Rorug05G0324100

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0002778
Physical Location & Seq
Reverse (-)
38886411 .. 38889444
3034 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0324100.1

Sequence Viewer

Length: 1185 bp
ATGACAAAGAAAGGAAAAGGACAGAAAAGGGCAGCAAGCACTTTACATCTCAAGTCTTCCACACGTTCACAGTCTGAAGACATTCCCAATGAATCAACACATGGTGACGAAGAGGTGGAAGGGCTGGAAACTGAGGCTACCAAGAGGAAAGGTAGAGGCCCTGCCAAAGGAGAAAAAGGCTACGGCATGAATGCAGAGATTTATGGAAAGAGGATTATAACTCCCCAAGCTTTGCGAAGTATTTGGCCCCTCTTCAAGTCAGAGCTGCAAGGCCCATACATAACATGGGCAGAATATCCGCAAGATCAATTGGATAAGTTGTTTGACCTATGGAGGAATAAAAATTTCAAATTTGATTGCTCCGAGGAAGAACTGAAAGATGTATTCACGGAACATATCAAGACTCGTTATAGTGACTGGATGAGTGAAATTCGGAATAGTGTTTTCCGCAAACACAAGACTGCTGCAGCTCGATATGCCAACACTCCGTCGTATTTGAAGCCAGAAATATGGACACCAATGGTTGATGAATGGCTAAAAGAAACGTGGCAGGAGAAGAGTGAGCGGAATGCAATTAATCGTGACAAATCAACTATGGTGCATACAACGGGTTCAGTTCCAATGGCGAAGTACATAAAAGAGGAGATTGATAAGACTGGAGTTGAACCGAGTCCAATAGAGATGTTTAGAAGGTTTCATATTTCTAAGCCTAAAGATGGAAAACCGGAACATTGGCAGAGTGAGAAGGCAAAGGATCTTTATGAATGTATGGAATTGCAAAAACGTATAGAGGAGACTTTGGGTGGTGATGGCGAAGACGAATTGGATGATTGGGACATATACAAGGAGGTGGTTGGTGGGTCTAAACATGGCAAAATTCGTGGCTTAGGTGACGGAATGGAACCACCGGAAGATGTGTGCGGTTCGAGTAGCAGCCAAACTTGCAATAAGCGCGTGTGTTTGGAACGTGACAAAGAGTTTGGACAATTGGAACAACAAGTTCATACTCTTACGGATATGGTGGCTGATTTGAAACAAGTCCTTCAAGCTTTCATGGCAAATAGTTCAAGTCATTCTCAATTTGCGAGACAATCACCACTTTCAGATAAAACTTCAGGCTTCCCAGGGGCTTCATCTGCTCAGCCTGCTTCTACTAATGGAGATTCTGAAACACATGCACCTTGA
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

394

Amino Acids

44.75

Weight (kDa)

5.96

Isoelectric Point (pI)

54.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 168 - 301 5e-19 Plant transposase (Ptta/En/Spm family)
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)
AanI TTATAA 1 cut(s) 218
AccBSI CCGCTC 1 cut(s) 565
AccII CGCG 1 cut(s) 954
AciI CCGC 4 cut(s) 299, 448, 565, 921
AclWI GGATC 1 cut(s) 762
AcsI RAATTY 4 cut(s) 343, 350, 429, 876
AcuI CTGAAG 2 cut(s) 96, 1098
AdeI CACNNNGTG 1 cut(s) 104
AfaI GTAC 1 cut(s) 632
AfiI CCNNNNNNNGG 2 cut(s) 167, 716
AflIII ACRYGT 1 cut(s) 62
AgsI TTSAA 7 cut(s) 256, 349, 499, 665, 1033, 1046, 1068
AjnI CCWGG 1 cut(s) 1123
AluBI AGCT 4 cut(s) 230, 265, 470, 1049
AluI AGCT 4 cut(s) 230, 265, 470, 1049
Alw26I GTCTC 2 cut(s) 788, 1081
AlwI GGATC 1 cut(s) 762
AoxI GGCC 3 cut(s) 157, 245, 271
ApeKI GCWGC 5 cut(s) 32, 265, 464, 467, 933
ApoI RAATTY 4 cut(s) 343, 350, 429, 876
ArsI GACNNNNNNTTYG 2 cut(s) 962, 994
AseI ATTAAT 1 cut(s) 576
Asp700I GAANNNNTTC 1 cut(s) 81
AspLEI GCGC 1 cut(s) 954
AspS9I GGNCC 3 cut(s) 158, 246, 272
AsuHPI GGTGA 4 cut(s) 116, 818, 902, 1086
BbsI GAAGAC 3 cut(s) 48, 84, 822
BbvI GCAGC 5 cut(s) 44, 252, 451, 479, 945
BccI CCATC 2 cut(s) 710, 803
BceAI ACGGC 1 cut(s) 199
BciT130I CCWGG 1 cut(s) 1125
BcoDI GTCTC 2 cut(s) 788, 1081
BfmI CTRYAG 1 cut(s) 465
BisI GCNGC 5 cut(s) 33, 266, 465, 468, 934
BlpI GCTNAGC 1 cut(s) 1140
BlsI GCNGC 5 cut(s) 34, 267, 466, 469, 935
Bme1390I CCNGG 1 cut(s) 1125
BmgT120I GGNCC 3 cut(s) 158, 246, 272
BmiI GGNNCC 2 cut(s) 248, 903
BmrFI CCNGG 1 cut(s) 1125
BpiI GAAGAC 3 cut(s) 48, 84, 822
BpmI CTGGAG 1 cut(s) 678
Bpu10I CCTNAGC 1 cut(s) 886
Bpu1102I GCTNAGC 1 cut(s) 1140
BpuEI CTTGAG 1 cut(s) 35
BsaJI CCNNGG 3 cut(s) 363, 1123, 1124
BsaWI WCCGGW 2 cut(s) 724, 907
Bsc4I CCNNNNNNNGG 2 cut(s) 167, 716
Bse1I ACTGG 2 cut(s) 422, 661
BseBI CCWGG 1 cut(s) 1125
BseDI CCNNGG 3 cut(s) 363, 1123, 1124
BseGI GGATG 2 cut(s) 426, 832
BseLI CCNNNNNNNGG 2 cut(s) 167, 716
BseMII CTCAG 2 cut(s) 123, 1154
BseNI ACTGG 2 cut(s) 422, 661
BseRI GAGGAG 2 cut(s) 656, 806
BseXI GCAGC 5 cut(s) 44, 252, 451, 479, 945
Bsh1236I CGCG 1 cut(s) 954
BshFI GGCC 3 cut(s) 159, 247, 273
BsiSI CCGG 2 cut(s) 725, 908
BslFI GGGAC 1 cut(s) 848
BslI CCNNNNNNNGG 2 cut(s) 167, 716
BsmAI GTCTC 2 cut(s) 788, 1081
BsmFI GGGAC 1 cut(s) 848
BsmI GAATGC 2 cut(s) 196, 574
BsnI GGCC 3 cut(s) 159, 247, 273
Bsp143I GATC 2 cut(s) 304, 754
Bsp1720I GCTNAGC 1 cut(s) 1140
BspACI CCGC 4 cut(s) 299, 448, 565, 921
BspANI GGCC 3 cut(s) 159, 247, 273
BspCNI CTCAG 2 cut(s) 124, 1153
BspFNI CGCG 1 cut(s) 954
BspLI GGNNCC 2 cut(s) 248, 903
BspMAI CTGCAG 1 cut(s) 469
BspPI GGATC 1 cut(s) 762
BsrBI CCGCTC 1 cut(s) 565
BsrI ACTGG 2 cut(s) 422, 661
BssECI CCNNGG 3 cut(s) 363, 1123, 1124
BssMI GATC 2 cut(s) 304, 754
Bst2UI CCWGG 1 cut(s) 1125
Bst4CI ACNGT 1 cut(s) 72
Bst6I CTCTTC 3 cut(s) 105, 257, 551
BstC8I GCNNGC 2 cut(s) 37, 1146
BstDEI CTNAG 4 cut(s) 132, 705, 886, 1140
BstENI CCTNNNNNAGG 1 cut(s) 165
BstF5I GGATG 2 cut(s) 426, 832
BstFNI CGCG 1 cut(s) 954
BstHHI GCGC 1 cut(s) 954
BstKTI GATC 2 cut(s) 307, 757
BstMAI GTCTC 2 cut(s) 788, 1081
BstMBI GATC 2 cut(s) 304, 754
BstMWI GCNNNNNNNGC 6 cut(s) 476, 942, 951, 1055, 1136, 1145
BstNI CCWGG 1 cut(s) 1125
BstNSI RCATGY 1 cut(s) 1178
BstSCI CCNGG 1 cut(s) 1123
BstSFI CTRYAG 1 cut(s) 465
BstUI CGCG 1 cut(s) 954
BstV1I GCAGC 5 cut(s) 44, 252, 451, 479, 945
BstV2I GAAGAC 3 cut(s) 48, 84, 822
BstX2I RGATCY 1 cut(s) 754
BstXI CCANNNNNNTGG 1 cut(s) 510
BstYI RGATCY 1 cut(s) 754
BsuRI GGCC 3 cut(s) 159, 247, 273
BtsCI GGATG 2 cut(s) 426, 832
Cac8I GCNNGC 2 cut(s) 37, 1146
CfoI GCGC 1 cut(s) 954
Cfr13I GGNCC 3 cut(s) 158, 246, 272
Csp6I GTAC 1 cut(s) 631
CspCI CAANNNNNGTGG 2 cut(s) 862, 897
CviAII CATG 6 cut(s) 101, 187, 285, 869, 1054, 1175
CviQI GTAC 1 cut(s) 631
DdeI CTNAG 4 cut(s) 132, 705, 886, 1140
DpnI GATC 2 cut(s) 306, 756
DpnII GATC 2 cut(s) 304, 754
DraIII CACNNNGTG 1 cut(s) 104
Eam1104I CTCTTC 3 cut(s) 105, 257, 551
EarI CTCTTC 3 cut(s) 105, 257, 551
Eco57I CTGAAG 2 cut(s) 96, 1098
EcoNI CCTNNNNNAGG 1 cut(s) 165
EcoO109I RGGNCCY 1 cut(s) 158
EcoRII CCWGG 1 cut(s) 1123
FaeI CATG 6 cut(s) 104, 190, 288, 872, 1057, 1178
FaqI GGGAC 1 cut(s) 848
FatI CATG 6 cut(s) 100, 186, 284, 868, 1053, 1174
Fnu4HI GCNGC 5 cut(s) 33, 266, 465, 468, 934
FokI GGATG 2 cut(s) 433, 839
Fsp4HI GCNGC 5 cut(s) 33, 266, 465, 468, 934
GlaI GCGC 1 cut(s) 953
GluI GCNGC 5 cut(s) 33, 266, 465, 468, 934
GsuI CTGGAG 1 cut(s) 678
HaeIII GGCC 3 cut(s) 159, 247, 273
HapII CCGG 2 cut(s) 725, 908
HhaI GCGC 1 cut(s) 954
Hin1II CATG 6 cut(s) 104, 190, 288, 872, 1057, 1178
Hin6I GCGC 1 cut(s) 952
HinP1I GCGC 1 cut(s) 952
HindIII AAGCTT 2 cut(s) 228, 1047
HinfI GANTC 4 cut(s) 92, 403, 670, 1163
HpaII CCGG 2 cut(s) 725, 908
HphI GGTGA 4 cut(s) 116, 818, 902, 1086
Hpy166II GTNNAC 1 cut(s) 68
Hpy188I TCNGA 6 cut(s) 76, 262, 364, 435, 1105, 1168
Hpy188III TCNNGA 2 cut(s) 400, 581
Hpy8I GTNNAC 1 cut(s) 68
Hpy99I CGWCG 1 cut(s) 493
HpyAV CCTTC 4 cut(s) 113, 684, 739, 1052
HpyCH4III ACNGT 1 cut(s) 72
HpyCH4IV ACGT 4 cut(s) 64, 545, 784, 967
HpyCH4V TGCA 8 cut(s) 194, 268, 467, 572, 601, 778, 945, 1178
HpyF10VI GCNNNNNNNGC 6 cut(s) 476, 942, 951, 1055, 1136, 1145
HpyF3I CTNAG 4 cut(s) 132, 705, 886, 1140
HpySE526I ACGT 4 cut(s) 64, 545, 784, 967
Hsp92II CATG 6 cut(s) 104, 190, 288, 872, 1057, 1178
HspAI GCGC 1 cut(s) 952
Kzo9I GATC 2 cut(s) 304, 754
LmnI GCTCC 1 cut(s) 365
Lsp1109I GCAGC 5 cut(s) 44, 252, 451, 479, 945
MaeII ACGT 4 cut(s) 64, 545, 784, 967
MaeIII GTNAC 5 cut(s) 104, 413, 581, 890, 968
MalI GATC 2 cut(s) 306, 756
MbiI CCGCTC 1 cut(s) 565
MboI GATC 2 cut(s) 304, 754
MboII GAAGA 8 cut(s) 48, 89, 122, 244, 380, 568, 827, 923
MfeI CAATTG 2 cut(s) 308, 986
MflI RGATCY 1 cut(s) 754
MlyI GAGTC 2 cut(s) 397, 679
MroXI GAANNNNTTC 1 cut(s) 81
MseI TTAA 1 cut(s) 576
MspI CCGG 2 cut(s) 725, 908
MspR9I CCNGG 1 cut(s) 1125
MunI CAATTG 2 cut(s) 308, 986
Mva1269I GAATGC 2 cut(s) 196, 574
MvaI CCWGG 1 cut(s) 1125
MvnI CGCG 1 cut(s) 954
MwoI GCNNNNNNNGC 6 cut(s) 476, 942, 951, 1055, 1136, 1145
NdeII GATC 2 cut(s) 304, 754
NlaIII CATG 6 cut(s) 104, 190, 288, 872, 1057, 1178
NlaIV GGNNCC 2 cut(s) 248, 903
NmuCI GTSAC 5 cut(s) 104, 413, 581, 890, 968
NspI RCATGY 1 cut(s) 1178
PasI CCCWGGG 1 cut(s) 1124
PctI GAATGC 2 cut(s) 196, 574
PdmI GAANNNNTTC 1 cut(s) 81
PfeI GAWTC 2 cut(s) 92, 1163
PkrI GCNGC 5 cut(s) 34, 267, 466, 469, 935
PleI GAGTC 2 cut(s) 397, 678
PpsI GAGTC 2 cut(s) 397, 678
PshBI ATTAAT 1 cut(s) 576
PsiI TTATAA 1 cut(s) 218
Psp6I CCWGG 1 cut(s) 1123
PspGI CCWGG 1 cut(s) 1123
PspN4I GGNNCC 2 cut(s) 248, 903
PspPI GGNCC 3 cut(s) 158, 246, 272
PstI CTGCAG 1 cut(s) 469
PsuI RGATCY 1 cut(s) 754
RsaI GTAC 1 cut(s) 632
RsaNI GTAC 1 cut(s) 631
SaqAI TTAA 1 cut(s) 576
SatI GCNGC 5 cut(s) 33, 266, 465, 468, 934
Sau3AI GATC 2 cut(s) 304, 754
Sau96I GGNCC 3 cut(s) 158, 246, 272
SchI GAGTC 2 cut(s) 397, 679
ScrFI CCNGG 1 cut(s) 1125
SfcI CTRYAG 1 cut(s) 465
SmlI CTYRAG 1 cut(s) 50
SmoI CTYRAG 1 cut(s) 50
SsiI CCGC 4 cut(s) 299, 448, 565, 921
StyD4I CCNGG 1 cut(s) 1123
TaaI ACNGT 1 cut(s) 72
TaiI ACGT 4 cut(s) 67, 548, 787, 970
TaqI TCGA 2 cut(s) 472, 926
TatI WGTACW 1 cut(s) 630
TfiI GAWTC 2 cut(s) 92, 1163
Tru1I TTAA 1 cut(s) 576
Tru9I TTAA 1 cut(s) 576
TseFI GTSAC 5 cut(s) 104, 413, 581, 890, 968
TseI GCWGC 5 cut(s) 32, 265, 464, 467, 933
Tsp45I GTSAC 5 cut(s) 104, 413, 581, 890, 968
TspDTI ATGAA 8 cut(s) 105, 203, 543, 686, 777, 992, 1042, 1122
TspGWI ACGGA 4 cut(s) 404, 477, 909, 1028
VspI ATTAAT 1 cut(s) 576
XagI CCTNNNNNAGG 1 cut(s) 165
XapI RAATTY 4 cut(s) 343, 350, 429, 876
XceI RCATGY 1 cut(s) 1178
XcmI CCANNNNNNNNNTGG 1 cut(s) 282
XmnI GAANNNNTTC 1 cut(s) 81
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.