Rorug06G0267500

PHD-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0006788
Physical Location & Seq
Forward (+)
41405721 .. 41407875
2155 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0267500.1

Sequence Viewer

Length: 954 bp
ATGTTTATTCATATTTGTTTGTGTTCTCAGGGATGGATTCTGAAGATAATAGTCTTATATATAAGTGATAGAAAAAAGAGAGAAAGACGTGTATGGACAGATGAGCAGGAAGATACTCTTCTAAACATCCTAGAAGAACTAGTTGCAAATGGTCATGCTCGTAAAAATGGCACATTCAAATCTGGTACATCAATTATGATTGAGAATGCTTTACTAGATAAATTTCCCAATTCTGCACTAAAGTATAGTCCACATGTTGAGTCAAAGATTAAGGACTTTAAGAAAAAATATGTTGTGGTATATGACATGCTCCAAAAAAGTGGATTTGGATGGAATGATGTGAGGAAGTGCGTTGAGGTTGACAATGATGAGGCATGGTATGCATATGTCAAGCATCACAAGGATGCTGATGGATGGAGGGGCAAACCATTCCCACGTTATGAAACATTTGCTCATATATTTGGAGTGGACTGTGCTATTGGAAAGGCTGCCAAAGTACATGCTGCAATAGTAGAGGAAGTTAATGAAGAGCTTGAAAACCAAGAGCATGCTGATGCATTTGATTCGAAGGTAGAAGCAGACCAACTATCCACTGCTAAATCTGAGTCCACTTTTAAATCCGAGTCTACAATCACGAGTAGGAGGAGGAAAAGAGAGAATGATGATAACATAGTTCGTGGCTTAGACAAGTTTGCTGCAACATTCAAAGAAGTGATGCAGACTTCAAATGAGCAGATCCGCCTTCTTGTTGAATACTTGCAGCCAAAAGGTAGCAAAAAAGATGAGGTACGAGCTAAAAAAGATGAATTGTGGGCTGAGCTCTTAAAGTTAAACCTTTCAACAACAAATCGAATCAAAGCATTGAAAATTCTAGTGGCTGATTCTGCTGAGCTTTTCTTGGCTCTAGATAAAGAGGAAGAAAAGATGGAGTTCATCACACAGCTGCTTCTTTAG
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
PHD

Protein Analysis

317

Amino Acids

36.58

Weight (kDa)

6.49

Isoelectric Point (pI)

37.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Myb_DNA-bind_3 PF12776 32 - 129 2.2e-11 Myb/SANT-like DNA-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 626
AciI CCGC 1 cut(s) 739
AclWI GGATC 1 cut(s) 730
AcsI RAATTY 2 cut(s) 221, 867
AcuI CTGAAG 1 cut(s) 62
AfaI GTAC 3 cut(s) 187, 498, 789
AflIII ACRYGT 2 cut(s) 88, 253
AgsI TTSAA 7 cut(s) 178, 536, 706, 726, 752, 840, 865
AhlI ACTAGT 1 cut(s) 139
AjiI CACGTC 1 cut(s) 89
AluBI AGCT 5 cut(s) 532, 794, 820, 892, 943
AluI AGCT 5 cut(s) 532, 794, 820, 892, 943
Alw21I GWGCWC 1 cut(s) 822
AlwI GGATC 1 cut(s) 730
ApeKI GCWGC 5 cut(s) 488, 503, 695, 760, 943
ApoI RAATTY 2 cut(s) 221, 867
AsuII TTCGAA 1 cut(s) 566
BanII GRGCYC 1 cut(s) 822
BauI CACGAG 1 cut(s) 634
Bbv12I GWGCWC 1 cut(s) 822
BbvI GCAGC 5 cut(s) 475, 490, 682, 772, 930
BccI CCATC 5 cut(s) 27, 324, 404, 408, 919
BcgI CGANNNNNNTGC 2 cut(s) 546, 580
BcuI ACTAGT 1 cut(s) 139
BfaI CTAG 5 cut(s) 131, 140, 215, 872, 905
BisI GCNGC 5 cut(s) 489, 504, 696, 761, 944
BlpI GCTNAGC 2 cut(s) 816, 888
BlsI GCNGC 5 cut(s) 490, 505, 697, 762, 945
BmgBI CACGTC 1 cut(s) 89
BmsI GCATC 4 cut(s) 394, 403, 544, 705
Bpu1102I GCTNAGC 2 cut(s) 816, 888
Bpu14I TTCGAA 1 cut(s) 566
BseGI GGATG 5 cut(s) 38, 126, 335, 409, 419
BseMII CTCAG 4 cut(s) 41, 594, 807, 879
BseRI GAGGAG 1 cut(s) 658
BseXI GCAGC 5 cut(s) 475, 490, 682, 772, 930
BsgI GTGCAG 1 cut(s) 219
BsiHKAI GWGCWC 1 cut(s) 822
BsmI GAATGC 1 cut(s) 211
Bsp119I TTCGAA 1 cut(s) 566
Bsp1286I GDGCHC 1 cut(s) 822
Bsp143I GATC 1 cut(s) 735
Bsp1720I GCTNAGC 2 cut(s) 816, 888
BspACI CCGC 1 cut(s) 739
BspCNI CTCAG 4 cut(s) 40, 595, 808, 880
BspPI GGATC 1 cut(s) 730
BspQI GCTCTTC 1 cut(s) 522
BspT104I TTCGAA 1 cut(s) 566
BssMI GATC 1 cut(s) 735
BssSI CACGAG 1 cut(s) 634
Bst2BI CACGAG 1 cut(s) 634
Bst4CI ACNGT 1 cut(s) 473
Bst6I CTCTTC 2 cut(s) 123, 522
BstAPI GCANNNNNTGC 1 cut(s) 380
BstBI TTCGAA 1 cut(s) 566
BstC8I GCNNGC 1 cut(s) 549
BstDEI CTNAG 5 cut(s) 27, 603, 682, 816, 888
BstF5I GGATG 5 cut(s) 38, 126, 335, 409, 419
BstKTI GATC 1 cut(s) 738
BstMBI GATC 1 cut(s) 735
BstMWI GCNNNNNNNGC 2 cut(s) 380, 884
BstNSI RCATGY 4 cut(s) 257, 310, 503, 551
BstV1I GCAGC 5 cut(s) 475, 490, 682, 772, 930
BstX2I RGATCY 1 cut(s) 735
BstXI CCANNNNNNTGG 1 cut(s) 320
BstYI RGATCY 1 cut(s) 735
BtrI CACGTC 1 cut(s) 89
BtsCI GGATG 5 cut(s) 38, 126, 335, 409, 419
BtsI GCAGTG 1 cut(s) 591
BtsIMutI CAGTG 1 cut(s) 591
Cac8I GCNNGC 1 cut(s) 549
Csp6I GTAC 3 cut(s) 186, 497, 788
CviAII CATG 6 cut(s) 155, 254, 307, 375, 500, 548
CviQI GTAC 3 cut(s) 186, 497, 788
DdeI CTNAG 5 cut(s) 27, 603, 682, 816, 888
DpnI GATC 1 cut(s) 737
DpnII GATC 1 cut(s) 735
DraI TTTAAA 1 cut(s) 616
Eam1104I CTCTTC 2 cut(s) 123, 522
EarI CTCTTC 2 cut(s) 123, 522
EciI GGCGGA 1 cut(s) 728
Ecl136II GAGCTC 1 cut(s) 820
Eco24I GRGCYC 1 cut(s) 822
Eco53kI GAGCTC 1 cut(s) 820
Eco57I CTGAAG 1 cut(s) 62
EcoICRI GAGCTC 1 cut(s) 820
EcoT22I ATGCAT 2 cut(s) 385, 559
EcoT38I GRGCYC 1 cut(s) 822
FaeI CATG 6 cut(s) 158, 257, 310, 378, 503, 551
FalI AAGNNNNNCTT 2 cut(s) 102, 134
FatI CATG 6 cut(s) 154, 253, 306, 374, 499, 547
FauNDI CATATG 1 cut(s) 385
FblI GTMKAC 1 cut(s) 626
Fnu4HI GCNGC 5 cut(s) 489, 504, 696, 761, 944
FokI GGATG 5 cut(s) 45, 113, 342, 416, 426
FriOI GRGCYC 1 cut(s) 822
Fsp4HI GCNGC 5 cut(s) 489, 504, 696, 761, 944
FspBI CTAG 5 cut(s) 131, 140, 215, 872, 905
GluI GCNGC 5 cut(s) 489, 504, 696, 761, 944
Hin1II CATG 6 cut(s) 158, 257, 310, 378, 503, 551
HincII GTYRAC 1 cut(s) 361
HindII GTYRAC 1 cut(s) 361
HinfI GANTC 7 cut(s) 37, 260, 563, 605, 623, 852, 881
Hpy166II GTNNAC 5 cut(s) 251, 361, 469, 609, 627
Hpy188I TCNGA 3 cut(s) 42, 604, 622
Hpy188III TCNNGA 2 cut(s) 634, 905
Hpy8I GTNNAC 5 cut(s) 251, 361, 469, 609, 627
HpyAV CCTTC 2 cut(s) 562, 752
HpyCH4III ACNGT 1 cut(s) 473
HpyCH4IV ACGT 2 cut(s) 88, 436
HpyCH4V TGCA 8 cut(s) 146, 236, 383, 506, 557, 698, 718, 760
HpyF10VI GCNNNNNNNGC 2 cut(s) 380, 884
HpyF3I CTNAG 5 cut(s) 27, 603, 682, 816, 888
HpySE526I ACGT 2 cut(s) 88, 436
Hsp92II CATG 6 cut(s) 158, 257, 310, 378, 503, 551
Kzo9I GATC 1 cut(s) 735
LguI GCTCTTC 1 cut(s) 522
LmnI GCTCC 1 cut(s) 315
LpnPI CCDG 3 cut(s) 14, 92, 168
Lsp1109I GCAGC 5 cut(s) 475, 490, 682, 772, 930
LweI GCATC 4 cut(s) 394, 403, 544, 705
MaeI CTAG 5 cut(s) 131, 140, 215, 872, 905
MaeII ACGT 2 cut(s) 88, 436
MalI GATC 1 cut(s) 737
MboI GATC 1 cut(s) 735
MboII GAAGA 6 cut(s) 55, 110, 122, 146, 539, 929
MflI RGATCY 1 cut(s) 735
MhlI GDGCHC 1 cut(s) 822
MluCI AATT 5 cut(s) 192, 221, 229, 806, 867
MlyI GAGTC 3 cut(s) 269, 614, 632
MnlI CCTC 9 cut(s) 336, 349, 364, 411, 508, 636, 639, 778, 907
Mph1103I ATGCAT 2 cut(s) 385, 559
MseI TTAA 6 cut(s) 270, 279, 522, 615, 824, 830
MslI CAYNNNNRTG 2 cut(s) 402, 552
MspA1I CMGCKG 1 cut(s) 943
Mva1269I GAATGC 1 cut(s) 211
MwoI GCNNNNNNNGC 2 cut(s) 380, 884
NdeI CATATG 1 cut(s) 385
NdeII GATC 1 cut(s) 735
NlaIII CATG 6 cut(s) 158, 257, 310, 378, 503, 551
NsiI ATGCAT 2 cut(s) 385, 559
NspI RCATGY 4 cut(s) 257, 310, 503, 551
NspV TTCGAA 1 cut(s) 566
PaeI GCATGC 1 cut(s) 551
PciI ACATGT 1 cut(s) 253
PciSI GCTCTTC 1 cut(s) 522
PctI GAATGC 1 cut(s) 211
PfeI GAWTC 4 cut(s) 37, 563, 852, 881
PkrI GCNGC 5 cut(s) 490, 505, 697, 762, 945
PleI GAGTC 3 cut(s) 268, 613, 631
PpsI GAGTC 3 cut(s) 268, 613, 631
PscI ACATGT 1 cut(s) 253
Psp124BI GAGCTC 1 cut(s) 822
PsuI RGATCY 1 cut(s) 735
PvuII CAGCTG 1 cut(s) 943
RsaI GTAC 3 cut(s) 187, 498, 789
RsaNI GTAC 3 cut(s) 186, 497, 788
RseI CAYNNNNRTG 2 cut(s) 402, 552
SacI GAGCTC 1 cut(s) 822
SapI GCTCTTC 1 cut(s) 522
SaqAI TTAA 6 cut(s) 270, 279, 522, 615, 824, 830
SatI GCNGC 5 cut(s) 489, 504, 696, 761, 944
Sau3AI GATC 1 cut(s) 735
SchI GAGTC 3 cut(s) 269, 614, 632
SduI GDGCHC 1 cut(s) 822
SfaNI GCATC 4 cut(s) 394, 403, 544, 705
SfuI TTCGAA 1 cut(s) 566
SmiMI CAYNNNNRTG 2 cut(s) 402, 552
SpeI ACTAGT 1 cut(s) 139
SphI GCATGC 1 cut(s) 551
Sse9I AATT 5 cut(s) 192, 221, 229, 806, 867
SsiI CCGC 1 cut(s) 739
SspMI CTAG 5 cut(s) 131, 140, 215, 872, 905
SstI GAGCTC 1 cut(s) 822
TaaI ACNGT 1 cut(s) 473
TaiI ACGT 2 cut(s) 91, 439
TaqI TCGA 2 cut(s) 566, 850
TasI AATT 5 cut(s) 192, 221, 229, 806, 867
TatI WGTACW 1 cut(s) 496
TfiI GAWTC 4 cut(s) 37, 563, 852, 881
Tru1I TTAA 6 cut(s) 270, 279, 522, 615, 824, 830
Tru9I TTAA 6 cut(s) 270, 279, 522, 615, 824, 830
TscAI CASTG 1 cut(s) 598
TseI GCWGC 5 cut(s) 488, 503, 695, 760, 943
TspDTI ATGAA 4 cut(s) 456, 540, 819, 922
TspRI CASTG 1 cut(s) 598
XapI RAATTY 2 cut(s) 221, 867
XbaI TCTAGA 1 cut(s) 904
XceI RCATGY 4 cut(s) 257, 310, 503, 551
XmiI GTMKAC 1 cut(s) 626
XspI CTAG 5 cut(s) 131, 140, 215, 872, 905
Zsp2I ATGCAT 2 cut(s) 385, 559
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.