Rroxscaffold_1G00000930

Homeodomain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000483
Physical Location & Seq
Forward (+)
1396322 .. 1396768
447 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00000930.1

Sequence Viewer

Length: 447 bp
ATGGAACAACGAACTCTTCAACTATTGGAGCCTCAAACCCAACAACAAACGGAATTTCAAGCCCAAGAACCAACCGGGGAGGGAGGAAGCAACCAATCAGCCGGAGGTAGTGCCAATCCGCCCTCAGCGACTAATACCCGCCGGGCTCCCACACCGCCTCAACTAAGAATCCTCAAGGGCCTTTACTATGATAAGGGCTTTAAGCGTCCAACTCCCGAGCAGATTCGGGGAGATCCGCCTCGGTCCGAAGCGCTTTGGGCCGATCGAGGACAAAAACGTCTTCTTCGGTTCCCGAACCTCAAATCCCGAGAGAGCCAACAGATGAAGGCATTTCGGAACGTCCGGGTTGGAGGATCTCTCGATCTCAACTTTGGACCCGCAAGTTCTACGGATGAAGGTGGATCCATCGATCCGAACTTTGGTCCTCTCTGTTCCTACGGGAGCTGA
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

148

Amino Acids

16.25

Weight (kDa)

9.51

Isoelectric Point (pI)

56.16

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) 276
AciI CCGC 5 cut(s) 119, 139, 155, 236, 378
AclWI GGATC 5 cut(s) 227, 361, 396, 404, 409
AcsI RAATTY 1 cut(s) 53
AfeI AGCGCT 1 cut(s) 252
AfiI CCNNNNNNNGG 1 cut(s) 419
AgsI TTSAA 2 cut(s) 20, 59
AloI GAACNNNNNNTCC 2 cut(s) 287, 319
AluBI AGCT 1 cut(s) 444
AluI AGCT 1 cut(s) 444
AlwI GGATC 5 cut(s) 227, 361, 396, 404, 409
Ama87I CYCGRG 2 cut(s) 215, 306
Aor51HI AGCGCT 1 cut(s) 252
AoxI GGCC 2 cut(s) 178, 258
ApoI RAATTY 1 cut(s) 53
AspLEI GCGC 1 cut(s) 253
AspS9I GGNCC 5 cut(s) 178, 243, 258, 374, 422
AsuC2I CCSGG 3 cut(s) 76, 143, 344
AvaI CYCGRG 2 cut(s) 215, 306
AvaII GGWCC 3 cut(s) 243, 374, 422
BamHI GGATCC 1 cut(s) 401
BanII GRGCYC 1 cut(s) 148
BbsI GAAGAC 1 cut(s) 272
BbvCI CCTCAGC 1 cut(s) 124
BccI CCATC 1 cut(s) 413
BcnI CCSGG 3 cut(s) 76, 143, 344
BfoI RGCGCY 1 cut(s) 254
Bme1390I CCNGG 3 cut(s) 76, 143, 344
Bme18I GGWCC 3 cut(s) 243, 374, 422
BmeT110I CYCGRG 2 cut(s) 215, 306
BmgT120I GGNCC 5 cut(s) 178, 243, 258, 374, 422
BmiI GGNNCC 5 cut(s) 30, 147, 290, 376, 403
BmrFI CCNGG 3 cut(s) 76, 143, 344
BpiI GAAGAC 1 cut(s) 272
BplI GAGNNNNNCTC 2 cut(s) 342, 374
Bpu10I CCTNAGC 1 cut(s) 124
BpuEI CTTGAG 1 cut(s) 158
BpuMI CCSGG 3 cut(s) 76, 143, 344
Bsa29I ATCGAT 1 cut(s) 408
BsaJI CCNNGG 2 cut(s) 75, 239
Bsc4I CCNNNNNNNGG 1 cut(s) 419
BseCI ATCGAT 1 cut(s) 408
BseDI CCNNGG 2 cut(s) 75, 239
BseGI GGATG 1 cut(s) 397
BseLI CCNNNNNNNGG 1 cut(s) 419
BseMII CTCAG 1 cut(s) 138
Bsh1285I CGRYCG 1 cut(s) 265
BshFI GGCC 2 cut(s) 180, 260
BshVI ATCGAT 1 cut(s) 408
BsiEI CGRYCG 1 cut(s) 265
BsiHKCI CYCGRG 2 cut(s) 215, 306
BsiSI CCGG 4 cut(s) 75, 102, 142, 343
BslI CCNNNNNNNGG 1 cut(s) 419
BsnI GGCC 2 cut(s) 180, 260
BsoBI CYCGRG 2 cut(s) 215, 306
Bsp1286I GDGCHC 1 cut(s) 148
Bsp143I GATC 6 cut(s) 232, 262, 353, 361, 401, 409
BspACI CCGC 5 cut(s) 119, 139, 155, 236, 378
BspANI GGCC 2 cut(s) 180, 260
BspCNI CTCAG 1 cut(s) 137
BspDI ATCGAT 1 cut(s) 408
BspLI GGNNCC 5 cut(s) 30, 147, 290, 376, 403
BspPI GGATC 5 cut(s) 227, 361, 396, 404, 409
BssECI CCNNGG 2 cut(s) 75, 239
BssMI GATC 6 cut(s) 232, 262, 353, 361, 401, 409
Bst6I CTCTTC 1 cut(s) 21
BstDEI CTNAG 2 cut(s) 124, 164
BstF5I GGATG 1 cut(s) 397
BstH2I RGCGCY 1 cut(s) 254
BstHHI GCGC 1 cut(s) 253
BstKTI GATC 6 cut(s) 235, 265, 356, 364, 404, 412
BstMBI GATC 6 cut(s) 232, 262, 353, 361, 401, 409
BstMCI CGRYCG 1 cut(s) 265
BstMWI GCNNNNNNNGC 1 cut(s) 257
BstSCI CCNGG 3 cut(s) 74, 141, 342
BstV2I GAAGAC 1 cut(s) 272
BstX2I RGATCY 3 cut(s) 232, 353, 401
BstYI RGATCY 3 cut(s) 232, 353, 401
Bsu15I ATCGAT 1 cut(s) 408
BsuRI GGCC 2 cut(s) 180, 260
BsuTUI ATCGAT 1 cut(s) 408
BtsCI GGATG 1 cut(s) 397
CfoI GCGC 1 cut(s) 253
Cfr13I GGNCC 5 cut(s) 178, 243, 258, 374, 422
ClaI ATCGAT 1 cut(s) 408
CpoI CGGWCCG 1 cut(s) 243
CseI GACGC 1 cut(s) 194
CspI CGGWCCG 1 cut(s) 243
CviJI RGCY 9 cut(s) 31, 62, 101, 146, 180, 198, 260, 315, 444
CviKI_1 RGCY 9 cut(s) 31, 62, 101, 146, 180, 198, 260, 315, 444
DdeI CTNAG 2 cut(s) 124, 164
DpnI GATC 6 cut(s) 234, 264, 355, 363, 403, 411
DpnII GATC 6 cut(s) 232, 262, 353, 361, 401, 409
DrdI GACNNNNNNGTC 1 cut(s) 276
DseDI GACNNNNNNGTC 1 cut(s) 276
Eam1104I CTCTTC 1 cut(s) 21
EarI CTCTTC 1 cut(s) 21
EciI GGCGGA 2 cut(s) 108, 225
Eco24I GRGCYC 1 cut(s) 148
Eco47I GGWCC 3 cut(s) 243, 374, 422
Eco47III AGCGCT 1 cut(s) 252
Eco88I CYCGRG 2 cut(s) 215, 306
EcoO109I RGGNCCY 1 cut(s) 178
EcoT38I GRGCYC 1 cut(s) 148
FaiI YATR 1 cut(s) 189
FauI CCCGC 2 cut(s) 146, 385
FokI GGATG 1 cut(s) 404
FriOI GRGCYC 1 cut(s) 148
GlaI GCGC 1 cut(s) 252
HaeII RGCGCY 1 cut(s) 254
HaeIII GGCC 2 cut(s) 180, 260
HapII CCGG 4 cut(s) 75, 102, 142, 343
HgaI GACGC 1 cut(s) 194
HhaI GCGC 1 cut(s) 253
Hin6I GCGC 1 cut(s) 251
HinP1I GCGC 1 cut(s) 251
HinfI GANTC 2 cut(s) 168, 223
HpaII CCGG 4 cut(s) 75, 102, 142, 343
Hpy188I TCNGA 3 cut(s) 247, 336, 414
Hpy188III TCNNGA 4 cut(s) 215, 292, 306, 359
HpyAV CCTTC 2 cut(s) 319, 389
HpyCH4IV ACGT 2 cut(s) 277, 339
HpyF10VI GCNNNNNNNGC 1 cut(s) 257
HpyF3I CTNAG 2 cut(s) 124, 164
HpySE526I ACGT 2 cut(s) 277, 339
HspAI GCGC 1 cut(s) 251
Kzo9I GATC 6 cut(s) 232, 262, 353, 361, 401, 409
LmnI GCTCC 3 cut(s) 28, 151, 441
LpnPI CCDG 4 cut(s) 88, 115, 155, 356
MaeII ACGT 2 cut(s) 277, 339
MalI GATC 6 cut(s) 234, 264, 355, 363, 403, 411
MboI GATC 6 cut(s) 232, 262, 353, 361, 401, 409
MboII GAAGA 3 cut(s) 8, 272, 275
MflI RGATCY 3 cut(s) 232, 353, 401
MhlI GDGCHC 1 cut(s) 148
MluCI AATT 1 cut(s) 53
MmeI TCCRAC 2 cut(s) 233, 328
MseI TTAA 1 cut(s) 201
MspI CCGG 4 cut(s) 75, 102, 142, 343
MspR9I CCNGG 3 cut(s) 76, 143, 344
MwoI GCNNNNNNNGC 1 cut(s) 257
NciI CCSGG 3 cut(s) 76, 143, 344
NdeII GATC 6 cut(s) 232, 262, 353, 361, 401, 409
NlaIV GGNNCC 5 cut(s) 30, 147, 290, 376, 403
PfeI GAWTC 2 cut(s) 168, 223
Ple19I CGATCG 1 cut(s) 265
PspN4I GGNNCC 5 cut(s) 30, 147, 290, 376, 403
PspPI GGNCC 5 cut(s) 178, 243, 258, 374, 422
PsuI RGATCY 3 cut(s) 232, 353, 401
PvuI CGATCG 1 cut(s) 265
Rsr2I CGGWCCG 1 cut(s) 243
RsrII CGGWCCG 1 cut(s) 243
SaqAI TTAA 1 cut(s) 201
Sau3AI GATC 6 cut(s) 232, 262, 353, 361, 401, 409
Sau96I GGNCC 5 cut(s) 178, 243, 258, 374, 422
ScrFI CCNGG 3 cut(s) 76, 143, 344
SduI GDGCHC 1 cut(s) 148
SetI ASST 6 cut(s) 109, 280, 300, 342, 400, 446
SinI GGWCC 3 cut(s) 243, 374, 422
SmlI CTYRAG 1 cut(s) 173
SmoI CTYRAG 1 cut(s) 173
Sse9I AATT 1 cut(s) 53
SsiI CCGC 5 cut(s) 119, 139, 155, 236, 378
StyD4I CCNGG 3 cut(s) 74, 141, 342
TaiI ACGT 2 cut(s) 280, 342
TaqI TCGA 3 cut(s) 265, 360, 408
TaqII GACCGA 1 cut(s) 231
TasI AATT 1 cut(s) 53
TfiI GAWTC 2 cut(s) 168, 223
Tru1I TTAA 1 cut(s) 201
Tru9I TTAA 1 cut(s) 201
TspDTI ATGAA 2 cut(s) 338, 408
TspGWI ACGGA 2 cut(s) 65, 404
VpaK11BI GGWCC 3 cut(s) 243, 374, 422
XapI RAATTY 1 cut(s) 53
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.