Rroxscaffold_2G00087260

Homeodomain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000483
Physical Location & Seq
Reverse (-)
9344645 .. 9345013
369 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00087260.1

Sequence Viewer

Length: 369 bp
ATGGAATTACAAGCTCGGAACCAGCCGAGGAGGGAGGAAGCAACCAAGCAGCCGGGAGTAGTGCCAATATGCACCGCCGAGCGGTCTAATACCCGATGGACTCCCACACCGCCTCAACTAAGAATCCTCAAGAGCCTTTACTATGATAAGGGTTTTAAGCGTCCAACTCCGGAGCGATTCAAGAGATCCGCCTCGATCCGTCCGGCGATTTGGGCGGATCGAGGACAAGAACGTCTTCTTTTGGTTCCGAACCTCAAATCTCGAGAAAGCCGGCGGATGAAGGCAATTTGGAACGTTCGGGTTGGTGGGTCTCTCGATCTCAACTTTGGACCCGCTTGTTCTACGATGAAGGTGGATCCATTGATCTAA
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

122

Amino Acids

14.04

Weight (kDa)

10.89

Isoelectric Point (pI)

67.27

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) 231
AccBSI CCGCTC 1 cut(s) 82
AccIII TCCGGA 1 cut(s) 169
AciI CCGC 7 cut(s) 75, 82, 110, 189, 215, 274, 333
AclI AACGTT 1 cut(s) 294
AclWI GGATC 5 cut(s) 180, 190, 225, 350, 363
AfiI CCNNNNNNNGG 1 cut(s) 81
AgsI TTSAA 1 cut(s) 181
AluBI AGCT 1 cut(s) 14
AluI AGCT 1 cut(s) 14
Alw26I GTCTC 1 cut(s) 315
AlwI GGATC 5 cut(s) 180, 190, 225, 350, 363
Ama87I CYCGRG 1 cut(s) 261
Aor13HI TCCGGA 1 cut(s) 169
ApeKI GCWGC 1 cut(s) 49
Asp700I GAANNNNTTC 1 cut(s) 234
AspS9I GGNCC 1 cut(s) 329
AsuC2I CCSGG 1 cut(s) 54
AvaI CYCGRG 1 cut(s) 261
AvaII GGWCC 1 cut(s) 329
BamHI GGATCC 1 cut(s) 355
BbsI GAAGAC 1 cut(s) 227
BbvI GCAGC 1 cut(s) 61
BccI CCATC 1 cut(s) 90
BcnI CCSGG 1 cut(s) 54
BcoDI GTCTC 1 cut(s) 315
BisI GCNGC 1 cut(s) 50
BlsI GCNGC 1 cut(s) 51
Bme1390I CCNGG 1 cut(s) 54
Bme18I GGWCC 1 cut(s) 329
BmeT110I CYCGRG 1 cut(s) 261
BmgT120I GGNCC 1 cut(s) 329
BmiI GGNNCC 4 cut(s) 20, 246, 331, 357
BmrFI CCNGG 1 cut(s) 54
BpiI GAAGAC 1 cut(s) 227
BpuEI CTTGAG 1 cut(s) 113
BpuMI CCSGG 1 cut(s) 54
BsaI GGTCTC 1 cut(s) 315
BsaJI CCNNGG 1 cut(s) 26
BsaWI WCCGGW 1 cut(s) 169
Bsc4I CCNNNNNNNGG 1 cut(s) 81
Bse118I RCCGGY 1 cut(s) 270
BseAI TCCGGA 1 cut(s) 169
BseDI CCNNGG 1 cut(s) 26
BseGI GGATG 1 cut(s) 282
BseLI CCNNNNNNNGG 1 cut(s) 81
BseRI GAGGAG 1 cut(s) 43
BseXI GCAGC 1 cut(s) 61
BsiHKCI CYCGRG 1 cut(s) 261
BsiSI CCGG 4 cut(s) 53, 170, 203, 271
BslI CCNNNNNNNGG 1 cut(s) 81
BsmAI GTCTC 1 cut(s) 315
Bso31I GGTCTC 1 cut(s) 315
BsoBI CYCGRG 1 cut(s) 261
Bsp13I TCCGGA 1 cut(s) 169
Bsp143I GATC 6 cut(s) 185, 195, 217, 316, 355, 363
BspACI CCGC 7 cut(s) 75, 82, 110, 189, 215, 274, 333
BspEI TCCGGA 1 cut(s) 169
BspLI GGNNCC 4 cut(s) 20, 246, 331, 357
BspPI GGATC 5 cut(s) 180, 190, 225, 350, 363
BspTNI GGTCTC 1 cut(s) 315
BsrBI CCGCTC 1 cut(s) 82
BsrFI RCCGGY 1 cut(s) 270
BssAI RCCGGY 1 cut(s) 270
BssECI CCNNGG 1 cut(s) 26
BssMI GATC 6 cut(s) 185, 195, 217, 316, 355, 363
BstC8I GCNNGC 1 cut(s) 272
BstDEI CTNAG 1 cut(s) 119
BstF5I GGATG 1 cut(s) 282
BstKTI GATC 6 cut(s) 188, 198, 220, 319, 358, 366
BstMAI GTCTC 1 cut(s) 315
BstMBI GATC 6 cut(s) 185, 195, 217, 316, 355, 363
BstMWI GCNNNNNNNGC 1 cut(s) 212
BstSCI CCNGG 1 cut(s) 52
BstV1I GCAGC 1 cut(s) 61
BstV2I GAAGAC 1 cut(s) 227
BstX2I RGATCY 2 cut(s) 185, 355
BstYI RGATCY 2 cut(s) 185, 355
BtsCI GGATG 1 cut(s) 282
Cac8I GCNNGC 1 cut(s) 272
Cfr10I RCCGGY 1 cut(s) 270
Cfr13I GGNCC 1 cut(s) 329
CseI GACGC 1 cut(s) 149
CviJI RGCY 5 cut(s) 14, 25, 52, 135, 270
CviKI_1 RGCY 5 cut(s) 14, 25, 52, 135, 270
DdeI CTNAG 1 cut(s) 119
DpnI GATC 6 cut(s) 187, 197, 219, 318, 357, 365
DpnII GATC 6 cut(s) 185, 195, 217, 316, 355, 363
DrdI GACNNNNNNGTC 1 cut(s) 231
DseDI GACNNNNNNGTC 1 cut(s) 231
EciI GGCGGA 3 cut(s) 178, 230, 289
Eco31I GGTCTC 1 cut(s) 315
Eco47I GGWCC 1 cut(s) 329
Eco88I CYCGRG 1 cut(s) 261
FaiI YATR 2 cut(s) 70, 144
FalI AAGNNNNNCTT 2 cut(s) 219, 251
FauI CCCGC 1 cut(s) 340
Fnu4HI GCNGC 1 cut(s) 50
FokI GGATG 1 cut(s) 289
Fsp4HI GCNGC 1 cut(s) 50
GluI GCNGC 1 cut(s) 50
HapII CCGG 4 cut(s) 53, 170, 203, 271
HgaI GACGC 1 cut(s) 149
HinfI GANTC 3 cut(s) 100, 123, 177
HpaII CCGG 4 cut(s) 53, 170, 203, 271
Hpy188I TCNGA 2 cut(s) 18, 249
Hpy188III TCNNGA 6 cut(s) 130, 170, 181, 261, 263, 314
HpyAV CCTTC 2 cut(s) 274, 343
HpyCH4IV ACGT 2 cut(s) 232, 294
HpyCH4V TGCA 1 cut(s) 72
HpyF10VI GCNNNNNNNGC 1 cut(s) 212
HpyF3I CTNAG 1 cut(s) 119
HpySE526I ACGT 2 cut(s) 232, 294
Kpn2I TCCGGA 1 cut(s) 169
KroI GCCGGC 1 cut(s) 270
KroNI GCCGGC 1 cut(s) 272
Kzo9I GATC 6 cut(s) 185, 195, 217, 316, 355, 363
LmnI GCTCC 1 cut(s) 172
LpnPI CCDG 5 cut(s) 35, 66, 183, 216, 284
Lsp1109I GCAGC 1 cut(s) 61
MaeII ACGT 2 cut(s) 232, 294
MalI GATC 6 cut(s) 187, 197, 219, 318, 357, 365
MbiI CCGCTC 1 cut(s) 82
MboI GATC 6 cut(s) 185, 195, 217, 316, 355, 363
MboII GAAGA 1 cut(s) 227
MflI RGATCY 2 cut(s) 185, 355
MluCI AATT 2 cut(s) 5, 285
MlyI GAGTC 1 cut(s) 94
MmeI TCCRAC 1 cut(s) 188
MnlI CCTC 8 cut(s) 21, 24, 28, 123, 137, 202, 215, 263
MroI TCCGGA 1 cut(s) 169
MroNI GCCGGC 1 cut(s) 270
MroXI GAANNNNTTC 1 cut(s) 234
MseI TTAA 1 cut(s) 156
MspI CCGG 4 cut(s) 53, 170, 203, 271
MspR9I CCNGG 1 cut(s) 54
MwoI GCNNNNNNNGC 1 cut(s) 212
NaeI GCCGGC 1 cut(s) 272
NciI CCSGG 1 cut(s) 54
NdeII GATC 6 cut(s) 185, 195, 217, 316, 355, 363
NgoMIV GCCGGC 1 cut(s) 270
NlaIV GGNNCC 4 cut(s) 20, 246, 331, 357
NmeAIII GCCGAG 2 cut(s) 51, 103
PaeR7I CTCGAG 1 cut(s) 261
PdiI GCCGGC 1 cut(s) 272
PdmI GAANNNNTTC 1 cut(s) 234
PfeI GAWTC 2 cut(s) 123, 177
PkrI GCNGC 1 cut(s) 51
PleI GAGTC 1 cut(s) 94
PpsI GAGTC 1 cut(s) 94
Psp1406I AACGTT 1 cut(s) 294
PspN4I GGNNCC 4 cut(s) 20, 246, 331, 357
PspPI GGNCC 1 cut(s) 329
PsuI RGATCY 2 cut(s) 185, 355
SaqAI TTAA 1 cut(s) 156
SatI GCNGC 1 cut(s) 50
Sau3AI GATC 6 cut(s) 185, 195, 217, 316, 355, 363
Sau96I GGNCC 1 cut(s) 329
SchI GAGTC 1 cut(s) 94
ScrFI CCNGG 1 cut(s) 54
SetI ASST 5 cut(s) 16, 235, 255, 297, 354
Sfr274I CTCGAG 1 cut(s) 261
SinI GGWCC 1 cut(s) 329
SlaI CTCGAG 1 cut(s) 261
SmlI CTYRAG 2 cut(s) 128, 261
SmoI CTYRAG 2 cut(s) 128, 261
Sse9I AATT 2 cut(s) 5, 285
SsiI CCGC 7 cut(s) 75, 82, 110, 189, 215, 274, 333
StyD4I CCNGG 1 cut(s) 52
TaiI ACGT 2 cut(s) 235, 297
TaqI TCGA 4 cut(s) 194, 220, 262, 315
TasI AATT 2 cut(s) 5, 285
TfiI GAWTC 2 cut(s) 123, 177
Tru1I TTAA 1 cut(s) 156
Tru9I TTAA 1 cut(s) 156
TseI GCWGC 1 cut(s) 49
TspDTI ATGAA 2 cut(s) 293, 362
TspGWI ACGGA 1 cut(s) 188
VpaK11BI GGWCC 1 cut(s) 329
XhoI CTCGAG 1 cut(s) 261
XmnI GAANNNNTTC 1 cut(s) 234
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.