Rroxscaffold_7G00201100

DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0023027
Physical Location & Seq
Forward (+)
48577469 .. 48583874
6406 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00201100.1

Sequence Viewer

Length: 651 bp
ATGATCACTCAATTTGGAACCCCTTCCTCTTCTTCTTTCACCCATAAATACTCTTGGCCATATGATGTCTTTCTAAGTTTCAGAGGTCAGGATACACGCAGAAATTTTACAGACCATTTGTATAGCGCTTTGATTCAACAAGGGATTAAAACCTTCGCTGACGCTGATGATGAACTTCCAACAGCAGAAGTGAAAAACCCGGCCGGGATTCTGAGAGCAATCGAAGAGTCAAGAATTTCTATCATCATATTATCTCGCAATTATGCAACTTCAAGGTGGTGTTTGGAGGAATTGGTGAAGATCCTCGGATGTAGAAACTCAAAGCAACAACAGGTTCTTCCTGTGTTCTACAAGGTTAGCCCCTCCGATGTAAGGAACCTGACAGGTCGTTTTGGTGAGGCATTAGCTGCGCATGAAATTGAGTTCAAGGATAAGATATATGAATGGAGAGCAGCTCTTATGGAAGTAGCAAATCTCTCTGGTGGATCTCATAGGATATACACGAAGCTTCTGGTTCGTGTTATACAGAGCCTCACAAGAAGTTTCAAACCGGTCGTCATGCACAGCAACGCCGGTGGTGATCGACCGAACCTAGATCGCCAAAGCTTGAACCGATTGGAGAAACCACTTACCCGTACGCGTAGAGCTTGA
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 Homeobox_KN POX

Protein Analysis

216

Amino Acids

24.66

Weight (kDa)

9.72

Isoelectric Point (pI)

55.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TIR PF01582 21 - 178 1.8e-47 TIR domain
TIR_2 PF13676 23 - 121 1.8e-14 TIR domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0023027)

Species Orthologous Gene IDs
rosa_multiflora Rmu_co8250683.1_g000001 Rmu_sc0002938.1_g000008 Rmu_ssc0000388.1_g000025
rosa_roxburghii Rroxscaffold_7G00201100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 411
AccII CGCG 1 cut(s) 640
AclWI GGATC 2 cut(s) 295, 493
AcoI YGGCCR 2 cut(s) 56, 201
AcsI RAATTY 2 cut(s) 103, 234
AfaI GTAC 1 cut(s) 637
AfeI AGCGCT 1 cut(s) 127
AfiI CCNNNNNNNGG 1 cut(s) 372
AflIII ACRYGT 1 cut(s) 638
AgeI ACCGGT 1 cut(s) 550
AgsI TTSAA 5 cut(s) 137, 273, 427, 547, 610
AluBI AGCT 5 cut(s) 407, 455, 508, 606, 647
AluI AGCT 5 cut(s) 407, 455, 508, 606, 647
AlwI GGATC 2 cut(s) 295, 493
Aor51HI AGCGCT 1 cut(s) 127
AoxI GGCC 2 cut(s) 56, 201
ApeKI GCWGC 2 cut(s) 407, 452
ApoI RAATTY 2 cut(s) 103, 234
ArsI GACNNNNNNTTYG 2 cut(s) 540, 572
AsiGI ACCGGT 1 cut(s) 550
Asp700I GAANNNNTTC 1 cut(s) 22
AspLEI GCGC 2 cut(s) 128, 412
AsuC2I CCSGG 2 cut(s) 200, 205
AsuHPI GGTGA 4 cut(s) 31, 307, 407, 590
BalI TGGCCA 1 cut(s) 58
BbvI GCAGC 2 cut(s) 394, 464
BciVI GTATCC 1 cut(s) 85
BclI TGATCA 1 cut(s) 3
BcnI CCSGG 2 cut(s) 200, 205
BfaI CTAG 1 cut(s) 593
BfoI RGCGCY 1 cut(s) 129
BfuI GTATCC 1 cut(s) 85
BisI GCNGC 2 cut(s) 408, 453
BlsI GCNGC 2 cut(s) 409, 454
Bme1390I CCNGG 2 cut(s) 200, 205
BmiI GGNNCC 2 cut(s) 19, 377
BmrFI CCNGG 2 cut(s) 200, 205
BplI GAGNNNNNCTC 2 cut(s) 439, 471
BpuMI CCSGG 2 cut(s) 200, 205
BsaJI CCNNGG 1 cut(s) 304
BsaWI WCCGGW 1 cut(s) 550
Bsc4I CCNNNNNNNGG 1 cut(s) 372
Bse118I RCCGGY 2 cut(s) 550, 572
BseDI CCNNGG 1 cut(s) 304
BseGI GGATG 1 cut(s) 314
BseLI CCNNNNNNNGG 1 cut(s) 372
BseMII CTCAG 1 cut(s) 203
BseX3I CGGCCG 1 cut(s) 201
BseXI GCAGC 2 cut(s) 394, 464
Bsh1236I CGCG 1 cut(s) 640
Bsh1285I CGRYCG 3 cut(s) 204, 555, 587
BshFI GGCC 2 cut(s) 58, 203
BshTI ACCGGT 1 cut(s) 550
BsiEI CGRYCG 3 cut(s) 204, 555, 587
BsiSI CCGG 4 cut(s) 200, 204, 551, 573
BsiWI CGTACG 1 cut(s) 635
BslI CCNNNNNNNGG 1 cut(s) 372
BsnI GGCC 2 cut(s) 58, 203
Bsp143I GATC 5 cut(s) 3, 300, 485, 580, 595
BspANI GGCC 2 cut(s) 58, 203
BspCNI CTCAG 1 cut(s) 204
BspFNI CGCG 1 cut(s) 640
BspLI GGNNCC 2 cut(s) 19, 377
BspPI GGATC 2 cut(s) 295, 493
BsrFI RCCGGY 2 cut(s) 550, 572
BssAI RCCGGY 2 cut(s) 550, 572
BssECI CCNNGG 1 cut(s) 304
BssMI GATC 5 cut(s) 3, 300, 485, 580, 595
Bst6I CTCTTC 2 cut(s) 34, 219
BstAPI GCANNNNNTGC 1 cut(s) 407
BstDEI CTNAG 2 cut(s) 74, 212
BstF5I GGATG 1 cut(s) 314
BstFNI CGCG 1 cut(s) 640
BstH2I RGCGCY 1 cut(s) 129
BstHHI GCGC 2 cut(s) 128, 412
BstKTI GATC 5 cut(s) 6, 303, 488, 583, 598
BstMBI GATC 5 cut(s) 3, 300, 485, 580, 595
BstMCI CGRYCG 3 cut(s) 204, 555, 587
BstMWI GCNNNNNNNGC 1 cut(s) 407
BstSCI CCNGG 2 cut(s) 198, 203
BstUI CGCG 1 cut(s) 640
BstV1I GCAGC 2 cut(s) 394, 464
BstX2I RGATCY 2 cut(s) 300, 485
BstYI RGATCY 2 cut(s) 300, 485
BstZI CGGCCG 1 cut(s) 201
BsuI GTATCC 1 cut(s) 85
BsuRI GGCC 2 cut(s) 58, 203
BtsCI GGATG 1 cut(s) 314
CfoI GCGC 2 cut(s) 128, 412
Cfr10I RCCGGY 2 cut(s) 550, 572
CseI GACGC 1 cut(s) 170
Csp6I GTAC 1 cut(s) 636
CspAI ACCGGT 1 cut(s) 550
CspCI CAANNNNNGTGG 2 cut(s) 556, 591
CviAII CATG 2 cut(s) 413, 559
CviJI RGCY 9 cut(s) 58, 203, 360, 407, 455, 508, 531, 606, 647
CviKI_1 RGCY 9 cut(s) 58, 203, 360, 407, 455, 508, 531, 606, 647
CviQI GTAC 1 cut(s) 636
DdeI CTNAG 2 cut(s) 74, 212
DpnI GATC 5 cut(s) 5, 302, 487, 582, 597
DpnII GATC 5 cut(s) 3, 300, 485, 580, 595
EaeI YGGCCR 2 cut(s) 56, 201
EagI CGGCCG 1 cut(s) 201
Eam1104I CTCTTC 2 cut(s) 34, 219
EarI CTCTTC 2 cut(s) 34, 219
EclXI CGGCCG 1 cut(s) 201
Eco47III AGCGCT 1 cut(s) 127
Eco52I CGGCCG 1 cut(s) 201
FaeI CATG 2 cut(s) 416, 562
FatI CATG 2 cut(s) 412, 558
FauNDI CATATG 1 cut(s) 61
FbaI TGATCA 1 cut(s) 3
Fnu4HI GCNGC 2 cut(s) 408, 453
FokI GGATG 1 cut(s) 321
Fsp4HI GCNGC 2 cut(s) 408, 453
FspBI CTAG 1 cut(s) 593
FspI TGCGCA 1 cut(s) 411
GlaI GCGC 2 cut(s) 127, 411
GluI GCNGC 2 cut(s) 408, 453
HaeII RGCGCY 1 cut(s) 129
HaeIII GGCC 2 cut(s) 58, 203
HapII CCGG 4 cut(s) 200, 204, 551, 573
HgaI GACGC 1 cut(s) 170
HhaI GCGC 2 cut(s) 128, 412
Hin1II CATG 2 cut(s) 416, 562
Hin6I GCGC 2 cut(s) 126, 410
HinP1I GCGC 2 cut(s) 126, 410
HindIII AAGCTT 2 cut(s) 506, 604
HinfI GANTC 3 cut(s) 133, 208, 227
HpaII CCGG 4 cut(s) 200, 204, 551, 573
HphI GGTGA 4 cut(s) 31, 307, 407, 590
Hpy188I TCNGA 4 cut(s) 83, 213, 308, 367
Hpy188III TCNNGA 2 cut(s) 89, 231
HpyAV CCTTC 2 cut(s) 33, 163
HpyCH4V TGCA 2 cut(s) 266, 562
HpyF10VI GCNNNNNNNGC 1 cut(s) 407
HpyF3I CTNAG 2 cut(s) 74, 212
Hsp92II CATG 2 cut(s) 416, 562
HspAI GCGC 2 cut(s) 126, 410
Ksp22I TGATCA 1 cut(s) 3
Kzo9I GATC 5 cut(s) 3, 300, 485, 580, 595
Lsp1109I GCAGC 2 cut(s) 394, 464
MaeI CTAG 1 cut(s) 593
MalI GATC 5 cut(s) 5, 302, 487, 582, 597
MboI GATC 5 cut(s) 3, 300, 485, 580, 595
MboII GAAGA 5 cut(s) 21, 24, 236, 310, 329
MflI RGATCY 2 cut(s) 300, 485
MlsI TGGCCA 1 cut(s) 58
MluCI AATT 6 cut(s) 11, 103, 234, 259, 290, 417
MluI ACGCGT 1 cut(s) 638
MluNI TGGCCA 1 cut(s) 58
MlyI GAGTC 1 cut(s) 236
MmeI TCCRAC 1 cut(s) 203
MnlI CCTC 7 cut(s) 37, 77, 280, 314, 373, 391, 542
Mox20I TGGCCA 1 cut(s) 58
MroXI GAANNNNTTC 1 cut(s) 22
MscI TGGCCA 1 cut(s) 58
MseI TTAA 1 cut(s) 147
Msp20I TGGCCA 1 cut(s) 58
MspI CCGG 4 cut(s) 200, 204, 551, 573
MspR9I CCNGG 2 cut(s) 200, 205
MvnI CGCG 1 cut(s) 640
MwoI GCNNNNNNNGC 1 cut(s) 407
NciI CCSGG 2 cut(s) 200, 205
NdeI CATATG 1 cut(s) 61
NdeII GATC 5 cut(s) 3, 300, 485, 580, 595
NlaIII CATG 2 cut(s) 416, 562
NlaIV GGNNCC 2 cut(s) 19, 377
NsbI TGCGCA 1 cut(s) 411
PdmI GAANNNNTTC 1 cut(s) 22
PfeI GAWTC 2 cut(s) 133, 208
Pfl23II CGTACG 1 cut(s) 635
PinAI ACCGGT 1 cut(s) 550
PkrI GCNGC 2 cut(s) 409, 454
PleI GAGTC 1 cut(s) 235
PpsI GAGTC 1 cut(s) 235
PspLI CGTACG 1 cut(s) 635
PspN4I GGNNCC 2 cut(s) 19, 377
PsuI RGATCY 2 cut(s) 300, 485
RsaI GTAC 1 cut(s) 637
RsaNI GTAC 1 cut(s) 636
SaqAI TTAA 1 cut(s) 147
SatI GCNGC 2 cut(s) 408, 453
Sau3AI GATC 5 cut(s) 3, 300, 485, 580, 595
SchI GAGTC 1 cut(s) 236
ScrFI CCNGG 2 cut(s) 200, 205
SgrAI CRCCGGYG 1 cut(s) 572
Sse9I AATT 6 cut(s) 11, 103, 234, 259, 290, 417
SspMI CTAG 1 cut(s) 593
StyD4I CCNGG 2 cut(s) 198, 203
TaqI TCGA 2 cut(s) 222, 583
TaqII GACCGA 1 cut(s) 601
TasI AATT 6 cut(s) 11, 103, 234, 259, 290, 417
TfiI GAWTC 2 cut(s) 133, 208
Tru1I TTAA 1 cut(s) 147
Tru9I TTAA 1 cut(s) 147
TseI GCWGC 2 cut(s) 407, 452
TspDTI ATGAA 3 cut(s) 186, 429, 456
XapI RAATTY 2 cut(s) 103, 234
XmnI GAANNNNTTC 1 cut(s) 22
XspI CTAG 1 cut(s) 593
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.