Rroxscaffold_4G00330370

Homeodomain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000483
Physical Location & Seq
Reverse (-)
64035129 .. 64035584
456 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00330370.1

Sequence Viewer

Length: 456 bp
ATGAACTCTACAACTAATGGAGCTACAAACACAAGCAACAATGGAACTACAAACCCGGTAACCAACCGAGGAGGGAGGAAGCAACCAAGCAGCGGGAGTAGTGCCAACACGCCCATCGAGCGTACTAATAACCGGTGGACTCCCACACCAGATCAACTACGAATCCTCAAGGTGCTTTACTATGACAAGGATCTCGGTGTACCCAACTCCGAGAGCGATTCAAGAGATCCGTCTCCATCCGAAACAGATGGGCGGATTGAGGACAAGAACGTCTTCTTTTGGTTCCGAACCTCAAAGCTCGAGAGAAGCGAGAAGATGAAGTTAATTCGGAACGTTCGGGTTGGTAGATCTCTCGATCTCAACTTTGGATCCACTAGTTCTACCGATGATGGTGGGTCCAATGATCTAAACTTTGGTTCCGTTGGTTCTGCGGTGACGATGGATCCGTCGATTTAA
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
Homeobox

Protein Analysis

151

Amino Acids

16.51

Weight (kDa)

8.01

Isoelectric Point (pI)

42.0

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: OG0000483)

Species Orthologous Gene IDs
rosa_multiflora Rmu_sc0002132.1_g000009 Rmu_sc0002786.1_g000030
rosa_roxburghii Rroxscaffold_159G00432910 Rroxscaffold_159G00433130 Rroxscaffold_166G00440820 Rroxscaffold_173G00435050 Rroxscaffold_174G00435100 Rroxscaffold_180G00433390 Rroxscaffold_180G00433400 Rroxscaffold_180G00433440 Rroxscaffold_180G00433490 Rroxscaffold_1G00000420 Rroxscaffold_1G00000930 Rroxscaffold_1G00002350 Rroxscaffold_1G00003270 Rroxscaffold_1G00003640 Rroxscaffold_1G00004210 Rroxscaffold_1G00022320 Rroxscaffold_1G00036090 Rroxscaffold_1G00042540 Rroxscaffold_2G00080860 Rroxscaffold_2G00084440 Rroxscaffold_2G00085920 Rroxscaffold_2G00087210 Rroxscaffold_2G00087260 Rroxscaffold_2G00089240 Rroxscaffold_2G00096210 Rroxscaffold_2G00098680 Rroxscaffold_2G00099730 Rroxscaffold_2G00102340 Rroxscaffold_2G00102390 Rroxscaffold_2G00107430 Rroxscaffold_2G00115560 Rroxscaffold_2G00128260 Rroxscaffold_3G00221780 Rroxscaffold_3G00224580 Rroxscaffold_3G00225490 Rroxscaffold_3G00234530 Rroxscaffold_3G00235740 Rroxscaffold_3G00236590 Rroxscaffold_3G00239210 Rroxscaffold_3G00239230 Rroxscaffold_3G00239360 Rroxscaffold_3G00239370 Rroxscaffold_3G00239470 Rroxscaffold_3G00239810 Rroxscaffold_3G00251240 Rroxscaffold_4G00289430 Rroxscaffold_4G00289730 Rroxscaffold_4G00312680 Rroxscaffold_4G00312710 Rroxscaffold_4G00315640 Rroxscaffold_4G00316240 Rroxscaffold_4G00316300 Rroxscaffold_4G00317170 Rroxscaffold_4G00317290 Rroxscaffold_4G00321790 Rroxscaffold_4G00322370 Rroxscaffold_4G00330370 Rroxscaffold_4G00331530 Rroxscaffold_4G00332570 Rroxscaffold_5G00338020 Rroxscaffold_5G00339400 Rroxscaffold_5G00344280 Rroxscaffold_5G00345300 Rroxscaffold_5G00346730 Rroxscaffold_5G00359170 Rroxscaffold_5G00370850 Rroxscaffold_5G00371460 Rroxscaffold_5G00380840 Rroxscaffold_6G00389750 Rroxscaffold_6G00389760 Rroxscaffold_6G00390470 Rroxscaffold_6G00390510 Rroxscaffold_6G00390560 Rroxscaffold_6G00390590 Rroxscaffold_6G00391550 Rroxscaffold_6G00391700 Rroxscaffold_6G00398420 Rroxscaffold_7G00183290 Rroxscaffold_7G00184060 Rroxscaffold_7G00191180 Rroxscaffold_7G00193290 Rroxscaffold_7G00195040 Rroxscaffold_7G00196890 Rroxscaffold_7G00199380 Rroxscaffold_7G00199440 Rroxscaffold_7G00201010 Rroxscaffold_7G00202460
rosa_rugosa Rorug04G0280300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 269
AciI CCGC 3 cut(s) 93, 253, 431
AclI AACGTT 1 cut(s) 333
AclWI GGATC 6 cut(s) 198, 221, 363, 376, 437, 450
AfaI GTAC 2 cut(s) 124, 201
AfiI CCNNNNNNNGG 1 cut(s) 92
AgeI ACCGGT 1 cut(s) 132
AgsI TTSAA 1 cut(s) 222
AhlI ACTAGT 1 cut(s) 374
AluBI AGCT 2 cut(s) 23, 298
AluI AGCT 2 cut(s) 23, 298
Alw26I GTCTC 1 cut(s) 237
AlwI GGATC 6 cut(s) 198, 221, 363, 376, 437, 450
Ama87I CYCGRG 1 cut(s) 299
ApeKI GCWGC 1 cut(s) 90
AsiGI ACCGGT 1 cut(s) 132
Asp700I GAANNNNTTC 1 cut(s) 272
AspS9I GGNCC 1 cut(s) 396
AsuC2I CCSGG 1 cut(s) 56
AsuHPI GGTGA 1 cut(s) 445
AvaI CYCGRG 1 cut(s) 299
AvaII GGWCC 1 cut(s) 396
BamHI GGATCC 2 cut(s) 368, 442
BbsI GAAGAC 1 cut(s) 265
BbvI GCAGC 1 cut(s) 102
BccI CCATC 5 cut(s) 122, 242, 244, 383, 433
BcnI CCSGG 1 cut(s) 56
BcoDI GTCTC 1 cut(s) 237
BcuI ACTAGT 1 cut(s) 374
BfaI CTAG 1 cut(s) 375
BglII AGATCT 1 cut(s) 347
BisI GCNGC 1 cut(s) 91
BlsI GCNGC 1 cut(s) 92
Bme1390I CCNGG 1 cut(s) 56
Bme18I GGWCC 1 cut(s) 396
BmeT110I CYCGRG 1 cut(s) 299
BmgT120I GGNCC 1 cut(s) 396
BmiI GGNNCC 5 cut(s) 284, 370, 397, 418, 444
BmrFI CCNGG 1 cut(s) 56
BpiI GAAGAC 1 cut(s) 265
BpuEI CTTGAG 1 cut(s) 152
BpuMI CCSGG 1 cut(s) 56
BsaJI CCNNGG 1 cut(s) 67
BsaWI WCCGGW 1 cut(s) 132
Bsc4I CCNNNNNNNGG 1 cut(s) 92
Bse118I RCCGGY 1 cut(s) 132
BseDI CCNNGG 1 cut(s) 67
BseGI GGATG 1 cut(s) 236
BseLI CCNNNNNNNGG 1 cut(s) 92
BseRI GAGGAG 1 cut(s) 84
BseXI GCAGC 1 cut(s) 102
BshTI ACCGGT 1 cut(s) 132
BsiHKCI CYCGRG 1 cut(s) 299
BsiSI CCGG 2 cut(s) 56, 133
BslI CCNNNNNNNGG 1 cut(s) 92
BsmAI GTCTC 1 cut(s) 237
BsmBI CGTCTC 1 cut(s) 237
BsoBI CYCGRG 1 cut(s) 299
Bsp143I GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
BspACI CCGC 3 cut(s) 93, 253, 431
BspLI GGNNCC 5 cut(s) 284, 370, 397, 418, 444
BspPI GGATC 6 cut(s) 198, 221, 363, 376, 437, 450
BsrFI RCCGGY 1 cut(s) 132
BssAI RCCGGY 1 cut(s) 132
BssECI CCNNGG 1 cut(s) 67
BssMI GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
BstEII GGTNACC 1 cut(s) 58
BstF5I GGATG 1 cut(s) 236
BstKTI GATC 8 cut(s) 154, 193, 229, 350, 358, 371, 406, 445
BstMAI GTCTC 1 cut(s) 237
BstMBI GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
BstMWI GCNNNNNNNGC 1 cut(s) 118
BstPI GGTNACC 1 cut(s) 58
BstSCI CCNGG 1 cut(s) 54
BstV1I GCAGC 1 cut(s) 102
BstV2I GAAGAC 1 cut(s) 265
BstX2I RGATCY 5 cut(s) 190, 226, 347, 368, 442
BstYI RGATCY 5 cut(s) 190, 226, 347, 368, 442
BtsCI GGATG 1 cut(s) 236
Cfr10I RCCGGY 1 cut(s) 132
Cfr13I GGNCC 1 cut(s) 396
Csp6I GTAC 2 cut(s) 123, 200
CspAI ACCGGT 1 cut(s) 132
CviJI RGCY 2 cut(s) 23, 298
CviKI_1 RGCY 2 cut(s) 23, 298
CviQI GTAC 2 cut(s) 123, 200
DpnI GATC 8 cut(s) 153, 192, 228, 349, 357, 370, 405, 444
DpnII GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
DrdI GACNNNNNNGTC 1 cut(s) 269
DseDI GACNNNNNNGTC 1 cut(s) 269
EciI GGCGGA 1 cut(s) 268
Eco47I GGWCC 1 cut(s) 396
Eco88I CYCGRG 1 cut(s) 299
Eco91I GGTNACC 1 cut(s) 58
EcoO65I GGTNACC 1 cut(s) 58
Esp3I CGTCTC 1 cut(s) 237
FaiI YATR 1 cut(s) 183
FalI AAGNNNNNCTT 2 cut(s) 257, 289
FauI CCCGC 1 cut(s) 86
Fnu4HI GCNGC 1 cut(s) 91
FokI GGATG 1 cut(s) 223
Fsp4HI GCNGC 1 cut(s) 91
FspBI CTAG 1 cut(s) 375
GluI GCNGC 1 cut(s) 91
HapII CCGG 2 cut(s) 56, 133
HinfI GANTC 3 cut(s) 139, 162, 218
HpaII CCGG 2 cut(s) 56, 133
HphI GGTGA 1 cut(s) 445
Hpy166II GTNNAC 2 cut(s) 138, 200
Hpy188I TCNGA 4 cut(s) 211, 241, 287, 330
Hpy188III TCNNGA 3 cut(s) 222, 301, 353
Hpy8I GTNNAC 2 cut(s) 138, 200
Hpy99I CGWCG 1 cut(s) 451
HpyCH4IV ACGT 2 cut(s) 270, 333
HpyF10VI GCNNNNNNNGC 1 cut(s) 118
HpySE526I ACGT 2 cut(s) 270, 333
Kzo9I GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
LmnI GCTCC 1 cut(s) 20
LpnPI CCDG 3 cut(s) 69, 146, 162
Lsp1109I GCAGC 1 cut(s) 102
MaeI CTAG 1 cut(s) 375
MaeII ACGT 2 cut(s) 270, 333
MaeIII GTNAC 2 cut(s) 58, 433
MalI GATC 8 cut(s) 153, 192, 228, 349, 357, 370, 405, 444
MboI GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
MboII GAAGA 2 cut(s) 265, 325
MflI RGATCY 5 cut(s) 190, 226, 347, 368, 442
MluCI AATT 1 cut(s) 324
MlyI GAGTC 1 cut(s) 133
MnlI CCTC 6 cut(s) 62, 65, 69, 176, 253, 301
MroXI GAANNNNTTC 1 cut(s) 272
MseI TTAA 2 cut(s) 323, 454
MspA1I CMGCKG 1 cut(s) 93
MspI CCGG 2 cut(s) 56, 133
MspR9I CCNGG 1 cut(s) 56
MwoI GCNNNNNNNGC 1 cut(s) 118
NciI CCSGG 1 cut(s) 56
NdeII GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
NlaIV GGNNCC 5 cut(s) 284, 370, 397, 418, 444
NmuCI GTSAC 1 cut(s) 433
PaeR7I CTCGAG 1 cut(s) 299
PcsI WCGNNNNNNNCGW 2 cut(s) 306, 443
PdmI GAANNNNTTC 1 cut(s) 272
PfeI GAWTC 2 cut(s) 162, 218
PinAI ACCGGT 1 cut(s) 132
PkrI GCNGC 1 cut(s) 92
PleI GAGTC 1 cut(s) 133
PpsI GAGTC 1 cut(s) 133
Psp1406I AACGTT 1 cut(s) 333
PspEI GGTNACC 1 cut(s) 58
PspN4I GGNNCC 5 cut(s) 284, 370, 397, 418, 444
PspPI GGNCC 1 cut(s) 396
PsuI RGATCY 5 cut(s) 190, 226, 347, 368, 442
RsaI GTAC 2 cut(s) 124, 201
RsaNI GTAC 2 cut(s) 123, 200
SaqAI TTAA 2 cut(s) 323, 454
SatI GCNGC 1 cut(s) 91
Sau3AI GATC 8 cut(s) 151, 190, 226, 347, 355, 368, 403, 442
Sau96I GGNCC 1 cut(s) 396
SchI GAGTC 1 cut(s) 133
ScrFI CCNGG 1 cut(s) 56
SetI ASST 6 cut(s) 25, 174, 273, 293, 300, 336
Sfr274I CTCGAG 1 cut(s) 299
SinI GGWCC 1 cut(s) 396
SlaI CTCGAG 1 cut(s) 299
SmlI CTYRAG 2 cut(s) 167, 299
SmoI CTYRAG 2 cut(s) 167, 299
SpeI ACTAGT 1 cut(s) 374
Sse9I AATT 1 cut(s) 324
SsiI CCGC 3 cut(s) 93, 253, 431
SspMI CTAG 1 cut(s) 375
StyD4I CCNGG 1 cut(s) 54
TaiI ACGT 2 cut(s) 273, 336
TaqI TCGA 4 cut(s) 117, 300, 354, 449
TasI AATT 1 cut(s) 324
TfiI GAWTC 2 cut(s) 162, 218
Tru1I TTAA 2 cut(s) 323, 454
Tru9I TTAA 2 cut(s) 323, 454
TseFI GTSAC 1 cut(s) 433
TseI GCWGC 1 cut(s) 90
Tsp45I GTSAC 1 cut(s) 433
TspDTI ATGAA 2 cut(s) 17, 332
TspGWI ACGGA 3 cut(s) 219, 409, 435
VpaK11BI GGWCC 1 cut(s) 396
XhoI CTCGAG 1 cut(s) 299
XmnI GAANNNNTTC 1 cut(s) 272
XspI CTAG 1 cut(s) 375
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.