Rroxscaffold_4G00317860

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000269
Physical Location & Seq
Forward (+)
43416638 .. 43422211
5574 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00317860.1

Sequence Viewer

Length: 1314 bp
ATGGAGGCCCTCGAAAGAGTACTCGAATTGCCGCCTCTAAAGCATCGGCTTCGAGAACGGTCTCTCGAGGGTCTTGAACCAAAATTCTCCAATTTTGGAGTCCGCAAAGAAAGCTTCGTTAACGGCACGAAGCGGTGGTTGAGAGAAGGCACCGGAGGATTTAGAGTTGTCGCCTCACTCGCCGAAGCCAAAGAGGTGAAGGATCGAATGAAGCTCATCATGAAGAAGAAAGCCTCCGGTCGTTCCATGAGCTTTTTGAACTACTCGAACATTCAACACAAACAAATGAATCCCCCAAAACTAAACCATGATTTGAGATATCTCAAAAATGGAAAGAGCTTCCACCGAAGAGAAGGAACAAATGTCGGGAAGGAAAATTCACCACTCTATGTTGCATGTCCTTATGGACTCGTAGACCCCAATGCATGTACTATAACTATGCACGGAAAGAAGATTGAAATTGATGCAAGTGACTTTGAAAATGTGATGGGGTTGAAGAATGCGGGGTCCGAGGTCGACTTTAAAGGTTCCACTAATGATCACCCCGAGTTGATGGCGATAATAAACTCCTTGTGTGGGAAGGATAAGAAGATCGGTTTAAGGGACGTGCGTAACTACCCGAAGGATACGAAGAAGTTGACAACAAACCATTGTGGACAAGTCCTTGTACCCGTTGAAGCTTGGGGGGACCATGAAACGGGCAAACCGCTCAAATGGGTGAACAAGCAAGGTGGTTTGCTGGATGAAAATGTTCTTGTGGCAAAGGTTGGCGATCATGTTGTGCATTTGTTGCACCTTGTAATAAGACATGAGTGGGTTTTAATAAAGTTACTTTTCAATGTGTTACGGGTACATGGGGAAGACTTGCAACCAAAAAGGAAGACCTCCTTGATTTGCCTATCCGACTCAACATCCGTAGTCGACCCACCGAAAAGTATGAAGAAAGTTGATGCCAACCCCACGACCAAGAGTAACATAGAGAAGATTGGTAACTTCAAAGTCAAGGGAGATCGGGAGGAGGCCGACAAAGGAGTGCTCGAGTTGCAAACACCGGACATTATCTACCACCATGTGGAGTTCAAAGTCAAGAATGTTGTGAAGAAGTTTGCTGACTTCCGGTTATTCGAGCCGTTGAATGCCCTAAACAAGAGGGCGGTTCGACCGTGGGGTGTATGTGATCAAACACATGCGGTGTTATGGATCCGAGTGGTGGCATCGGACCTTGTGCTAGTTAGGAAAGTGGTTGGGCTTGATGAGACGAAGCGGAGCGACATGGCCCCGACACCATTGGCGGTGGTGGCGGCTCTACCATAA
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
HMG_box

Protein Analysis

437

Amino Acids

49.22

Weight (kDa)

9.53

Isoelectric Point (pI)

31.63

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: OG0000269)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29141 FvH4_1g29142 FvH4_2g04882 FvH4_2g04883 FvH4_2g07612 FvH4_3g26550 FvH4_3g26551 FvH4_3g31781 FvH4_3g31810 FvH4_3g31812 FvH4_4g08580 FvH4_4g08581 FvH4_4g08649 FvH4_4g08910 FvH4_4g10124 FvH4_4g10125 FvH4_4g28760 FvH4_5g16042 FvH4_5g24070 FvH4_5g30680 FvH4_5g37871 FvH4_5g37872 FvH4_7g03531 FvH4_7g12891 FvH4_7g12892 FvH4_7g12893
rosa_chinensis RchiOBHm_Chr7g0204351
rosa_laevigata RLG00000001882 RLG00000002339 RLG00000004189 RLG00000009211 RLG00000009212 RLG00000013650 RLG00000019919 RLG00000019920 RLG00000019921 RLG00000020177 RLG00000020178 RLG00000023368 RLG00000028208 RLG00000029086 RLG00000029688 RLG00000032551 RLG00000034335 RLG00000034807
rosa_multiflora Rmu_sc0000308.1_g000017 Rmu_sc0000308.1_g000018 Rmu_sc0003422.1_g000004 Rmu_sc0003776.1_g000026 Rmu_sc0005399.1_g000010 Rmu_sc0005399.1_g000012 Rmu_sc0009924.1_g000004
rosa_roxburghii Rroxscaffold_1G00053720 Rroxscaffold_1G00053730 Rroxscaffold_1G00054020 Rroxscaffold_2G00133470 Rroxscaffold_2G00133480 Rroxscaffold_3G00229920 Rroxscaffold_3G00229930 Rroxscaffold_3G00229940 Rroxscaffold_3G00245890 Rroxscaffold_3G00245900 Rroxscaffold_4G00317860 Rroxscaffold_5G00346620 Rroxscaffold_6G00396640 Rroxscaffold_6G00396930 Rroxscaffold_6G00396940 Rroxscaffold_6G00401510 Rroxscaffold_7G00201920 Rroxscaffold_7G00201930 Rroxscaffold_7G00201940
rosa_rugosa Rorug01G0116700 Rorug01G0116700 Rorug04G0072900 Rorug04G0073000 Rorug04G0112000 Rorug07G0258800
rosa_samantha Rh1AG123800 Rh1AG297000 Rh1DG057400 Rh1DG057500 Rh1DG129000 Rh2BG298000 Rh2BG471200 Rh2BG471300 Rh2BG471400 Rh2BG621400 Rh3CG245500 Rh3CG245600 Rh4DG157200 Rh4DG157300 Rh4DG157400 Rh4DG157500 Rh4DG157600 Rh4DG157700 Rh5DG402200 Rh6AG050900 Rh6AG051000 Rh6AG088400 Rh6AG088500 Rh6AG088600 Rh6AG088700 Rh6AG139800 Rh6AG139900 Rh6AG140000 Rh6CG077200 Rh6CG077300 Rh6CG077400 Rh6CG077500 Rh7CG225300 Rh7CG225400 Rh7CG225500 Rh7CG225600 Rh7CG267500 Rh7CG267600 Rh7CG267800 Rh7CG267900 Rh7CG338700 Rh7CG338800 Rh7CG338900 Rh7CG430900 Rh7CG431000 Rh7CG431100 Rh7DG219700 Rh7DG219800 Rh7DG219900 Rh7DG220000 Rh7DG257600 Rh7DG271500 Rh7DG367700 Rh7DG408600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 149
AccB7I CCANNNNNTGG 1 cut(s) 1072
AccBSI CCGCTC 1 cut(s) 709
AccI GTMKAC 3 cut(s) 414, 516, 921
AclWI GGATC 3 cut(s) 210, 1195, 1208
AcsI RAATTY 2 cut(s) 83, 376
AdeI CACNNNGTG 1 cut(s) 1072
AfaI GTAC 4 cut(s) 21, 430, 669, 852
AfiI CCNNNNNNNGG 4 cut(s) 576, 697, 1072, 1210
AjiI CACGTC 1 cut(s) 607
AluBI AGCT 5 cut(s) 114, 214, 252, 339, 680
AluI AGCT 5 cut(s) 114, 214, 252, 339, 680
Alw21I GWGCWC 1 cut(s) 1038
Alw26I GTCTC 2 cut(s) 66, 1250
AlwI GGATC 3 cut(s) 210, 1195, 1208
Ama87I CYCGRG 3 cut(s) 65, 545, 1037
AoxI GGCC 3 cut(s) 6, 1020, 1275
ApoI RAATTY 2 cut(s) 83, 376
Asp700I GAANNNNTTC 1 cut(s) 750
AspS9I GGNCC 5 cut(s) 7, 507, 688, 1219, 1276
AsuHPI GGTGA 4 cut(s) 208, 372, 533, 730
AvaI CYCGRG 3 cut(s) 65, 545, 1037
AvaII GGWCC 3 cut(s) 507, 688, 1219
BamHI GGATCC 1 cut(s) 1200
BanI GGYRCC 1 cut(s) 149
BbsI GAAGAC 2 cut(s) 867, 887
Bbv12I GWGCWC 1 cut(s) 1038
BccI CCATC 2 cut(s) 481, 547
BceAI ACGGC 2 cut(s) 139, 1114
BcgI CGANNNNNNTGC 2 cut(s) 32, 66
BciVI GTATCC 1 cut(s) 619
BclI TGATCA 2 cut(s) 538, 1177
BcoDI GTCTC 2 cut(s) 66, 1250
BfaI CTAG 1 cut(s) 1229
BfuI GTATCC 1 cut(s) 619
BisI GCNGC 2 cut(s) 32, 1302
BlsI GCNGC 2 cut(s) 33, 1303
BmcAI AGTACT 1 cut(s) 21
Bme18I GGWCC 3 cut(s) 507, 688, 1219
BmeT110I CYCGRG 3 cut(s) 65, 545, 1037
BmgBI CACGTC 1 cut(s) 607
BmgT120I GGNCC 5 cut(s) 7, 507, 688, 1219, 1276
BmiI GGNNCC 6 cut(s) 151, 508, 529, 689, 1202, 1278
BmsI GCATC 4 cut(s) 52, 454, 940, 1223
BpiI GAAGAC 2 cut(s) 867, 887
BsaI GGTCTC 1 cut(s) 66
BsaJI CCNNGG 2 cut(s) 510, 1163
BsaWI WCCGGW 4 cut(s) 152, 236, 1051, 1116
Bsc4I CCNNNNNNNGG 4 cut(s) 576, 697, 1072, 1210
BseDI CCNNGG 2 cut(s) 510, 1163
BseGI GGATG 2 cut(s) 748, 911
BseLI CCNNNNNNNGG 4 cut(s) 576, 697, 1072, 1210
BseRI GAGGAG 1 cut(s) 1031
Bsh1285I CGRYCG 2 cut(s) 241, 1163
BshFI GGCC 3 cut(s) 8, 1022, 1277
BshNI GGYRCC 1 cut(s) 149
BsiEI CGRYCG 2 cut(s) 241, 1163
BsiHKAI GWGCWC 1 cut(s) 1038
BsiHKCI CYCGRG 3 cut(s) 65, 545, 1037
BsiSI CCGG 4 cut(s) 153, 237, 1052, 1117
BslFI GGGAC 2 cut(s) 617, 701
BslI CCNNNNNNNGG 4 cut(s) 576, 697, 1072, 1210
BsmAI GTCTC 2 cut(s) 66, 1250
BsmBI CGTCTC 1 cut(s) 1250
BsmFI GGGAC 2 cut(s) 617, 701
BsmI GAATGC 2 cut(s) 505, 1141
BsnI GGCC 3 cut(s) 8, 1022, 1277
Bso31I GGTCTC 1 cut(s) 66
BsoBI CYCGRG 3 cut(s) 65, 545, 1037
Bsp1286I GDGCHC 1 cut(s) 1038
Bsp143I GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
BspANI GGCC 3 cut(s) 8, 1022, 1277
BspHI TCATGA 1 cut(s) 219
BspLI GGNNCC 6 cut(s) 151, 508, 529, 689, 1202, 1278
BspPI GGATC 3 cut(s) 210, 1195, 1208
BspT107I GGYRCC 1 cut(s) 149
BspTNI GGTCTC 1 cut(s) 66
BsrBI CCGCTC 1 cut(s) 709
BssECI CCNNGG 2 cut(s) 510, 1163
BssMI GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
Bst4CI ACNGT 2 cut(s) 60, 1164
Bst6I CTCTTC 1 cut(s) 343
BstAPI GCANNNNNTGC 1 cut(s) 790
BstDSI CCRYGG 1 cut(s) 1163
BstF5I GGATG 2 cut(s) 748, 911
BstKTI GATC 7 cut(s) 205, 541, 594, 775, 1012, 1180, 1203
BstMAI GTCTC 2 cut(s) 66, 1250
BstMBI GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
BstMCI CGRYCG 2 cut(s) 241, 1163
BstMWI GCNNNNNNNGC 6 cut(s) 40, 111, 179, 790, 1042, 1298
BstNSI RCATGY 3 cut(s) 399, 429, 1190
BstV2I GAAGAC 2 cut(s) 867, 887
BstX2I RGATCY 1 cut(s) 1200
BstYI RGATCY 1 cut(s) 1200
BsuI GTATCC 1 cut(s) 619
BsuRI GGCC 3 cut(s) 8, 1022, 1277
BtgI CCRYGG 1 cut(s) 1163
BtrI CACGTC 1 cut(s) 607
BtsCI GGATG 2 cut(s) 748, 911
CciI TCATGA 1 cut(s) 219
Cfr13I GGNCC 5 cut(s) 7, 507, 688, 1219, 1276
Csp6I GTAC 4 cut(s) 20, 429, 668, 851
CspCI CAANNNNNGTGG 2 cut(s) 712, 747
CviQI GTAC 4 cut(s) 20, 429, 668, 851
DpnI GATC 7 cut(s) 204, 540, 593, 774, 1011, 1179, 1202
DpnII GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
DraI TTTAAA 1 cut(s) 523
DraIII CACNNNGTG 1 cut(s) 1072
Eam1104I CTCTTC 1 cut(s) 343
EarI CTCTTC 1 cut(s) 343
Eco31I GGTCTC 1 cut(s) 66
Eco32I GATATC 1 cut(s) 320
Eco47I GGWCC 3 cut(s) 507, 688, 1219
Eco88I CYCGRG 3 cut(s) 65, 545, 1037
EcoO109I RGGNCCY 1 cut(s) 7
EcoRV GATATC 1 cut(s) 320
EcoT22I ATGCAT 1 cut(s) 427
Esp3I CGTCTC 1 cut(s) 1250
FalI AAGNNNNNCTT 2 cut(s) 872, 904
FaqI GGGAC 2 cut(s) 617, 701
FauI CCCGC 1 cut(s) 496
FbaI TGATCA 2 cut(s) 538, 1177
FblI GTMKAC 3 cut(s) 414, 516, 921
Fnu4HI GCNGC 2 cut(s) 32, 1302
FokI GGATG 2 cut(s) 755, 898
Fsp4HI GCNGC 2 cut(s) 32, 1302
FspBI CTAG 1 cut(s) 1229
GluI GCNGC 2 cut(s) 32, 1302
HaeIII GGCC 3 cut(s) 8, 1022, 1277
HapII CCGG 4 cut(s) 153, 237, 1052, 1117
HincII GTYRAC 4 cut(s) 121, 517, 639, 922
HindII GTYRAC 4 cut(s) 121, 517, 639, 922
HindIII AAGCTT 2 cut(s) 112, 678
HinfI GANTC 4 cut(s) 99, 289, 408, 905
HpaI GTTAAC 1 cut(s) 121
HpaII CCGG 4 cut(s) 153, 237, 1052, 1117
HphI GGTGA 4 cut(s) 208, 372, 533, 730
Hpy166II GTNNAC 7 cut(s) 121, 415, 517, 639, 656, 721, 922
Hpy188I TCNGA 4 cut(s) 511, 904, 1205, 1219
Hpy188III TCNNGA 7 cut(s) 53, 65, 74, 220, 367, 1013, 1087
Hpy8I GTNNAC 7 cut(s) 121, 415, 517, 639, 656, 721, 922
HpyAV CCTTC 6 cut(s) 140, 193, 347, 364, 574, 616
HpyCH4III ACNGT 2 cut(s) 60, 1164
HpyCH4IV ACGT 1 cut(s) 606
HpyCH4V TGCA 8 cut(s) 395, 425, 442, 467, 784, 793, 868, 1045
HpyF10VI GCNNNNNNNGC 6 cut(s) 40, 111, 179, 790, 1042, 1298
HpySE526I ACGT 1 cut(s) 606
Ksp22I TGATCA 2 cut(s) 538, 1177
KspAI GTTAAC 1 cut(s) 121
Kzo9I GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
LmnI GCTCC 1 cut(s) 1266
LpnPI CCDG 5 cut(s) 166, 250, 725, 1065, 1130
LweI GCATC 4 cut(s) 52, 454, 940, 1223
MaeI CTAG 1 cut(s) 1229
MaeII ACGT 1 cut(s) 606
MaeIII GTNAC 6 cut(s) 470, 611, 828, 843, 971, 989
MalI GATC 7 cut(s) 204, 540, 593, 774, 1011, 1179, 1202
MbiI CCGCTC 1 cut(s) 709
MboI GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
MflI RGATCY 1 cut(s) 1200
MhlI GDGCHC 1 cut(s) 1038
MluCI AATT 5 cut(s) 26, 83, 91, 376, 459
MlyI GAGTC 3 cut(s) 108, 402, 899
MmeI TCCRAC 1 cut(s) 927
Mph1103I ATGCAT 1 cut(s) 427
MroXI GAANNNNTTC 1 cut(s) 750
MseI TTAA 4 cut(s) 120, 522, 599, 821
MspI CCGG 4 cut(s) 153, 237, 1052, 1117
Mva1269I GAATGC 2 cut(s) 505, 1141
MwoI GCNNNNNNNGC 6 cut(s) 40, 111, 179, 790, 1042, 1298
NdeII GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
NlaIV GGNNCC 6 cut(s) 151, 508, 529, 689, 1202, 1278
NmuCI GTSAC 1 cut(s) 470
NsiI ATGCAT 1 cut(s) 427
NspI RCATGY 3 cut(s) 399, 429, 1190
PaeR7I CTCGAG 2 cut(s) 65, 1037
PagI TCATGA 1 cut(s) 219
PctI GAATGC 2 cut(s) 505, 1141
PdmI GAANNNNTTC 1 cut(s) 750
PfeI GAWTC 1 cut(s) 289
PflMI CCANNNNNTGG 1 cut(s) 1072
PkrI GCNGC 2 cut(s) 33, 1303
PleI GAGTC 3 cut(s) 107, 402, 899
PpsI GAGTC 3 cut(s) 107, 402, 899
PspN4I GGNNCC 6 cut(s) 151, 508, 529, 689, 1202, 1278
PspPI GGNCC 5 cut(s) 7, 507, 688, 1219, 1276
PspXI VCTCGAGB 1 cut(s) 1037
PsuI RGATCY 1 cut(s) 1200
RsaI GTAC 4 cut(s) 21, 430, 669, 852
RsaNI GTAC 4 cut(s) 20, 429, 668, 851
SalI GTCGAC 2 cut(s) 515, 920
SaqAI TTAA 4 cut(s) 120, 522, 599, 821
SatI GCNGC 2 cut(s) 32, 1302
Sau3AI GATC 7 cut(s) 202, 538, 591, 772, 1009, 1177, 1200
Sau96I GGNCC 5 cut(s) 7, 507, 688, 1219, 1276
ScaI AGTACT 1 cut(s) 21
SchI GAGTC 3 cut(s) 108, 402, 899
SduI GDGCHC 1 cut(s) 1038
SfaNI GCATC 4 cut(s) 52, 454, 940, 1223
Sfr274I CTCGAG 2 cut(s) 65, 1037
SinI GGWCC 3 cut(s) 507, 688, 1219
SlaI CTCGAG 2 cut(s) 65, 1037
SmlI CTYRAG 2 cut(s) 65, 1037
SmoI CTYRAG 2 cut(s) 65, 1037
Sse9I AATT 5 cut(s) 26, 83, 91, 376, 459
SspMI CTAG 1 cut(s) 1229
TaaI ACNGT 2 cut(s) 60, 1164
TaiI ACGT 1 cut(s) 609
TasI AATT 5 cut(s) 26, 83, 91, 376, 459
TatI WGTACW 2 cut(s) 19, 428
TauI GCSGC 2 cut(s) 34, 1304
TfiI GAWTC 1 cut(s) 289
Tru1I TTAA 4 cut(s) 120, 522, 599, 821
Tru9I TTAA 4 cut(s) 120, 522, 599, 821
TseFI GTSAC 1 cut(s) 470
Tsp45I GTSAC 1 cut(s) 470
TspDTI ATGAA 6 cut(s) 224, 236, 302, 708, 759, 953
TspGWI ACGGA 2 cut(s) 459, 904
Van91I CCANNNNNTGG 1 cut(s) 1072
VpaK11BI GGWCC 3 cut(s) 507, 688, 1219
XapI RAATTY 2 cut(s) 83, 376
XceI RCATGY 3 cut(s) 399, 429, 1190
XhoI CTCGAG 2 cut(s) 65, 1037
XmiI GTMKAC 3 cut(s) 414, 516, 921
XmnI GAANNNNTTC 1 cut(s) 750
XspI CTAG 1 cut(s) 1229
ZrmI AGTACT 1 cut(s) 21
Zsp2I ATGCAT 1 cut(s) 427
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.