Rroxscaffold_3G00226680

Zinc-finger of C2H2 type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0017315
Physical Location & Seq
Forward (+)
10318242 .. 10321960
3719 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00226680.1

Sequence Viewer

Length: 1281 bp
ATGGGTTGGCTAGTTTTTCTTAAGCTCTCAGCAAAGTTTTTAACTGTTCTTTCCTGGCCTTCGTTTAGTTTGGTTTATGCCCTGTATGCTTCCATTCAGGCCGTTCAGAGTGACTCTCACTCCAGAAATCAGCGATGTCTTGCTTACTGGGTTTTGTTTGCTTTATACAAAATCTCAGAGTCAACGCTTGCAAAGCTTTTCTATTGGCTTCCACTCTGGCCTTATACAAAGGGTGTAATAACGGTCCTTCTGGTGTTACCCTACTTCCATGGTGCTTCTTATCTGTATGAGCATTTTATCAGGTCCTATATTTCTGAGTATTCATTTATCTGGAAATGGAACTTCTTGTCCATACCAAGGGTAAAAGGTTTATTTTCGAGGGGGGACAGCTACCCTGATGTGGTTGATAAAAGTGTTATTAGCATGGAACCACAAGAATCAGCAAGACCTGTCATATTTCAGGGAATACCGGCCTCCAGTTCTGAATCAATAGTAAGGGAGAGTGCTTTGCCAAGTAGTCCAAAGAAAATTCAGAGGGAGTGGAGCTGTGCTCTTTGTCTAGTTAACACTACAAGTGAAAATTGTTTGAAGAAGCACATCCAAGGTAGGAAACATGTCTTGCAAGAAGAAGCACTACGAGTAAGACAGGTCCCCATTGGTGGATACAAATCTTCCCTGAAGCTGAAGAGAACAAATGGAAGGGTTTTACTTGATAACTTGAATCAAATTGCTAGAGCCAACTTGGAAAAATGGGGTGGCATTCTAAGACCAATTAGATTGTGCAAATGGAAAAAGCCAGAGGTTGGATGGACAAAATTAAATACTGATGGATCCGTAGTATCAGGAAATGCCGGTTTTGGGGGTCTACTTCGTAATTATAAGGGTGAACCAATATGTGCCTTTGTCTCTAAAGCTCTAGGCGATGATATTTTCTCGGTTGAATTATGGGCTATATGGAGAGGCCTTGTTCTTGCCTCGGGTCTTGGGATTAAAGTAATATGGGTTGAGTCTGATTCAATGAGCGTTGTGAAGACAATTAATCGAGATCAGCCTTACAGTATGAAGGCTGGCAGCTGTTTGAAGCATATCTGGGACCTTCTAAAGAAATTTGACAAGCACTGTGTTTCTCATTCATGGCGTGAAACTAACAGGGCTGCTGATCATCTTTCAAAGATGGTTCTTTCTGTGAGTGACGTTGTTTTTTGGCCAGGTGATTTTCCTGATAGCCTTAATAAAATTATCAAGGAGGATGCTGAAGGCAGGATATACTGTAGAATTTGA
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
RVT_3 TB2_DP1_HVA22 zf-met

Protein Analysis

426

Amino Acids

48.47

Weight (kDa)

9.51

Isoelectric Point (pI)

34.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TB2_DP1_HVA22 PF03134 28 - 103 1.9e-19 TB2/DP1, HVA22 family
zf-met PF12874 181 - 205 4.9e-06 Zinc-finger of C2H2 type
RVT_3 PF13456 274 - 392 9.3e-28 Reverse transcriptase-like
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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Orthologous Genes (Group: OG0017315)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g34302 FvH4_5g34302 FvH4_5g34302
prunus_persica Prupe.1G535200_v2.0.a1 Prupe.1G535200_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0234881
rosa_laevigata RLG00000001207
rosa_roxburghii Rroxscaffold_3G00226680
rosa_samantha Rh7AG440600 Rh7BG413400 Rh7CG462300 Rh7DG430300
rosa_wichuraiana Rw7G036630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 879
AccB7I CCANNNNNTGG 1 cut(s) 803
AccI GTMKAC 1 cut(s) 865
AclWI GGATC 2 cut(s) 825, 838
AcoI YGGCCR 1 cut(s) 1205
AcsI RAATTY 3 cut(s) 528, 1106, 1275
AcuI CTGAAG 3 cut(s) 698, 704, 1275
AfiI CCNNNNNNNGG 5 cut(s) 357, 400, 659, 803, 858
AflII CTTAAG 1 cut(s) 20
AflIII ACRYGT 1 cut(s) 613
AgsI TTSAA 6 cut(s) 589, 721, 941, 1017, 1081, 1170
AjnI CCWGG 2 cut(s) 53, 1207
AloI GAACNNNNNNTCC 2 cut(s) 332, 364
AluBI AGCT 7 cut(s) 25, 196, 390, 546, 682, 914, 1074
AluI AGCT 7 cut(s) 25, 196, 390, 546, 682, 914, 1074
Alw21I GWGCWC 1 cut(s) 553
Alw26I GTCTC 1 cut(s) 910
AlwI GGATC 2 cut(s) 825, 838
Ama87I CYCGRG 1 cut(s) 976
AoxI GGCC 6 cut(s) 56, 99, 218, 471, 961, 1205
ApeKI GCWGC 2 cut(s) 1071, 1154
ApoI RAATTY 3 cut(s) 528, 1106, 1275
AseI ATTAAT 1 cut(s) 1038
AspS9I GGNCC 4 cut(s) 244, 303, 649, 1093
AsuHPI GGTGA 2 cut(s) 896, 1223
AvaI CYCGRG 1 cut(s) 976
AvaII GGWCC 4 cut(s) 244, 303, 649, 1093
BalI TGGCCA 1 cut(s) 1207
BamHI GGATCC 1 cut(s) 830
BarI GAAGNNNNNNTAC 2 cut(s) 618, 650
BbsI GAAGAC 1 cut(s) 1037
Bbv12I GWGCWC 1 cut(s) 553
BbvI GCAGC 2 cut(s) 1083, 1141
BccI CCATC 3 cut(s) 801, 821, 1168
BceAI ACGGC 1 cut(s) 86
BciT130I CCWGG 2 cut(s) 55, 1209
BciVI GTATCC 1 cut(s) 656
BclI TGATCA 1 cut(s) 1159
BcoDI GTCTC 1 cut(s) 910
BfaI CTAG 4 cut(s) 11, 560, 732, 917
BfmI CTRYAG 1 cut(s) 1270
BfrI CTTAAG 1 cut(s) 20
BfuI GTATCC 1 cut(s) 656
BisI GCNGC 2 cut(s) 1072, 1155
BlsI GCNGC 2 cut(s) 1073, 1156
Bme1390I CCNGG 2 cut(s) 55, 1209
Bme18I GGWCC 4 cut(s) 244, 303, 649, 1093
BmeT110I CYCGRG 1 cut(s) 976
BmgT120I GGNCC 4 cut(s) 244, 303, 649, 1093
BmiI GGNNCC 4 cut(s) 429, 651, 832, 1094
BmrFI CCNGG 2 cut(s) 55, 1209
BmrI ACTGGG 1 cut(s) 157
BmsI GCATC 1 cut(s) 1240
BmuI ACTGGG 1 cut(s) 157
BpiI GAAGAC 1 cut(s) 1037
BplI GAGNNNNNCTC 4 cut(s) 100, 132, 535, 567
BpmI CTGGAG 2 cut(s) 106, 460
BsaBI GATNNNNATC 1 cut(s) 667
BsaJI CCNNGG 4 cut(s) 268, 356, 601, 975
BsaXI ACNNNNNCTCC 2 cut(s) 104, 134
Bsc4I CCNNNNNNNGG 5 cut(s) 357, 400, 659, 803, 858
Bse118I RCCGGY 2 cut(s) 469, 851
Bse1I ACTGG 2 cut(s) 152, 477
Bse8I GATNNNNATC 1 cut(s) 667
BseBI CCWGG 2 cut(s) 55, 1209
BseDI CCNNGG 4 cut(s) 268, 356, 601, 975
BseGI GGATG 3 cut(s) 597, 812, 1255
BseJI GATNNNNATC 1 cut(s) 667
BseLI CCNNNNNNNGG 5 cut(s) 357, 400, 659, 803, 858
BseMII CTCAG 3 cut(s) 42, 189, 306
BseNI ACTGG 2 cut(s) 152, 477
BseXI GCAGC 2 cut(s) 1083, 1141
BshFI GGCC 6 cut(s) 58, 101, 220, 473, 963, 1207
BsiHKAI GWGCWC 1 cut(s) 553
BsiHKCI CYCGRG 1 cut(s) 976
BsiSI CCGG 2 cut(s) 470, 852
BslFI GGGAC 3 cut(s) 398, 635, 1106
BslI CCNNNNNNNGG 5 cut(s) 357, 400, 659, 803, 858
BsmAI GTCTC 1 cut(s) 910
BsmFI GGGAC 3 cut(s) 398, 635, 1106
BsmI GAATGC 1 cut(s) 759
BsnI GGCC 6 cut(s) 58, 101, 220, 473, 963, 1207
BsoBI CYCGRG 1 cut(s) 976
Bsp1286I GDGCHC 1 cut(s) 553
Bsp143I GATC 3 cut(s) 830, 1045, 1159
Bsp19I CCATGG 1 cut(s) 268
BspANI GGCC 6 cut(s) 58, 101, 220, 473, 963, 1207
BspCNI CTCAG 3 cut(s) 41, 188, 307
BspLI GGNNCC 4 cut(s) 429, 651, 832, 1094
BspPI GGATC 2 cut(s) 825, 838
BspTI CTTAAG 1 cut(s) 20
BsrFI RCCGGY 2 cut(s) 469, 851
BsrI ACTGG 2 cut(s) 152, 477
BssAI RCCGGY 2 cut(s) 469, 851
BssECI CCNNGG 4 cut(s) 268, 356, 601, 975
BssMI GATC 3 cut(s) 830, 1045, 1159
BssT1I CCWWGG 3 cut(s) 268, 356, 601
Bst2UI CCWGG 2 cut(s) 55, 1209
Bst4CI ACNGT 5 cut(s) 46, 244, 1058, 1121, 1271
Bst6I CTCTTC 1 cut(s) 680
BstAFI CTTAAG 1 cut(s) 20
BstC8I GCNNGC 2 cut(s) 189, 1069
BstDEI CTNAG 4 cut(s) 28, 175, 315, 764
BstDSI CCRYGG 1 cut(s) 268
BstF5I GGATG 3 cut(s) 597, 812, 1255
BstKTI GATC 3 cut(s) 833, 1048, 1162
BstMAI GTCTC 1 cut(s) 910
BstMBI GATC 3 cut(s) 830, 1045, 1159
BstMWI GCNNNNNNNGC 2 cut(s) 86, 193
BstNI CCWGG 2 cut(s) 55, 1209
BstNSI RCATGY 1 cut(s) 617
BstSCI CCNGG 2 cut(s) 53, 1207
BstSFI CTRYAG 1 cut(s) 1270
BstV1I GCAGC 2 cut(s) 1083, 1141
BstV2I GAAGAC 1 cut(s) 1037
BstX2I RGATCY 1 cut(s) 830
BstYI RGATCY 1 cut(s) 830
BsuI GTATCC 1 cut(s) 656
BsuRI GGCC 6 cut(s) 58, 101, 220, 473, 963, 1207
BtgI CCRYGG 1 cut(s) 268
BtgZI GCGATG 2 cut(s) 148, 936
BtsCI GGATG 3 cut(s) 597, 812, 1255
BtsIMutI CAGTG 1 cut(s) 1117
Cac8I GCNNGC 2 cut(s) 189, 1069
Cfr10I RCCGGY 2 cut(s) 469, 851
Cfr13I GGNCC 4 cut(s) 244, 303, 649, 1093
CviAII CATG 4 cut(s) 269, 424, 614, 1134
DdeI CTNAG 4 cut(s) 28, 175, 315, 764
DpnI GATC 3 cut(s) 832, 1047, 1161
DpnII GATC 3 cut(s) 830, 1045, 1159
EaeI YGGCCR 1 cut(s) 1205
Eam1104I CTCTTC 1 cut(s) 680
EarI CTCTTC 1 cut(s) 680
Eco130I CCWWGG 3 cut(s) 268, 356, 601
Eco147I AGGCCT 1 cut(s) 963
Eco47I GGWCC 4 cut(s) 244, 303, 649, 1093
Eco57I CTGAAG 3 cut(s) 698, 704, 1275
Eco88I CYCGRG 1 cut(s) 976
EcoO109I RGGNCCY 3 cut(s) 303, 649, 1093
EcoRII CCWGG 2 cut(s) 53, 1207
EcoT14I CCWWGG 3 cut(s) 268, 356, 601
ErhI CCWWGG 3 cut(s) 268, 356, 601
FaeI CATG 4 cut(s) 272, 427, 617, 1137
FaqI GGGAC 3 cut(s) 398, 635, 1106
FatI CATG 4 cut(s) 268, 423, 613, 1133
FbaI TGATCA 1 cut(s) 1159
FblI GTMKAC 1 cut(s) 865
Fnu4HI GCNGC 2 cut(s) 1072, 1155
FokI GGATG 3 cut(s) 584, 819, 1262
Fsp4HI GCNGC 2 cut(s) 1072, 1155
FspBI CTAG 4 cut(s) 11, 560, 732, 917
GluI GCNGC 2 cut(s) 1072, 1155
GsuI CTGGAG 2 cut(s) 106, 460
HaeIII GGCC 6 cut(s) 58, 101, 220, 473, 963, 1207
HapII CCGG 2 cut(s) 470, 852
Hin1II CATG 4 cut(s) 272, 427, 617, 1137
HincII GTYRAC 2 cut(s) 183, 565
HindII GTYRAC 2 cut(s) 183, 565
HindIII AAGCTT 1 cut(s) 194
HinfI GANTC 7 cut(s) 113, 179, 437, 485, 721, 1007, 1013
HpaI GTTAAC 1 cut(s) 565
HpaII CCGG 2 cut(s) 470, 852
HphI GGTGA 2 cut(s) 896, 1223
Hpy166II GTNNAC 4 cut(s) 183, 565, 866, 887
Hpy188I TCNGA 6 cut(s) 108, 178, 316, 484, 534, 1012
Hpy188III TCNNGA 5 cut(s) 123, 331, 843, 1043, 1220
Hpy8I GTNNAC 4 cut(s) 183, 565, 866, 887
HpyAV CCTTC 6 cut(s) 69, 257, 693, 1057, 1106, 1250
HpyCH4III ACNGT 5 cut(s) 46, 244, 1058, 1121, 1271
HpyCH4IV ACGT 1 cut(s) 1194
HpyCH4V TGCA 3 cut(s) 191, 622, 783
HpyF10VI GCNNNNNNNGC 2 cut(s) 86, 193
HpyF3I CTNAG 4 cut(s) 28, 175, 315, 764
HpySE526I ACGT 1 cut(s) 1194
Hsp92II CATG 4 cut(s) 272, 427, 617, 1137
Ksp22I TGATCA 1 cut(s) 1159
KspAI GTTAAC 1 cut(s) 565
Kzo9I GATC 3 cut(s) 830, 1045, 1159
LmnI GCTCC 1 cut(s) 543
Lsp1109I GCAGC 2 cut(s) 1083, 1141
LweI GCATC 1 cut(s) 1240
MaeI CTAG 4 cut(s) 11, 560, 732, 917
MaeII ACGT 1 cut(s) 1194
MaeIII GTNAC 3 cut(s) 110, 255, 1190
MalI GATC 3 cut(s) 832, 1047, 1161
MboI GATC 3 cut(s) 830, 1045, 1159
MboII GAAGA 5 cut(s) 601, 638, 663, 697, 1042
MflI RGATCY 1 cut(s) 830
MhlI GDGCHC 1 cut(s) 553
MlsI TGGCCA 1 cut(s) 1207
MluNI TGGCCA 1 cut(s) 1207
MlyI GAGTC 3 cut(s) 107, 188, 1016
MmeI TCCRAC 1 cut(s) 784
MnlI CCTC 7 cut(s) 372, 484, 528, 793, 953, 985, 1240
Mox20I TGGCCA 1 cut(s) 1207
MscI TGGCCA 1 cut(s) 1207
MseI TTAA 7 cut(s) 21, 41, 564, 818, 990, 1038, 1230
Msp20I TGGCCA 1 cut(s) 1207
MspA1I CMGCKG 1 cut(s) 1074
MspCI CTTAAG 1 cut(s) 20
MspI CCGG 2 cut(s) 470, 852
MspR9I CCNGG 2 cut(s) 55, 1209
Mva1269I GAATGC 1 cut(s) 759
MvaI CCWGG 2 cut(s) 55, 1209
MwoI GCNNNNNNNGC 2 cut(s) 86, 193
NcoI CCATGG 1 cut(s) 268
NdeII GATC 3 cut(s) 830, 1045, 1159
NlaIII CATG 4 cut(s) 272, 427, 617, 1137
NlaIV GGNNCC 4 cut(s) 429, 651, 832, 1094
NmuCI GTSAC 2 cut(s) 110, 1190
NspI RCATGY 1 cut(s) 617
PceI AGGCCT 1 cut(s) 963
PciI ACATGT 1 cut(s) 613
PctI GAATGC 1 cut(s) 759
PfeI GAWTC 4 cut(s) 437, 485, 721, 1013
PflMI CCANNNNNTGG 1 cut(s) 803
PkrI GCNGC 2 cut(s) 1073, 1156
PleI GAGTC 3 cut(s) 107, 187, 1015
PpsI GAGTC 3 cut(s) 107, 187, 1015
PpuMI RGGWCCY 3 cut(s) 303, 649, 1093
PscI ACATGT 1 cut(s) 613
PshBI ATTAAT 1 cut(s) 1038
PsiI TTATAA 1 cut(s) 879
Psp5II RGGWCCY 3 cut(s) 303, 649, 1093
Psp6I CCWGG 2 cut(s) 53, 1207
PspGI CCWGG 2 cut(s) 53, 1207
PspN4I GGNNCC 4 cut(s) 429, 651, 832, 1094
PspPI GGNCC 4 cut(s) 244, 303, 649, 1093
PspPPI RGGWCCY 3 cut(s) 303, 649, 1093
PsuI RGATCY 1 cut(s) 830
PvuII CAGCTG 1 cut(s) 1074
SaqAI TTAA 7 cut(s) 21, 41, 564, 818, 990, 1038, 1230
SatI GCNGC 2 cut(s) 1072, 1155
Sau3AI GATC 3 cut(s) 830, 1045, 1159
Sau96I GGNCC 4 cut(s) 244, 303, 649, 1093
SchI GAGTC 3 cut(s) 107, 188, 1016
ScrFI CCNGG 2 cut(s) 55, 1209
SduI GDGCHC 1 cut(s) 553
SfaNI GCATC 1 cut(s) 1240
SfcI CTRYAG 1 cut(s) 1270
SinI GGWCC 4 cut(s) 244, 303, 649, 1093
SmlI CTYRAG 1 cut(s) 20
SmoI CTYRAG 1 cut(s) 20
SseBI AGGCCT 1 cut(s) 963
SspMI CTAG 4 cut(s) 11, 560, 732, 917
StuI AGGCCT 1 cut(s) 963
StyD4I CCNGG 2 cut(s) 53, 1207
StyI CCWWGG 3 cut(s) 268, 356, 601
TaaI ACNGT 5 cut(s) 46, 244, 1058, 1121, 1271
TaiI ACGT 1 cut(s) 1197
TaqI TCGA 2 cut(s) 377, 1042
TfiI GAWTC 4 cut(s) 437, 485, 721, 1013
Tru1I TTAA 7 cut(s) 21, 41, 564, 818, 990, 1038, 1230
Tru9I TTAA 7 cut(s) 21, 41, 564, 818, 990, 1038, 1230
TscAI CASTG 1 cut(s) 1124
TseFI GTSAC 2 cut(s) 110, 1190
TseI GCWGC 2 cut(s) 1071, 1154
Tsp45I GTSAC 2 cut(s) 110, 1190
TspDTI ATGAA 3 cut(s) 312, 1076, 1122
TspGWI ACGGA 1 cut(s) 823
TspRI CASTG 1 cut(s) 1124
Van91I CCANNNNNTGG 1 cut(s) 803
Vha464I CTTAAG 1 cut(s) 20
VpaK11BI GGWCC 4 cut(s) 244, 303, 649, 1093
VspI ATTAAT 1 cut(s) 1038
XapI RAATTY 3 cut(s) 528, 1106, 1275
XceI RCATGY 1 cut(s) 617
XcmI CCANNNNNNNNNTGG 1 cut(s) 804
XmiI GTMKAC 1 cut(s) 865
XspI CTAG 4 cut(s) 11, 560, 732, 917
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.