Rorug03G0116200

caffeic acid

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0011057
Physical Location & Seq
Forward (+)
9454011 .. 9455555
1545 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0116200.1

Sequence Viewer

Length: 951 bp
ATGTCAAGCAGCCAAAGAGTAGAATCTGCACATGCATTCTTCAAGCGTTATTGTGATAAAGAAAACACCTTGATGGATTTTGTCACGCGTTTCAATAGGGCGGTTGCTCATCAGAGACATGAAGAATTGATTGAAGACCATAGAGATTTGAATGAGACACCTAACTTGAAATTAGGGATGCCAATGGAGGTCCAAATGGCTCAATTATATACCAAAAAGTACTTTCAGCACTTTCAAGCTCAGCTTCATGATGGTAATGGTTATATGGTAAATGCCATAATGGAAGATGACAGTAGTTGTGTTTACAAGACTGAAAGGGTGTTTGCTGAAAACTTTAGGATGCGGACGCTTGTACATGATAAGGTATCAAACATAGTGACATGTAGTTGTAAAATGTTTGAATTTGAAGGTATTCCTTGCAGGCATATTTTGGCTCTGTTACGACTAAAACAGATTATGGAATTGCCAAAGGAATATATTCTACGAAGATGGACAAGGTTTTCAAGAATTCGTAGAGAAAGGTGTCAAGGGCAAGATGGTGCAGATAATTCATTAATAATGAGACACAACGGTATGTTCAAAATTGCATCCAATTTAATTGATGAGGCTGCAATTTCACCAGAGGGGACCGAACTTGTGCAAAAGGCATTTGAAGGACTTATGGAGCAAGTTAAGAAACTAAATATTTCTGTTGGCCAAGCTTCTATCAACAATTATTCAGTAGGAACTTTTGAAGAGAATCGCTTCCTAGATCCTTCTCAAGTGAAGACTAAAGGTAGTGGAAAACGCATAACATCATGGAGAGACAGGAAAAGAAAAGTTAGACATTGTTCTAAATGTCAAAGTACTAAACATACTAAAAAGACATGCACATTTGATAGGTCAGAGATTGTGGAAAATGATGTCGACAAAGCATTGGGTGAACAAGATTACTTGGTTGATGAACTATAA
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
Dimerisation Methyltransf_2

Protein Analysis

316

Amino Acids

36.9

Weight (kDa)

8.76

Isoelectric Point (pI)

43.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SWIM PF04434 124 - 148 5.6e-10 SWIM zinc finger
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: OG0011057)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G53140
fragaria_vesca FvH4_6g17130 FvH4_6g17130 FvH4_6g17130
malus_domestica MD12G1103500.v1.1 MD14G1097900.v1.1
prunus_persica Prupe.7G123600_v2.0.a1
pyrus_communis pycom12g10200
rosa_chinensis RchiOBHm_Chr3g0471211
rosa_laevigata RLG00000024197
rosa_multiflora Rmu_co8165034.1_g000001 Rmu_sc0010073.1_g000018 Rmu_sc0031310.1_g000002
rosa_roxburghii Rroxscaffold_6G00410220
rosa_rugosa Rorug03G0116200
rosa_samantha Rh3AG165100 Rh3BG190700 Rh3CG181000 Rh3DG185100
rosa_wichuraiana Rw3G015570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 906
AccII CGCG 1 cut(s) 88
AciI CCGC 2 cut(s) 101, 343
AclWI GGATC 1 cut(s) 746
AcoI YGGCCR 1 cut(s) 694
AcsI RAATTY 2 cut(s) 401, 507
AfaI GTAC 3 cut(s) 221, 354, 847
AflIII ACRYGT 2 cut(s) 86, 380
AluBI AGCT 3 cut(s) 239, 244, 701
AluI AGCT 3 cut(s) 239, 244, 701
Alw26I GTCTC 4 cut(s) 109, 149, 556, 798
AlwI GGATC 1 cut(s) 746
AoxI GGCC 1 cut(s) 694
ApeKI GCWGC 2 cut(s) 9, 608
ApoI RAATTY 2 cut(s) 401, 507
AseI ATTAAT 1 cut(s) 554
Asp700I GAANNNNTTC 3 cut(s) 411, 477, 743
AspS9I GGNCC 2 cut(s) 190, 627
AsuHPI GGTGA 2 cut(s) 609, 932
AvaII GGWCC 2 cut(s) 190, 627
BalI TGGCCA 1 cut(s) 696
BbsI GAAGAC 2 cut(s) 141, 773
BbvI GCAGC 2 cut(s) 21, 595
BccI CCATC 4 cut(s) 67, 245, 483, 530
BcoDI GTCTC 4 cut(s) 109, 149, 556, 798
BfaI CTAG 1 cut(s) 749
BisI GCNGC 2 cut(s) 10, 609
BlpI GCTNAGC 1 cut(s) 240
BlsI GCNGC 2 cut(s) 11, 610
BmcAI AGTACT 2 cut(s) 221, 847
Bme18I GGWCC 2 cut(s) 190, 627
BmgT120I GGNCC 2 cut(s) 190, 627
BmiI GGNNCC 1 cut(s) 628
BmsI GCATC 3 cut(s) 168, 330, 596
BpiI GAAGAC 2 cut(s) 141, 773
Bpu1102I GCTNAGC 1 cut(s) 240
BpuEI CTTGAG 1 cut(s) 744
BseGI GGATG 3 cut(s) 183, 345, 587
BseMII CTCAG 1 cut(s) 254
BseXI GCAGC 2 cut(s) 21, 595
BsgI GTGCAG 2 cut(s) 12, 561
Bsh1236I CGCG 1 cut(s) 88
BshFI GGCC 1 cut(s) 696
BslFI GGGAC 1 cut(s) 640
BsmAI GTCTC 4 cut(s) 109, 149, 556, 798
BsmFI GGGAC 1 cut(s) 640
BsmI GAATGC 1 cut(s) 35
BsnI GGCC 1 cut(s) 696
Bsp1407I TGTACA 1 cut(s) 352
Bsp143I GATC 1 cut(s) 751
Bsp1720I GCTNAGC 1 cut(s) 240
BspACI CCGC 2 cut(s) 101, 343
BspANI GGCC 1 cut(s) 696
BspCNI CTCAG 1 cut(s) 253
BspFNI CGCG 1 cut(s) 88
BspHI TCATGA 1 cut(s) 247
BspLI GGNNCC 1 cut(s) 628
BspPI GGATC 1 cut(s) 746
BsrGI TGTACA 1 cut(s) 352
BssMI GATC 1 cut(s) 751
Bst4CI ACNGT 2 cut(s) 293, 572
Bst6I CTCTTC 1 cut(s) 729
BstAUI TGTACA 1 cut(s) 352
BstC8I GCNNGC 1 cut(s) 422
BstDEI CTNAG 1 cut(s) 240
BstF5I GGATG 3 cut(s) 183, 345, 587
BstFNI CGCG 1 cut(s) 88
BstKTI GATC 1 cut(s) 754
BstMAI GTCTC 4 cut(s) 109, 149, 556, 798
BstMBI GATC 1 cut(s) 751
BstNSI RCATGY 3 cut(s) 35, 384, 870
BstUI CGCG 1 cut(s) 88
BstV1I GCAGC 2 cut(s) 21, 595
BstV2I GAAGAC 2 cut(s) 141, 773
BstX2I RGATCY 1 cut(s) 751
BstYI RGATCY 1 cut(s) 751
BsuRI GGCC 1 cut(s) 696
BtsCI GGATG 3 cut(s) 183, 345, 587
Cac8I GCNNGC 1 cut(s) 422
CciI TCATGA 1 cut(s) 247
Cfr13I GGNCC 2 cut(s) 190, 627
CseI GACGC 1 cut(s) 355
Csp6I GTAC 3 cut(s) 220, 353, 846
CviAII CATG 7 cut(s) 32, 119, 248, 356, 381, 798, 867
CviJI RGCY 8 cut(s) 12, 200, 239, 244, 434, 608, 696, 701
CviKI_1 RGCY 8 cut(s) 12, 200, 239, 244, 434, 608, 696, 701
CviQI GTAC 3 cut(s) 220, 353, 846
DdeI CTNAG 1 cut(s) 240
DpnI GATC 1 cut(s) 753
DpnII GATC 1 cut(s) 751
EaeI YGGCCR 1 cut(s) 694
Eam1104I CTCTTC 1 cut(s) 729
EarI CTCTTC 1 cut(s) 729
Eco47I GGWCC 2 cut(s) 190, 627
EcoRI GAATTC 1 cut(s) 507
EcoT22I ATGCAT 1 cut(s) 37
FaeI CATG 7 cut(s) 35, 122, 251, 359, 384, 801, 870
FalI AAGNNNNNCTT 2 cut(s) 228, 260
FaqI GGGAC 1 cut(s) 640
FatI CATG 7 cut(s) 31, 118, 247, 355, 380, 797, 866
FblI GTMKAC 1 cut(s) 906
Fnu4HI GCNGC 2 cut(s) 10, 609
FokI GGATG 3 cut(s) 190, 352, 574
Fsp4HI GCNGC 2 cut(s) 10, 609
FspBI CTAG 1 cut(s) 749
GluI GCNGC 2 cut(s) 10, 609
HaeIII GGCC 1 cut(s) 696
HgaI GACGC 1 cut(s) 355
Hin1II CATG 7 cut(s) 35, 122, 251, 359, 384, 801, 870
HincII GTYRAC 1 cut(s) 907
HindII GTYRAC 1 cut(s) 907
HindIII AAGCTT 1 cut(s) 699
HinfI GANTC 2 cut(s) 23, 739
HphI GGTGA 2 cut(s) 609, 932
Hpy166II GTNNAC 3 cut(s) 304, 907, 923
Hpy188I TCNGA 2 cut(s) 114, 886
Hpy188III TCNNGA 2 cut(s) 248, 504
Hpy8I GTNNAC 3 cut(s) 304, 907, 923
HpyAV CCTTC 3 cut(s) 401, 647, 765
HpyCH4III ACNGT 2 cut(s) 293, 572
HpyCH4V TGCA 8 cut(s) 29, 35, 420, 542, 587, 611, 640, 870
HpyF3I CTNAG 1 cut(s) 240
Hsp92II CATG 7 cut(s) 35, 122, 251, 359, 384, 801, 870
Kzo9I GATC 1 cut(s) 751
LmnI GCTCC 1 cut(s) 664
LpnPI CCDG 3 cut(s) 406, 633, 793
Lsp1109I GCAGC 2 cut(s) 21, 595
LweI GCATC 3 cut(s) 168, 330, 596
MaeI CTAG 1 cut(s) 749
MaeIII GTNAC 3 cut(s) 82, 376, 438
MalI GATC 1 cut(s) 753
MboI GATC 1 cut(s) 751
MboII GAAGA 7 cut(s) 31, 134, 146, 296, 498, 746, 778
MflI RGATCY 1 cut(s) 751
MlsI TGGCCA 1 cut(s) 696
MluI ACGCGT 1 cut(s) 86
MluNI TGGCCA 1 cut(s) 696
MnlI CCTC 3 cut(s) 181, 598, 616
Mox20I TGGCCA 1 cut(s) 696
Mph1103I ATGCAT 1 cut(s) 37
MroXI GAANNNNTTC 3 cut(s) 411, 477, 743
MscI TGGCCA 1 cut(s) 696
MseI TTAA 3 cut(s) 554, 596, 672
MslI CAYNNNNRTG 1 cut(s) 71
Msp20I TGGCCA 1 cut(s) 696
Mva1269I GAATGC 1 cut(s) 35
MvnI CGCG 1 cut(s) 88
NdeII GATC 1 cut(s) 751
NlaIII CATG 7 cut(s) 35, 122, 251, 359, 384, 801, 870
NlaIV GGNNCC 1 cut(s) 628
NmuCI GTSAC 2 cut(s) 82, 376
NsiI ATGCAT 1 cut(s) 37
NspI RCATGY 3 cut(s) 35, 384, 870
PagI TCATGA 1 cut(s) 247
PciI ACATGT 1 cut(s) 380
PctI GAATGC 1 cut(s) 35
PdmI GAANNNNTTC 3 cut(s) 411, 477, 743
PfeI GAWTC 2 cut(s) 23, 739
PkrI GCNGC 2 cut(s) 11, 610
PscI ACATGT 1 cut(s) 380
PshBI ATTAAT 1 cut(s) 554
PspN4I GGNNCC 1 cut(s) 628
PspPI GGNCC 2 cut(s) 190, 627
PsuI RGATCY 1 cut(s) 751
RsaI GTAC 3 cut(s) 221, 354, 847
RsaNI GTAC 3 cut(s) 220, 353, 846
RseI CAYNNNNRTG 1 cut(s) 71
SalI GTCGAC 1 cut(s) 905
SaqAI TTAA 3 cut(s) 554, 596, 672
SatI GCNGC 2 cut(s) 10, 609
Sau3AI GATC 1 cut(s) 751
Sau96I GGNCC 2 cut(s) 190, 627
ScaI AGTACT 2 cut(s) 221, 847
SfaNI GCATC 3 cut(s) 168, 330, 596
SinI GGWCC 2 cut(s) 190, 627
SmiMI CAYNNNNRTG 1 cut(s) 71
SmlI CTYRAG 1 cut(s) 759
SmoI CTYRAG 1 cut(s) 759
SsiI CCGC 2 cut(s) 101, 343
SspI AATATT 1 cut(s) 685
SspMI CTAG 1 cut(s) 749
TaaI ACNGT 2 cut(s) 293, 572
TaqI TCGA 1 cut(s) 906
TaqII GACCGA 1 cut(s) 644
TatI WGTACW 3 cut(s) 219, 352, 845
TfiI GAWTC 2 cut(s) 23, 739
Tru1I TTAA 3 cut(s) 554, 596, 672
Tru9I TTAA 3 cut(s) 554, 596, 672
TseFI GTSAC 2 cut(s) 82, 376
TseI GCWGC 2 cut(s) 9, 608
Tsp45I GTSAC 2 cut(s) 82, 376
TspDTI ATGAA 3 cut(s) 135, 236, 540
VpaK11BI GGWCC 2 cut(s) 190, 627
VspI ATTAAT 1 cut(s) 554
XapI RAATTY 2 cut(s) 401, 507
XceI RCATGY 3 cut(s) 35, 384, 870
XmiI GTMKAC 1 cut(s) 906
XmnI GAANNNNTTC 3 cut(s) 411, 477, 743
XspI CTAG 1 cut(s) 749
ZrmI AGTACT 2 cut(s) 221, 847
Zsp2I ATGCAT 1 cut(s) 37
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.