1 cut(s) 1146
BtgI CCRYGG 1 cut(s) 769
BtgZI GCGATG 1 cut(s) 871
BtsCI GGATG 3 cut(s) 665, 891, 952
BtsI GCAGTG 1 cut(s) 723
BtsIMutI CAGTG 2 cut(s) 620, 723
BveI ACCTGC 1 cut(s) 1089
Cac8I GCNNGC 4 cut(s) 637, 686, 842, 986
CfoI GCGC 2 cut(s) 926, 1016
Cfr13I GGNCC 1 cut(s) 877
Csp6I GTAC 1 cut(s) 79
CviAII CATG 9 cut(s) 104, 153, 632, 636, 856, 873, 942, 1043, 1297
CviQI GTAC 1 cut(s) 79
DdeI CTNAG 1 cut(s) 1389
DinI GGCGCC 1 cut(s) 925
DpnI GATC 3 cut(s) 705, 1109, 1197
DpnII GATC 3 cut(s) 703, 1107, 1195
Eam1104I CTCTTC 1 cut(s) 920
EarI CTCTTC 1 cut(s) 920
Eco130I CCWWGG 1 cut(s) 1116
Eco47I GGWCC 1 cut(s) 877
Eco57I CTGAAG 2 cut(s) 1155, 1317
EcoRII CCWGG 1 cut(s) 652
EcoT14I CCWWGG 1 cut(s) 1116
EcoT22I ATGCAT 1 cut(s) 637
EgeI GGCGCC 1 cut(s) 925
EheI GGCGCC 1 cut(s) 925
ErhI CCWWGG 1 cut(s) 1116
FaeI CATG 9 cut(s) 107, 156, 635, 639, 859, 876, 945, 1046, 1300
FaqI GGGAC 1 cut(s) 108
FatI CATG 9 cut(s) 103, 152, 631, 635, 855, 872, 941, 1042, 1296
FbaI TGATCA 1 cut(s) 703
Fnu4HI GCNGC 2 cut(s) 21, 1347
FokI GGATG 3 cut(s) 672, 878, 959
Fsp4HI GCNGC 2 cut(s) 21, 1347
FspBI CTAG 7 cut(s) 51, 642, 1017, 1146, 1365, 1380, 1440
GlaI GCGC 2 cut(s) 925, 1015
GluI GCNGC 2 cut(s) 21, 1347
HaeII RGCGCY 2 cut(s) 927, 1017
HapII CCGG 3 cut(s) 32, 711, 1000
HhaI GCGC 2 cut(s) 926, 1016
Hin1I GRCGYC 1 cut(s) 924
Hin1II CATG 9 cut(s) 107, 156, 635, 639, 859, 876, 945, 1046, 1300
Hin6I GCGC 2 cut(s) 924, 1014
HinP1I GCGC 2 cut(s) 924, 1014
HincII GTYRAC 1 cut(s) 958
HindII GTYRAC 1 cut(s) 958
HindIII AAGCTT 1 cut(s) 1426
HinfI GANTC 5 cut(s) 806, 950, 1004, 1142, 1278
HpaII CCGG 3 cut(s) 32, 711, 1000
Hpy166II GTNNAC 4 cut(s) 135, 158, 958, 1153
Hpy188I TCNGA 6 cut(s) 276, 805, 1009, 1030, 1251, 1390
Hpy188III TCNNGA 5 cut(s) 125, 1146, 1193, 1282, 1335
Hpy8I GTNNAC 4 cut(s) 135, 158, 958, 1153
Hpy99I CGWCG 1 cut(s) 983
HpyAV CCTTC 9 cut(s) 204, 264, 561, 824, 985, 1004, 1088, 1391, 1445
HpyCH4III ACNGT 2 cut(s) 139, 1436
HpyCH4IV ACGT 1 cut(s) 1269
HpyCH4V TGCA 7 cut(s) 59, 103, 135, 594, 635, 684, 1470
HpyF10VI GCNNNNNNNGC 3 cut(s) 373, 750, 1355
HpyF3I CTNAG 1 cut(s) 1389
HpySE526I ACGT 1 cut(s) 1269
Hsp92I GRCGYC 1 cut(s) 924
Hsp92II CATG 9 cut(s) 107, 156, 635, 639, 859, 876, 945, 1046, 1300
HspAI GCGC 2 cut(s) 924, 1014
KasI GGCGCC 1 cut(s) 923
Ksp22I TGATCA 1 cut(s) 703
Kzo9I GATC 3 cut(s) 703, 1107, 1195
LmnI GCTCC 3 cut(s) 650, 713, 1289
Lsp1109I GCAGC 2 cut(s) 32, 1333
LweI GCATC 1 cut(s) 1168
MaeI CTAG 7 cut(s) 51, 642, 1017, 1146, 1365, 1380, 1440
MaeII ACGT 1 cut(s) 1269
MaeIII GTNAC 6 cut(s) 89, 676, 746, 1064, 1165, 1313
MalI GATC 3 cut(s) 705, 1109, 1197
MboI GATC 3 cut(s) 703, 1107, 1195
MboII GAAGA 4 cut(s) 907, 1148, 1151, 1204
MhlI GDGCHC 3 cut(s) 113, 137, 179
MluCI AATT 3 cut(s) 36, 94, 787
Mly113I GGCGCC 1 cut(s) 924
MlyI GAGTC 3 cut(s) 800, 1136, 1287
MmeI TCCRAC 8 cut(s) 299, 347, 416, 422, 428, 464, 828, 834
Mph1103I ATGCAT 1 cut(s) 637
MseI TTAA 3 cut(s) 1206, 1233, 1371
MslI CAYNNNNRTG 3 cut(s) 822, 1158, 1301
MspI CCGG 3 cut(s) 32, 711, 1000
MspR9I CCNGG 4 cut(s) 33, 654, 711, 1001
MvaI CCWGG 1 cut(s) 654
MvnI CGCG 1 cut(s) 864
MwoI GCNNNNNNNGC 3 cut(s) 373, 750, 1355
NarI GGCGCC 1 cut(s) 924
NciI CCSGG 3 cut(s) 33, 711, 1001
NdeII GATC 3 cut(s) 703, 1107, 1195
NlaIII CATG 9 cut(s) 107, 156, 635, 639, 859, 876, 945, 1046, 1300
NlaIV GGNNCC 3 cut(s) 878, 925, 1291
NmeAIII GCCGAG 1 cut(s) 1301
NmuCI GTSAC 5 cut(s) 676, 746, 1064, 1165, 1313
NsiI ATGCAT 1 cut(s) 637
NspI RCATGY 5 cut(s) 107, 635, 639, 1046, 1300
PaeI GCATGC 1 cut(s) 639
PciI ACATGT 1 cut(s) 1042
PfeI GAWTC 2 cut(s) 950, 1004
PfoI TCCNGGA 2 cut(s) 31, 999
PkrI GCNGC 2 cut(s) 22, 1348
PleI GAGTC 3 cut(s) 800, 1136, 1286
PluTI GGCGCC 1 cut(s) 927
PpsI GAGTC 3 cut(s) 800, 1136, 1286
Ppu21I YACGTR 1 cut(s) 1270
PscI ACATGT 1 cut(s) 1042
Psp6I CCWGG 1 cut(s) 652
PspGI CCWGG 1 cut(s) 652
PspN4I GGNNCC 3 cut(s) 878, 925, 1291
PspPI GGNCC 1 cut(s) 877
PsrI GAACNNNNNNTAC 2 cut(s) 590, 622
RsaI GTAC 1 cut(s) 80
RsaNI GTAC 1 cut(s) 79
RseI CAYNNNNRTG 3 cut(s) 822, 1158, 1301
SaqAI TTAA 3 cut(s) 1206, 1233, 1371
SatI GCNGC 2 cut(s) 21, 1347
Sau3AI GATC 3 cut(s) 703, 1107, 1195
Sau96I GGNCC 1 cut(s) 877
SchI GAGTC 3 cut(s) 800, 1136, 1287
ScrFI CCNGG 4 cut(s) 33, 654, 711, 1001
SduI GDGCHC 3 cut(s) 113, 137, 179
SfaNI GCATC 1 cut(s) 1168
SfoI GGCGCC 1 cut(s) 925
SinI GGWCC 1 cut(s) 877
SmiMI CAYNNNNRTG 3 cut(s) 822, 1158, 1301
SphI GCATGC 1 cut(s) 639
Sse9I AATT 3 cut(s) 36, 94, 787
SsiI CCGC 8 cut(s) 314, 374, 452, 494, 536, 744, 961, 1349
SspDI GGCGCC 1 cut(s) 923
SspI AATATT 2 cut(s) 248, 344
SspMI CTAG 7 cut(s) 51, 642, 1017, 1146, 1365, 1380, 1440
StyD4I CCNGG 4 cut(s) 31, 652, 709, 999
StyI CCWWGG 1 cut(s) 1116
TaaI ACNGT 2 cut(s) 139, 1436
TaiI ACGT 1 cut(s) 1272
TaqI TCGA 2 cut(s) 978, 1456
TaqII GACCGA 1 cut(s) 29
TasI AATT 3 cut(s) 36, 94, 787
TatI WGTACW 1 cut(s) 78
TfiI GAWTC 2 cut(s) 950, 1004
Tru1I TTAA 3 cut(s) 1206, 1233, 1371
Tru9I TTAA 3 cut(s) 1206, 1233, 1371
TscAI CASTG 2 cut(s) 620, 723
TseFI GTSAC 5 cut(s) 676, 746, 1064, 1165, 1313
TseI GCWGC 2 cut(s) 20, 1346
Tsp45I GTSAC 5 cut(s) 676, 746, 1064, 1165, 1313
TspDTI ATGAA 5 cut(s) 727, 823, 872, 907, 1410
TspGWI ACGGA 1 cut(s) 943
TspRI CASTG 2 cut(s) 620, 723
VneI GTGCAC 1 cut(s) 133
VpaK11BI GGWCC 1 cut(s) 877
XbaI TCTAGA 1 cut(s) 1145
XceI RCATGY 5 cut(s) 107, 635, 639, 1046, 1300
XcmI CCANNNNNNNNNTGG 1 cut(s) 1078
XspI CTAG 7 cut(s) 51, 642, 1017, 1146, 1365, 1380, 1440
Zsp2I ATGCAT 1 cut(s) 637
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.