Rh3CG000400

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0017316
Physical Location & Seq
Forward (+)
71940 .. 84351
12412 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG000400.1

Sequence Viewer

Length: 1248 bp
ATGAAGAATACAAGCAGGAGGAGAGTCCCCGGGATGCCATTGACTAATAATGGACGGATCAAACAGGAGACAGATCATCCTGATCAGGAAGATCTTATTCTCTTCCGGGAATTGCACAAGCGCGAAAAAGAACGCAATACTGTCACCCTCCTCCAGCCTGTTTCTGAAGAGTTTGAGCCAAATGGAAACTATCAGCTCTACAGAATTGCATCTGCCAAGAAGGGATCTGGATTTGAATTTCTTGCTGAAAACGAGAAGAATGATTATGATTGGTTAAAAACACCGCCGGCAACTCCTCTTTTTCCCTCTTTAGAAATGGACGCAAATAGCCCTGAACTCATTATTCAACGGGAAATACCAATTCTCCAACCTCTTTCACGGTTTGCAGCTGCCAATTGCAAGTCAGAGGCGGTAGATGAGCAAAGGAATGGGAGACCAAAATCTGGAAACCCAAAATCAAAACTTCCCCTGAGGTCCGTCACGCCTAGTGCTCAAAGACGGAGCACATTAATATCGAATTCAACAAATCAAACAAAAATTACCAAAGTTGCTGCAGCAACTAGAACGGATGTACCAATTTTGAACCAGCAGAAAGTAATCAAATCGACCGCTGATCATAATGACATGATCATCACACGGAAAACAAAGCCTACAACGACAAGTAGAAGTGGTGTTGTGTCCCCACTTCCTCTTGTGAGATCAGCAAATAACATTCCAGCTGGCTTTTCTAACGAGAAACCGCCTAATCTGAGGACAGAGCAACGCTCAATATCCGCTACACGGGATCGATCAGCTCGGGCCAAATCAGCTGCAGCACCTGTAAGTACTCACCTGCAGAGATCAGCATGCACAGTTGAACCAAGGAGGCCACAATCATGCTCATCAATAGCAAGCATCTCTAGGGATCGGAAAGTAATCAGTAGTAATGTTGAAGGGAGCGTGCAGCCGGATATCAAGTACTGTACTGTCAGTGAAGGCGATTTGATCAATACCAGTAGTCCAAACGGAATAAGAAGTAATCAAACAGGAAACGGGGGGCAAATTTTGGGGAGTAGGATGGTCCAGAGAGTGATGAGTGCAAGATCAAAAGCAGCTACTCTTGAAGAGAAAAATAAGAGACCAAATTCTCGGTTTCCGCTTAATGAAACCTCTGGATTTGGTAGAATGATTCCCAAGAATTCAATGGATACAACTCTCAAGCATATGGCGGTGGCGCCAAAGATAAAACGGGATGGAGTTGATTACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00562 map00562
Pfam Domains
Protein Families
No domains found.

Protein Analysis

415

Amino Acids

45.95

Weight (kDa)

10.14

Isoelectric Point (pI)

59.39

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0017316)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g00040
prunus_persica Prupe.6G365700_v2.0.a1
pyrus_communis pycom12g24270
rosa_laevigata RLG00000026006
rosa_multiflora Rmu_ssc0000473.1_g000006
rosa_roxburghii Rroxscaffold_6G00425540
rosa_rugosa Rorug02G0600400 Rorug02G0600500
rosa_samantha Rh3AG000600 Rh3BG000400 Rh3CG000400 Rh3DG000600
rosa_wichuraiana Rw3G000040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 840
Acc36I ACCTGC 1 cut(s) 840
AccB1I GGYRCC 1 cut(s) 1213
AccB7I CCANNNNNTGG 1 cut(s) 443
AccII CGCG 1 cut(s) 123
AciI CCGC 7 cut(s) 284, 410, 609, 740, 774, 1136, 1208
AclWI GGATC 4 cut(s) 65, 232, 792, 912
AcsI RAATTY 5 cut(s) 236, 517, 1041, 1123, 1177
AcuI CTGAAG 1 cut(s) 186
AcyI GRCGYC 1 cut(s) 1214
AfaI GTAC 4 cut(s) 573, 826, 959, 964
AfiI CCNNNNNNNGG 2 cut(s) 443, 780
AgsI TTSAA 8 cut(s) 236, 347, 522, 583, 857, 932, 1103, 1182
AluBI AGCT 6 cut(s) 196, 389, 719, 794, 809, 1094
AluI AGCT 6 cut(s) 196, 389, 719, 794, 809, 1094
Alw21I GWGCWC 2 cut(s) 493, 506
Alw26I GTCTC 3 cut(s) 62, 427, 1111
AlwI GGATC 4 cut(s) 65, 232, 792, 912
AlwNI CAGNNNCTG 1 cut(s) 818
Ama87I CYCGRG 2 cut(s) 29, 795
AoxI GGCC 2 cut(s) 798, 866
ApeKI GCWGC 8 cut(s) 386, 389, 551, 554, 809, 812, 943, 1091
ApoI RAATTY 5 cut(s) 236, 517, 1041, 1123, 1177
AseI ATTAAT 1 cut(s) 509
AspLEI GCGC 2 cut(s) 123, 1216
AspS9I GGNCC 3 cut(s) 474, 798, 1060
AsuC2I CCSGG 3 cut(s) 30, 31, 107
AsuHPI GGTGA 2 cut(s) 136, 821
AvaI CYCGRG 2 cut(s) 29, 795
AvaII GGWCC 2 cut(s) 474, 1060
AxyI CCTNAGG 1 cut(s) 470
BaeI ACNNNNGTAYC 2 cut(s) 555, 588
BanI GGYRCC 1 cut(s) 1213
Bbv12I GWGCWC 2 cut(s) 493, 506
BbvI GCAGC 8 cut(s) 376, 398, 538, 566, 796, 824, 955, 1103
BccI CCATC 2 cut(s) 1051, 1226
BciVI GTATCC 1 cut(s) 1180
BclI TGATCA 4 cut(s) 82, 613, 627, 984
BcnI CCSGG 3 cut(s) 30, 31, 107
BcoDI GTCTC 3 cut(s) 62, 427, 1111
BfaI CTAG 3 cut(s) 486, 561, 900
BfmI CTRYAG 4 cut(s) 199, 552, 810, 833
BfoI RGCGCY 1 cut(s) 1217
BfuAI ACCTGC 1 cut(s) 840
BfuI GTATCC 1 cut(s) 1180
BglII AGATCT 1 cut(s) 91
BisI GCNGC 8 cut(s) 387, 390, 552, 555, 810, 813, 944, 1092
BlsI GCNGC 8 cut(s) 388, 391, 553, 556, 811, 814, 945, 1093
BmcAI AGTACT 2 cut(s) 826, 959
Bme1390I CCNGG 3 cut(s) 30, 31, 107
Bme18I GGWCC 2 cut(s) 474, 1060
BmeT110I CYCGRG 2 cut(s) 29, 795
BmgT120I GGNCC 3 cut(s) 474, 798, 1060
BmiI GGNNCC 1 cut(s) 1215
BmrFI CCNGG 3 cut(s) 30, 31, 107
BmsI GCATC 3 cut(s) 24, 218, 903
BplI GAGNNNNNCTC 2 cut(s) 749, 781
BpmI CTGGAG 1 cut(s) 137
BpuEI CTTGAG 1 cut(s) 1181
BpuMI CCSGG 3 cut(s) 30, 31, 107
Bsa29I ATCGAT 1 cut(s) 787
BsaHI GRCGYC 1 cut(s) 1214
BsaI GGTCTC 2 cut(s) 427, 1111
BsaJI CCNNGG 3 cut(s) 28, 29, 860
BsaXI ACNNNNNCTCC 2 cut(s) 348, 378
Bsc4I CCNNNNNNNGG 2 cut(s) 443, 780
Bse118I RCCGGY 1 cut(s) 286
Bse1I ACTGG 1 cut(s) 993
Bse21I CCTNAGG 1 cut(s) 470
BseCI ATCGAT 1 cut(s) 787
BseDI CCNNGG 3 cut(s) 28, 29, 860
BseGI GGATG 5 cut(s) 39, 76, 574, 1062, 1237
BseLI CCNNNNNNNGG 2 cut(s) 443, 780
BseMII CTCAG 2 cut(s) 461, 740
BseNI ACTGG 1 cut(s) 993
BseRI GAGGAG 3 cut(s) 34, 140, 285
BseXI GCAGC 8 cut(s) 376, 398, 538, 566, 796, 824, 955, 1103
BsgI GTGCAG 1 cut(s) 962
Bsh1236I CGCG 1 cut(s) 123
Bsh1285I CGRYCG 1 cut(s) 609
BshFI GGCC 2 cut(s) 800, 868
BshNI GGYRCC 1 cut(s) 1213
BshVI ATCGAT 1 cut(s) 787
BsiEI CGRYCG 1 cut(s) 609
BsiHKAI GWGCWC 2 cut(s) 493, 506
BsiHKCI CYCGRG 2 cut(s) 29, 795
BsiSI CCGG 4 cut(s) 30, 106, 287, 947
BslFI GGGAC 2 cut(s) 11, 664
BslI CCNNNNNNNGG 2 cut(s) 443, 780
BsmAI GTCTC 3 cut(s) 62, 427, 1111
BsmFI GGGAC 2 cut(s) 11, 664
BsnI GGCC 2 cut(s) 800, 868
Bso31I GGTCTC 2 cut(s) 427, 1111
BsoBI CYCGRG 2 cut(s) 29, 795
Bsp1286I GDGCHC 2 cut(s) 493, 506
BspACI CCGC 7 cut(s) 284, 410, 609, 740, 774, 1136, 1208
BspANI GGCC 2 cut(s) 800, 868
BspCNI CTCAG 2 cut(s) 462, 741
BspDI ATCGAT 1 cut(s) 787
BspFNI CGCG 1 cut(s) 123
BspLI GGNNCC 1 cut(s) 1215
BspMAI CTGCAG 3 cut(s) 556, 814, 837
BspMI ACCTGC 1 cut(s) 840
BspPI GGATC 4 cut(s) 65, 232, 792, 912
BspT107I GGYRCC 1 cut(s) 1213
BspTNI GGTCTC 2 cut(s) 427, 1111
BsrFI RCCGGY 1 cut(s) 286
BsrI ACTGG 1 cut(s) 993
BssAI RCCGGY 1 cut(s) 286
BssECI CCNNGG 3 cut(s) 28, 29, 860
BssNI GRCGYC 1 cut(s) 1214
BssT1I CCWWGG 1 cut(s) 860
Bst4CI ACNGT 5 cut(s) 142, 381, 853, 962, 967
Bst6I CTCTTC 3 cut(s) 107, 162, 1098
BstACI GRCGYC 1 cut(s) 1214
BstC8I GCNNGC 5 cut(s) 288, 721, 847, 892, 941
BstDEI CTNAG 2 cut(s) 470, 749
BstF5I GGATG 5 cut(s) 39, 76, 574, 1062, 1237
BstFNI CGCG 1 cut(s) 123
BstH2I RGCGCY 1 cut(s) 1217
BstHHI GCGC 2 cut(s) 123, 1216
BstMAI GTCTC 3 cut(s) 62, 427, 1111
BstMCI CGRYCG 1 cut(s) 609
BstMWI GCNNNNNNNGC 1 cut(s) 806
BstNSI RCATGY 1 cut(s) 849
BstSCI CCNGG 3 cut(s) 28, 29, 105
BstSFI CTRYAG 4 cut(s) 199, 552, 810, 833
BstUI CGCG 1 cut(s) 123
BstV1I GCAGC 8 cut(s) 376, 398, 538, 566, 796, 824, 955, 1103
BstX2I RGATCY 2 cut(s) 91, 224
BstYI RGATCY 2 cut(s) 91, 224
Bsu15I ATCGAT 1 cut(s) 787
Bsu36I CCTNAGG 1 cut(s) 470
BsuI GTATCC 1 cut(s) 1180
BsuRI GGCC 2 cut(s) 800, 868
BsuTUI ATCGAT 1 cut(s) 787
BtsCI GGATG 5 cut(s) 39, 76, 574, 1062, 1237
BtsIMutI CAGTG 1 cut(s) 976
BveI ACCTGC 1 cut(s) 840
Cac8I GCNNGC 5 cut(s) 288, 721, 847, 892, 941
CaiI CAGNNNCTG 1 cut(s) 818
CfoI GCGC 2 cut(s) 123, 1216
Cfr10I RCCGGY 1 cut(s) 286
Cfr13I GGNCC 3 cut(s) 474, 798, 1060
Cfr9I CCCGGG 1 cut(s) 29
ClaI ATCGAT 1 cut(s) 787
CseI GACGC 1 cut(s) 329
Csp6I GTAC 4 cut(s) 572, 825, 958, 963
CviAII CATG 3 cut(s) 625, 846, 876
CviQI GTAC 4 cut(s) 572, 825, 958, 963
DdeI CTNAG 2 cut(s) 470, 749
DinI GGCGCC 1 cut(s) 1215
Eam1104I CTCTTC 3 cut(s) 107, 162, 1098
EarI CTCTTC 3 cut(s) 107, 162, 1098
Eco130I CCWWGG 1 cut(s) 860
Eco31I GGTCTC 2 cut(s) 427, 1111
Eco32I GATATC 1 cut(s) 952
Eco47I GGWCC 2 cut(s) 474, 1060
Eco57I CTGAAG 1 cut(s) 186
Eco81I CCTNAGG 1 cut(s) 470
Eco88I CYCGRG 2 cut(s) 29, 795
EcoRI GAATTC 2 cut(s) 517, 1177
EcoRV GATATC 1 cut(s) 952
EcoT14I CCWWGG 1 cut(s) 860
EgeI GGCGCC 1 cut(s) 1215
EheI GGCGCC 1 cut(s) 1215
ErhI CCWWGG 1 cut(s) 860
FaeI CATG 3 cut(s) 628, 849, 879
FaiI YATR 7 cut(s) 267, 618, 626, 847, 877, 1203, 1205
FaqI GGGAC 2 cut(s) 11, 664
FatI CATG 3 cut(s) 624, 845, 875
FauNDI CATATG 1 cut(s) 1203
FbaI TGATCA 4 cut(s) 82, 613, 627, 984
Fnu4HI GCNGC 8 cut(s) 387, 390, 552, 555, 810, 813, 944, 1092
FokI GGATG 5 cut(s) 46, 63, 581, 1069, 1244
Fsp4HI GCNGC 8 cut(s) 387, 390, 552, 555, 810, 813, 944, 1092
FspBI CTAG 3 cut(s) 486, 561, 900
GlaI GCGC 2 cut(s) 122, 1215
GluI GCNGC 8 cut(s) 387, 390, 552, 555, 810, 813, 944, 1092
GsuI CTGGAG 1 cut(s) 137
HaeII RGCGCY 1 cut(s) 1217
HaeIII GGCC 2 cut(s) 800, 868
HapII CCGG 4 cut(s) 30, 106, 287, 947
HgaI GACGC 1 cut(s) 329
HhaI GCGC 2 cut(s) 123, 1216
Hin1I GRCGYC 1 cut(s) 1214
Hin1II CATG 3 cut(s) 628, 849, 879
Hin6I GCGC 2 cut(s) 121, 1214
HinP1I GCGC 2 cut(s) 121, 1214
HinfI GANTC 2 cut(s) 24, 1168
HpaII CCGG 4 cut(s) 30, 106, 287, 947
HphI GGTGA 2 cut(s) 136, 821
Hpy188I TCNGA 4 cut(s) 166, 406, 750, 909
Hpy188III TCNNGA 7 cut(s) 80, 86, 228, 444, 1063, 1100, 1152
HpyAV CCTTC 3 cut(s) 214, 926, 968
HpyCH4III ACNGT 5 cut(s) 142, 381, 853, 962, 967
HpyF10VI GCNNNNNNNGC 1 cut(s) 806
HpyF3I CTNAG 2 cut(s) 470, 749
Hsp92I GRCGYC 1 cut(s) 1214
Hsp92II CATG 3 cut(s) 628, 849, 879
HspAI GCGC 2 cut(s) 121, 1214
KasI GGCGCC 1 cut(s) 1213
KroI GCCGGC 1 cut(s) 286
KroNI GCCGGC 1 cut(s) 288
Ksp22I TGATCA 4 cut(s) 82, 613, 627, 984
LmnI GCTCC 2 cut(s) 501, 936
Lsp1109I GCAGC 8 cut(s) 376, 398, 538, 566, 796, 824, 955, 1103
LweI GCATC 3 cut(s) 24, 218, 903
MaeI CTAG 3 cut(s) 486, 561, 900
MaeIII GTNAC 2 cut(s) 142, 478
MboII GAAGA 6 cut(s) 16, 94, 101, 179, 268, 1115
MfeI CAATTG 1 cut(s) 394
MflI RGATCY 2 cut(s) 91, 224
MhlI GDGCHC 2 cut(s) 493, 506
Mly113I GGCGCC 1 cut(s) 1214
MlyI GAGTC 1 cut(s) 33
MmeI TCCRAC 1 cut(s) 391
MroNI GCCGGC 1 cut(s) 286
MseI TTAA 3 cut(s) 275, 509, 1140
MslI CAYNNNNRTG 1 cut(s) 874
MspA1I CMGCKG 4 cut(s) 389, 611, 719, 809
MspI CCGG 4 cut(s) 30, 106, 287, 947
MspR9I CCNGG 3 cut(s) 30, 31, 107
MunI CAATTG 1 cut(s) 394
MvnI CGCG 1 cut(s) 123
MwoI GCNNNNNNNGC 1 cut(s) 806
NaeI GCCGGC 1 cut(s) 288
NarI GGCGCC 1 cut(s) 1214
NciI CCSGG 3 cut(s) 30, 31, 107
NdeI CATATG 1 cut(s) 1203
NgoMIV GCCGGC 1 cut(s) 286
NlaIII CATG 3 cut(s) 628, 849, 879
NlaIV GGNNCC 1 cut(s) 1215
NmuCI GTSAC 2 cut(s) 142, 478
NspI RCATGY 1 cut(s) 849
PaeI GCATGC 1 cut(s) 849
PaqCI CACCTGC 1 cut(s) 840
PdiI GCCGGC 1 cut(s) 288
PfeI GAWTC 1 cut(s) 1168
PflMI CCANNNNNTGG 1 cut(s) 443
PfoI TCCNGGA 1 cut(s) 105
PkrI GCNGC 8 cut(s) 388, 391, 553, 556, 811, 814, 945, 1093
PleI GAGTC 1 cut(s) 32
PluTI GGCGCC 1 cut(s) 1217
PpsI GAGTC 1 cut(s) 32
PshBI ATTAAT 1 cut(s) 509
PspN4I GGNNCC 1 cut(s) 1215
PspPI GGNCC 3 cut(s) 474, 798, 1060
PstI CTGCAG 3 cut(s) 556, 814, 837
PstNI CAGNNNCTG 1 cut(s) 818
PsuI RGATCY 2 cut(s) 91, 224
PvuII CAGCTG 3 cut(s) 389, 719, 809
RsaI GTAC 4 cut(s) 573, 826, 959, 964
RsaNI GTAC 4 cut(s) 572, 825, 958, 963
RseI CAYNNNNRTG 1 cut(s) 874
SaqAI TTAA 3 cut(s) 275, 509, 1140
SatI GCNGC 8 cut(s) 387, 390, 552, 555, 810, 813, 944, 1092
Sau96I GGNCC 3 cut(s) 474, 798, 1060
ScaI AGTACT 2 cut(s) 826, 959
SchI GAGTC 1 cut(s) 33
ScrFI CCNGG 3 cut(s) 30, 31, 107
SduI GDGCHC 2 cut(s) 493, 506
SfaNI GCATC 3 cut(s) 24, 218, 903
SfcI CTRYAG 4 cut(s) 199, 552, 810, 833
SfoI GGCGCC 1 cut(s) 1215
SinI GGWCC 2 cut(s) 474, 1060
SmaI CCCGGG 1 cut(s) 31
SmiMI CAYNNNNRTG 1 cut(s) 874
SmlI CTYRAG 1 cut(s) 1196
SmoI CTYRAG 1 cut(s) 1196
SphI GCATGC 1 cut(s) 849
SsiI CCGC 7 cut(s) 284, 410, 609, 740, 774, 1136, 1208
SspDI GGCGCC 1 cut(s) 1213
SspMI CTAG 3 cut(s) 486, 561, 900
StyD4I CCNGG 3 cut(s) 28, 29, 105
StyI CCWWGG 1 cut(s) 860
TaaI ACNGT 5 cut(s) 142, 381, 853, 962, 967
TaqI TCGA 3 cut(s) 515, 605, 787
TatI WGTACW 3 cut(s) 824, 957, 962
TfiI GAWTC 1 cut(s) 1168
Tru1I TTAA 3 cut(s) 275, 509, 1140
Tru9I TTAA 3 cut(s) 275, 509, 1140
TscAI CASTG 1 cut(s) 976
TseFI GTSAC 2 cut(s) 142, 478
TseI GCWGC 8 cut(s) 386, 389, 551, 554, 809, 812, 943, 1091
Tsp45I GTSAC 2 cut(s) 142, 478
TspDTI ATGAA 2 cut(s) 17, 1158
TspGWI ACGGA 6 cut(s) 70, 466, 514, 581, 652, 1020
TspMI CCCGGG 1 cut(s) 29
TspRI CASTG 1 cut(s) 976
Van91I CCANNNNNTGG 1 cut(s) 443
VpaK11BI GGWCC 2 cut(s) 474, 1060
VspI ATTAAT 1 cut(s) 509
XapI RAATTY 5 cut(s) 236, 517, 1041, 1123, 1177
XceI RCATGY 1 cut(s) 849
XcmI CCANNNNNNNNNTGG 1 cut(s) 1180
XmaI CCCGGG 1 cut(s) 29
XspI CTAG 3 cut(s) 486, 561, 900
ZrmI AGTACT 2 cut(s) 826, 959
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.