RLG00000014819

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0002618
Physical Location & Seq
Reverse (-)
57989342 .. 57991283
1942 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000014819

Sequence Viewer

Length: 1491 bp
ATGGGAATGATGACCGAGGCAGCAACTCCTCCGGGAATTGCTAAGAATCCTAGCAATGCAAGGTGTTTGATAAAGAAGTACAAGCATTGTTACAATTTGGTGCATGTGTGCCCCAAGTTTTGTCCCGATAAGTGCACAGTTGAGTGTGTGTCATGTAAACCCATCTGTTCTGGGGGCACAACATCTCCCACTACACCTTCACCAATACCTACACCTACGCCACCAACTCCTACTCCATCACCTCCCAAATATTACCCTTCTCCTCCTCCTAAAACTCCGACACCACCAACCCCAACCCCAACACCGCCAACTCCAACTCCATCACCTCCCAAATATTATCCTCCTCCTCCTAAAACGCCCACACCGCCTACTGCAACCCCAACACCGCCTACTGCAACCCCAACACCGCCAACTCCATCACCTCCAACTCCAACTCCCACACCACCAACCCCGACCCCAACACCTCCAACTCCCACACCGCCAACCCCTACTCCCTCACCCCCAACCCCCACTCCCTCACCGCCAACCCCAACCCCAACTCCCTCACCGCCAACCCCTACTCCTTCACCTCCATCAACTCCTACTCCACCAAAGAAAGGAAAGTGCAAGAACAAGAACTACCTCCAGTGCTACAACATTGAACATGCATGCCCTAGCTCCTGCCCTGGTGGATGTGAGGTGGATTGTGTCAGTTGCAAGCCAGTCTGTAAGTGTGATCAACCCGGAGCAGTGTGCCAAGACCCTCGTTTCATAGGCGGTGACGGCATTACCTTTTACTTCCACGGCAAGAAAAACCACAATTTCTGCCTCTTATCCGACTCCAACCTTCACATCAATGCCCACTTCATCGGCAAGCGAAATGCCAACATGAAACGCGACTTCACATGGGTCCAATCCATCGCCATCCTCTTTGGAAAACACCAACTCGTCATCGGCGCCCAAAAAACTGCAACATGGGATGACTCCGTTGACCGCCTTGCCCTCTCCTTCGACGGCGAACCAATCACCCTCCGAGAATCTGAAGGCGCTAGGTGGCAATCCGAGAGCTTCCCACATGTCTCATTCGTAAGAGTGGGTGACACCAACAATGTGATGGTTGAAGCTGAAGGCAAGTTTAGGATCACAGCCAAGGTTGTGCCTATAACTGAAGAAGACTCTAGAGTTCACAACTATGGTGTGACAAAAGATGATGCGTTGGCTCATCTTGATCTTGGGTTTAAGTTCTTCTATTTGAGCAACCGAGTTAATGGTGTGTTGGGTCAGACTTACAGGCCCGATTACGTGAGCCGGGTCAAGATTGGAGCCAACATGCCTGTGATGGGTGGTGACAGGGAGTTCCAAACTTCAGGACTTTTCTCTGCGGATTGCGCCATTGCTAGGTTTAATGGTGCTAGCAACTCTGAGAATGAAGGGTCTGTTGAGGGTTTGGAGTTTCCAAGCTTGAACTGTGCTAGTGGGATTGATGGTCGAGGAGTTGTGTGCAAGAGATAG
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

497

Amino Acids

53.11

Weight (kDa)

8.68

Isoelectric Point (pI)

54.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 405 - 461 1.6e-29 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)
AccB1I GGYRCC 1 cut(s) 935
AccII CGCG 1 cut(s) 876
AclWI GGATC 1 cut(s) 1127
AcuI CTGAAG 4 cut(s) 1041, 1125, 1167, 1329
AcyI GRCGYC 1 cut(s) 936
AfaI GTAC 1 cut(s) 80
AfiI CCNNNNNNNGG 3 cut(s) 596, 1319, 1377
AflIII ACRYGT 1 cut(s) 1054
AgsI TTSAA 3 cut(s) 641, 1100, 1444
AjnI CCWGG 1 cut(s) 664
AluBI AGCT 4 cut(s) 657, 1047, 1103, 1440
AluI AGCT 4 cut(s) 657, 1047, 1103, 1440
Alw21I GWGCWC 1 cut(s) 137
Alw26I GTCTC 1 cut(s) 1063
Alw44I GTGCAC 1 cut(s) 133
AlwI GGATC 1 cut(s) 1127
AoxI GGCC 1 cut(s) 1271
ApaLI GTGCAC 1 cut(s) 133
ApeKI GCWGC 1 cut(s) 20
AspLEI GCGC 3 cut(s) 938, 1028, 1370
AspS9I GGNCC 2 cut(s) 889, 1272
AsuC2I CCSGG 3 cut(s) 33, 723, 1289
AsuNHI GCTAGC 1 cut(s) 1391
AvaII GGWCC 1 cut(s) 889
BaeGI GKGCMC 3 cut(s) 113, 137, 179
BanI GGYRCC 1 cut(s) 935
BbsI GAAGAC 1 cut(s) 1158
Bbv12I GWGCWC 1 cut(s) 137
BbvI GCAGC 1 cut(s) 32
BceAI ACGGC 3 cut(s) 778, 799, 1009
BciT130I CCWGG 1 cut(s) 666
BclI TGATCA 1 cut(s) 715
BcnI CCSGG 3 cut(s) 33, 723, 1289
BcoDI GTCTC 1 cut(s) 1063
BfaI CTAG 7 cut(s) 51, 654, 1029, 1158, 1377, 1392, 1452
BfoI RGCGCY 2 cut(s) 939, 1029
BisI GCNGC 1 cut(s) 21
BlsI GCNGC 1 cut(s) 22
Bme1390I CCNGG 4 cut(s) 33, 666, 723, 1289
Bme18I GGWCC 1 cut(s) 889
BmgT120I GGNCC 2 cut(s) 889, 1272
BmiI GGNNCC 3 cut(s) 890, 937, 1303
BmrFI CCNGG 4 cut(s) 33, 666, 723, 1289
BmsI GCATC 1 cut(s) 1180
BmtI GCTAGC 1 cut(s) 1395
BpiI GAAGAC 1 cut(s) 1158
BpmI CTGGAG 1 cut(s) 608
BpuMI CCSGG 3 cut(s) 33, 723, 1289
BsaAI YACGTR 1 cut(s) 1282
BsaHI GRCGYC 1 cut(s) 936
BsaJI CCNNGG 4 cut(s) 15, 664, 781, 1128
Bsc4I CCNNNNNNNGG 3 cut(s) 596, 1319, 1377
Bse1I ACTGG 2 cut(s) 625, 701
Bse3DI GCAATG 2 cut(s) 61, 1371
BseBI CCWGG 1 cut(s) 666
BseDI CCNNGG 4 cut(s) 15, 664, 781, 1128
BseGI GGATG 3 cut(s) 677, 903, 964
BseLI CCNNNNNNNGG 3 cut(s) 596, 1319, 1377
BseMI GCAATG 2 cut(s) 61, 1371
BseMII CTCAG 1 cut(s) 1392
BseNI ACTGG 2 cut(s) 625, 701
BseRI GAGGAG 6 cut(s) 18, 252, 255, 333, 336, 1485
BseSI GKGCMC 3 cut(s) 113, 137, 179
BseXI GCAGC 1 cut(s) 32
Bsh1236I CGCG 1 cut(s) 876
BshFI GGCC 1 cut(s) 1273
BshNI GGYRCC 1 cut(s) 935
BsiHKAI GWGCWC 1 cut(s) 137
BsiSI CCGG 3 cut(s) 32, 723, 1288
BslFI GGGAC 1 cut(s) 108
BslI CCNNNNNNNGG 3 cut(s) 596, 1319, 1377
BsmAI GTCTC 1 cut(s) 1063
BsmFI GGGAC 1 cut(s) 108
BsnI GGCC 1 cut(s) 1273
Bsp1286I GDGCHC 3 cut(s) 113, 137, 179
Bsp143I GATC 3 cut(s) 715, 1119, 1207
BspANI GGCC 1 cut(s) 1273
BspCNI CTCAG 1 cut(s) 1393
BspFNI CGCG 1 cut(s) 876
BspLI GGNNCC 3 cut(s) 890, 937, 1303
BspOI GCTAGC 1 cut(s) 1395
BspPI GGATC 1 cut(s) 1127
BspT107I GGYRCC 1 cut(s) 935
BsrDI GCAATG 2 cut(s) 61, 1371
BsrI ACTGG 2 cut(s) 625, 701
BssECI CCNNGG 4 cut(s) 15, 664, 781, 1128
BssMI GATC 3 cut(s) 715, 1119, 1207
BssNI GRCGYC 1 cut(s) 936
BssT1I CCWWGG 1 cut(s) 1128
Bst2UI CCWGG 1 cut(s) 666
Bst4CI ACNGT 2 cut(s) 139, 1448
BstACI GRCGYC 1 cut(s) 936
BstBAI YACGTR 1 cut(s) 1282
BstC8I GCNNGC 4 cut(s) 649, 698, 854, 1393
BstDEI CTNAG 2 cut(s) 42, 1401
BstDSI CCRYGG 1 cut(s) 781
BstF5I GGATG 3 cut(s) 677, 903, 964
BstFNI CGCG 1 cut(s) 876
BstH2I RGCGCY 2 cut(s) 939, 1029
BstHHI GCGC 3 cut(s) 938, 1028, 1370
BstKTI GATC 3 cut(s) 718, 1122, 1210
BstMAI GTCTC 1 cut(s) 1063
BstMBI GATC 3 cut(s) 715, 1119, 1207
BstMWI GCNNNNNNNGC 3 cut(s) 364, 762, 1367
BstNI CCWGG 1 cut(s) 666
BstNSI RCATGY 5 cut(s) 107, 647, 651, 1058, 1312
BstSCI CCNGG 4 cut(s) 31, 664, 721, 1287
BstSLI GKGCMC 3 cut(s) 113, 137, 179
BstUI CGCG 1 cut(s) 876
BstV1I GCAGC 1 cut(s) 32
BstV2I GAAGAC 1 cut(s) 1158
BsuRI GGCC 1 cut(s) 1273
BtgI CCRYGG 1 cut(s) 781
BtgZI GCGATG 1 cut(s) 883
BtsCI GGATG 3 cut(s) 677, 903, 964
BtsI GCAGTG 1 cut(s) 735
BtsIMutI CAGTG 2 cut(s) 632, 735
Cac8I GCNNGC 4 cut(s) 649, 698, 854, 1393
CfoI GCGC 3 cut(s) 938, 1028, 1370
Cfr13I GGNCC 2 cut(s) 889, 1272
Csp6I GTAC 1 cut(s) 79
CviAII CATG 9 cut(s) 104, 153, 644, 648, 868, 885, 954, 1055, 1309
CviQI GTAC 1 cut(s) 79
DdeI CTNAG 2 cut(s) 42, 1401
DinI GGCGCC 1 cut(s) 937
DpnI GATC 3 cut(s) 717, 1121, 1209
DpnII GATC 3 cut(s) 715, 1119, 1207
Eco130I CCWWGG 1 cut(s) 1128
Eco47I GGWCC 1 cut(s) 889
Eco57I CTGAAG 4 cut(s) 1041, 1125, 1167, 1329
EcoRII CCWGG 1 cut(s) 664
EcoT14I CCWWGG 1 cut(s) 1128
EcoT22I ATGCAT 1 cut(s) 649
EgeI GGCGCC 1 cut(s) 937
EheI GGCGCC 1 cut(s) 937
ErhI CCWWGG 1 cut(s) 1128
FaeI CATG 9 cut(s) 107, 156, 647, 651, 871, 888, 957, 1058, 1312
FaqI GGGAC 1 cut(s) 108
FatI CATG 9 cut(s) 103, 152, 643, 647, 867, 884, 953, 1054, 1308
FbaI TGATCA 1 cut(s) 715
Fnu4HI GCNGC 1 cut(s) 21
FokI GGATG 3 cut(s) 684, 890, 971
Fsp4HI GCNGC 1 cut(s) 21
FspBI CTAG 7 cut(s) 51, 654, 1029, 1158, 1377, 1392, 1452
GlaI GCGC 3 cut(s) 937, 1027, 1369
GluI GCNGC 1 cut(s) 21
GsuI CTGGAG 1 cut(s) 608
HaeII RGCGCY 2 cut(s) 939, 1029
HaeIII GGCC 1 cut(s) 1273
HapII CCGG 3 cut(s) 32, 723, 1288
HhaI GCGC 3 cut(s) 938, 1028, 1370
Hin1I GRCGYC 1 cut(s) 936
Hin1II CATG 9 cut(s) 107, 156, 647, 651, 871, 888, 957, 1058, 1312
Hin6I GCGC 3 cut(s) 936, 1026, 1368
HinP1I GCGC 3 cut(s) 936, 1026, 1368
HincII GTYRAC 1 cut(s) 970
HindII GTYRAC 1 cut(s) 970
HindIII AAGCTT 1 cut(s) 1438
HinfI GANTC 5 cut(s) 46, 818, 962, 1016, 1154
HpaII CCGG 3 cut(s) 32, 723, 1288
Hpy166II GTNNAC 4 cut(s) 135, 158, 970, 1165
Hpy188I TCNGA 7 cut(s) 279, 817, 1013, 1021, 1042, 1263, 1402
Hpy188III TCNNGA 5 cut(s) 125, 1158, 1205, 1294, 1347
Hpy8I GTNNAC 4 cut(s) 135, 158, 970, 1165
Hpy99I CGWCG 1 cut(s) 995
HpyAV CCTTC 8 cut(s) 207, 267, 573, 836, 997, 1016, 1100, 1403
HpyCH4III ACNGT 2 cut(s) 139, 1448
HpyCH4IV ACGT 1 cut(s) 1281
HpyF10VI GCNNNNNNNGC 3 cut(s) 364, 762, 1367
HpyF3I CTNAG 2 cut(s) 42, 1401
HpySE526I ACGT 1 cut(s) 1281
Hsp92I GRCGYC 1 cut(s) 936
Hsp92II CATG 9 cut(s) 107, 156, 647, 651, 871, 888, 957, 1058, 1312
HspAI GCGC 3 cut(s) 936, 1026, 1368
KasI GGCGCC 1 cut(s) 935
Ksp22I TGATCA 1 cut(s) 715
Kzo9I GATC 3 cut(s) 715, 1119, 1207
LmnI GCTCC 3 cut(s) 662, 725, 1301
Lsp1109I GCAGC 1 cut(s) 32
LweI GCATC 1 cut(s) 1180
MaeI CTAG 7 cut(s) 51, 654, 1029, 1158, 1377, 1392, 1452
MaeII ACGT 1 cut(s) 1281
MaeIII GTNAC 5 cut(s) 89, 758, 1076, 1177, 1325
MalI GATC 3 cut(s) 717, 1121, 1209
MboI GATC 3 cut(s) 715, 1119, 1207
MboII GAAGA 3 cut(s) 1160, 1163, 1216
MhlI GDGCHC 3 cut(s) 113, 137, 179
MluCI AATT 3 cut(s) 36, 94, 799
Mly113I GGCGCC 1 cut(s) 936
MlyI GAGTC 3 cut(s) 812, 956, 1148
MmeI TCCRAC 7 cut(s) 302, 338, 449, 455, 491, 840, 846
Mph1103I ATGCAT 1 cut(s) 649
MseI TTAA 3 cut(s) 1218, 1245, 1383
MslI CAYNNNNRTG 3 cut(s) 834, 1170, 1313
MspI CCGG 3 cut(s) 32, 723, 1288
MspR9I CCNGG 4 cut(s) 33, 666, 723, 1289
MvaI CCWGG 1 cut(s) 666
MvnI CGCG 1 cut(s) 876
MwoI GCNNNNNNNGC 3 cut(s) 364, 762, 1367
NarI GGCGCC 1 cut(s) 936
NciI CCSGG 3 cut(s) 33, 723, 1289
NdeII GATC 3 cut(s) 715, 1119, 1207
NheI GCTAGC 1 cut(s) 1391
NlaIII CATG 9 cut(s) 107, 156, 647, 651, 871, 888, 957, 1058, 1312
NlaIV GGNNCC 3 cut(s) 890, 937, 1303
NmuCI GTSAC 4 cut(s) 758, 1076, 1177, 1325
NsiI ATGCAT 1 cut(s) 649
NspI RCATGY 5 cut(s) 107, 647, 651, 1058, 1312
PaeI GCATGC 1 cut(s) 651
PciI ACATGT 1 cut(s) 1054
PfeI GAWTC 2 cut(s) 46, 1016
PfoI TCCNGGA 1 cut(s) 31
PkrI GCNGC 1 cut(s) 22
PleI GAGTC 3 cut(s) 812, 956, 1148
PluTI GGCGCC 1 cut(s) 939
PpsI GAGTC 3 cut(s) 812, 956, 1148
Ppu21I YACGTR 1 cut(s) 1282
PscI ACATGT 1 cut(s) 1054
Psp6I CCWGG 1 cut(s) 664
PspGI CCWGG 1 cut(s) 664
PspN4I GGNNCC 3 cut(s) 890, 937, 1303
PspPI GGNCC 2 cut(s) 889, 1272
PsrI GAACNNNNNNTAC 2 cut(s) 602, 634
RsaI GTAC 1 cut(s) 80
RsaNI GTAC 1 cut(s) 79
RseI CAYNNNNRTG 3 cut(s) 834, 1170, 1313
SaqAI TTAA 3 cut(s) 1218, 1245, 1383
SatI GCNGC 1 cut(s) 21
Sau3AI GATC 3 cut(s) 715, 1119, 1207
Sau96I GGNCC 2 cut(s) 889, 1272
SchI GAGTC 3 cut(s) 812, 956, 1148
ScrFI CCNGG 4 cut(s) 33, 666, 723, 1289
SduI GDGCHC 3 cut(s) 113, 137, 179
SfaNI GCATC 1 cut(s) 1180
SfoI GGCGCC 1 cut(s) 937
SinI GGWCC 1 cut(s) 889
SmiMI CAYNNNNRTG 3 cut(s) 834, 1170, 1313
SphI GCATGC 1 cut(s) 651
Sse9I AATT 3 cut(s) 36, 94, 799
SspDI GGCGCC 1 cut(s) 935
SspI AATATT 2 cut(s) 251, 335
SspMI CTAG 7 cut(s) 51, 654, 1029, 1158, 1377, 1392, 1452
StyD4I CCNGG 4 cut(s) 31, 664, 721, 1287
StyI CCWWGG 1 cut(s) 1128
TaaI ACNGT 2 cut(s) 139, 1448
TaiI ACGT 1 cut(s) 1284
TaqI TCGA 2 cut(s) 990, 1468
TaqII GACCGA 1 cut(s) 29
TasI AATT 3 cut(s) 36, 94, 799
TatI WGTACW 1 cut(s) 78
TfiI GAWTC 2 cut(s) 46, 1016
Tru1I TTAA 3 cut(s) 1218, 1245, 1383
Tru9I TTAA 3 cut(s) 1218, 1245, 1383
TscAI CASTG 2 cut(s) 632, 735
TseFI GTSAC 4 cut(s) 758, 1076, 1177, 1325
TseI GCWGC 1 cut(s) 20
Tsp45I GTSAC 4 cut(s) 758, 1076, 1177, 1325
TspDTI ATGAA 4 cut(s) 739, 835, 884, 1422
TspGWI ACGGA 1 cut(s) 955
TspRI CASTG 2 cut(s) 632, 735
VneI GTGCAC 1 cut(s) 133
VpaK11BI GGWCC 1 cut(s) 889
XbaI TCTAGA 1 cut(s) 1157
XceI RCATGY 5 cut(s) 107, 647, 651, 1058, 1312
XcmI CCANNNNNNNNNTGG 1 cut(s) 1090
XspI CTAG 7 cut(s) 51, 654, 1029, 1158, 1377, 1392, 1452
Zsp2I ATGCAT 1 cut(s) 649
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.