Rorug06G0270400

PHD-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0004222
Physical Location & Seq
Reverse (-)
41732304 .. 41734736
2433 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0270400.1

Sequence Viewer

Length: 1065 bp
ATGTCTGACATTAATACCTGTGATGTTTGCAACAAGAAGTCTGTAAGTATTCACAACGCCATTACGCCGGCAACCTCCACCTCCTTATTCGCCGTCATCTCTCTCACTCCACTGTCGTTCGTCGAGTGGGAGGACTGCCGGCTGGACTGGTGCGTCGACCATTCTGGGATCAAAGATGCTGTCAGGAACATTACTCCGATGAAAGCTGGAGAAACAGAATATTTGAACCTTGGTGATGGACGATATCTTTGCTCATATTGCTCTTCTATAGCGGTCTTGAATCGAGAGGAATGCAATGCCATTATTGAAAATGTGTTCAAGTTCTGCAGAAGTTTAAATCTCAGAATAGACAAAAGCATTCATATTCTATTCGCCGACAAGAATGAGATGCGCAGAATTAATACATGTAAAGAAGATGCTGATGGTTTATATTTCTCAAGAGGTTATAAGAACCTGTCTATTTTAACTATTGAATATTTGAAAACTAAAGGAAATATTGAAGTGTTGACGAAAGTCCCAAAGCTCTTAGAAGGAGTCACAATTGTAGTTTTGTTCGGAAAACCAAATGTGGAAATCGGTGGGATCTTGGCACATGAGATGATGCATGCATGGTTACGCCTTCGAGGTAAGCCATGGGAATGGGAAAGAAGAGTTGAAGAAGGCATTTGCGAAGTAATGTATTACAAGTGGTTGAAATGGTTTTGTTCTAGTACTGGATTTCATTCTTCTTACAAAACCAAAGATCATGCTCAATACACAAGAAAGTTGATAAAGTACTTGGCACAAGGGATTGAGACGCGGGAAGACGAAGTTTATGGCCAAGGGTTCAGAGATGCTATGCTAACGGTTACAAAATTAGGCTTCAAAACTACACTGAACTATACCCTTAAAAATGGAACTCTTCCTGTAGCTCCACCGAAAACCGAGCTATTGTGGAAGGCCACCACTAGTGGTGCTACATTGTTATTGAAGGCCACTGCCACCACCATAACTGATTTATTATGGAAGTCCACCGGCCGCTGTTATGGAAGGCCATCGCCACCACAACTAGGGCCAAAGCCATAA
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
Jas PHD_2 SET zf-HC5HC2H_2

Protein Analysis

354

Amino Acids

40.13

Weight (kDa)

8.86

Isoelectric Point (pI)

36.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DA1-like PF12315 112 - 293 2.1e-32 Protein DA1
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 447
AasI GACNNNNNNGTC 1 cut(s) 152
Acc16I TGCGCA 1 cut(s) 392
AccI GTMKAC 1 cut(s) 156
AccII CGCG 1 cut(s) 799
AciI CCGC 3 cut(s) 272, 799, 1018
AclWI GGATC 2 cut(s) 176, 590
AcoI YGGCCR 2 cut(s) 817, 1015
AfaI GTAC 2 cut(s) 712, 776
AfiI CCNNNNNNNGG 1 cut(s) 1049
AflIII ACRYGT 1 cut(s) 404
AhlI ACTAGT 1 cut(s) 947
AluBI AGCT 4 cut(s) 206, 523, 911, 928
AluI AGCT 4 cut(s) 206, 523, 911, 928
Alw26I GTCTC 1 cut(s) 788
AlwI GGATC 2 cut(s) 176, 590
AoxI GGCC 6 cut(s) 817, 939, 972, 1015, 1031, 1052
ArsI GACNNNNNNTTYG 4 cut(s) 165, 197, 231, 263
AseI ATTAAT 2 cut(s) 12, 399
AspLEI GCGC 1 cut(s) 393
AspS9I GGNCC 1 cut(s) 1052
AsuHPI GGTGA 1 cut(s) 245
BalI TGGCCA 1 cut(s) 819
BbsI GAAGAC 1 cut(s) 810
BccI CCATC 3 cut(s) 230, 416, 1042
BceAI ACGGC 1 cut(s) 77
BcgI CGANNNNNNTGC 4 cut(s) 231, 265, 273, 307
BcoDI GTCTC 1 cut(s) 788
BcuI ACTAGT 1 cut(s) 947
BfaI CTAG 3 cut(s) 708, 948, 1049
BfmI CTRYAG 3 cut(s) 267, 325, 906
BisI GCNGC 1 cut(s) 1018
BlsI GCNGC 1 cut(s) 1019
BmcAI AGTACT 2 cut(s) 712, 776
BmgT120I GGNCC 1 cut(s) 1052
BmsI GCATC 5 cut(s) 166, 378, 406, 591, 823
BoxI GACNNNNGTC 1 cut(s) 512
BpiI GAAGAC 1 cut(s) 810
BpmI CTGGAG 1 cut(s) 228
BpuEI CTTGAG 1 cut(s) 421
BsaJI CCNNGG 3 cut(s) 229, 632, 820
Bsc4I CCNNNNNNNGG 1 cut(s) 1049
Bse118I RCCGGY 3 cut(s) 67, 138, 1013
Bse1I ACTGG 2 cut(s) 152, 718
Bse3DI GCAATG 1 cut(s) 301
BseDI CCNNGG 3 cut(s) 229, 632, 820
BseLI CCNNNNNNNGG 1 cut(s) 1049
BseMI GCAATG 1 cut(s) 301
BseMII CTCAG 1 cut(s) 355
BseNI ACTGG 2 cut(s) 152, 718
BseX3I CGGCCG 1 cut(s) 1015
Bsh1236I CGCG 1 cut(s) 799
Bsh1285I CGRYCG 1 cut(s) 1018
BshFI GGCC 6 cut(s) 819, 941, 974, 1017, 1033, 1054
BsiEI CGRYCG 1 cut(s) 1018
BsiSI CCGG 3 cut(s) 68, 139, 1014
BslFI GGGAC 1 cut(s) 500
BslI CCNNNNNNNGG 1 cut(s) 1049
BsmAI GTCTC 1 cut(s) 788
BsmBI CGTCTC 1 cut(s) 788
BsmFI GGGAC 1 cut(s) 500
BsmI GAATGC 2 cut(s) 296, 357
BsnI GGCC 6 cut(s) 819, 941, 974, 1017, 1033, 1054
Bsp143I GATC 3 cut(s) 168, 582, 742
Bsp19I CCATGG 1 cut(s) 632
BspACI CCGC 3 cut(s) 272, 799, 1018
BspANI GGCC 6 cut(s) 819, 941, 974, 1017, 1033, 1054
BspCNI CTCAG 1 cut(s) 354
BspFNI CGCG 1 cut(s) 799
BspMAI CTGCAG 1 cut(s) 329
BspPI GGATC 2 cut(s) 176, 590
BspQI GCTCTTC 1 cut(s) 268
BsrDI GCAATG 1 cut(s) 301
BsrFI RCCGGY 3 cut(s) 67, 138, 1013
BsrI ACTGG 2 cut(s) 152, 718
BssAI RCCGGY 3 cut(s) 67, 138, 1013
BssECI CCNNGG 3 cut(s) 229, 632, 820
BssMI GATC 3 cut(s) 168, 582, 742
BssT1I CCWWGG 3 cut(s) 229, 632, 820
Bst4CI ACNGT 2 cut(s) 114, 847
Bst6I CTCTTC 3 cut(s) 268, 643, 906
BstC8I GCNNGC 3 cut(s) 69, 140, 606
BstDEI CTNAG 2 cut(s) 341, 526
BstDSI CCRYGG 1 cut(s) 632
BstFNI CGCG 1 cut(s) 799
BstHHI GCGC 1 cut(s) 393
BstKTI GATC 3 cut(s) 171, 585, 745
BstMAI GTCTC 1 cut(s) 788
BstMBI GATC 3 cut(s) 168, 582, 742
BstMCI CGRYCG 1 cut(s) 1018
BstMWI GCNNNNNNNGC 1 cut(s) 258
BstNSI RCATGY 2 cut(s) 408, 608
BstPAI GACNNNNGTC 1 cut(s) 512
BstSFI CTRYAG 3 cut(s) 267, 325, 906
BstUI CGCG 1 cut(s) 799
BstV2I GAAGAC 1 cut(s) 810
BstX2I RGATCY 1 cut(s) 582
BstXI CCANNNNNNTGG 1 cut(s) 639
BstYI RGATCY 1 cut(s) 582
BstZI CGGCCG 1 cut(s) 1015
BsuRI GGCC 6 cut(s) 819, 941, 974, 1017, 1033, 1054
BtgI CCRYGG 1 cut(s) 632
BtgZI GCGATG 1 cut(s) 1020
BtsI GCAGTG 1 cut(s) 975
BtsIMutI CAGTG 3 cut(s) 110, 872, 975
Cac8I GCNNGC 3 cut(s) 69, 140, 606
CfoI GCGC 1 cut(s) 393
Cfr10I RCCGGY 3 cut(s) 67, 138, 1013
Cfr13I GGNCC 1 cut(s) 1052
CseI GACGC 2 cut(s) 142, 805
Csp6I GTAC 2 cut(s) 711, 775
CviAII CATG 6 cut(s) 405, 593, 605, 609, 633, 746
CviQI GTAC 2 cut(s) 711, 775
DdeI CTNAG 2 cut(s) 341, 526
DpnI GATC 3 cut(s) 170, 584, 744
DpnII GATC 3 cut(s) 168, 582, 742
DraI TTTAAA 1 cut(s) 336
DrdI GACNNNNNNGTC 1 cut(s) 152
DseDI GACNNNNNNGTC 1 cut(s) 152
EaeI YGGCCR 2 cut(s) 817, 1015
EagI CGGCCG 1 cut(s) 1015
Eam1104I CTCTTC 3 cut(s) 268, 643, 906
EarI CTCTTC 3 cut(s) 268, 643, 906
EclXI CGGCCG 1 cut(s) 1015
Eco130I CCWWGG 3 cut(s) 229, 632, 820
Eco32I GATATC 1 cut(s) 245
Eco52I CGGCCG 1 cut(s) 1015
EcoRV GATATC 1 cut(s) 245
EcoT14I CCWWGG 3 cut(s) 229, 632, 820
EcoT22I ATGCAT 2 cut(s) 606, 610
ErhI CCWWGG 3 cut(s) 229, 632, 820
Esp3I CGTCTC 1 cut(s) 788
FaeI CATG 6 cut(s) 408, 596, 608, 612, 636, 749
FaqI GGGAC 1 cut(s) 500
FatI CATG 6 cut(s) 404, 592, 604, 608, 632, 745
FauI CCCGC 1 cut(s) 792
FblI GTMKAC 1 cut(s) 156
Fnu4HI GCNGC 1 cut(s) 1018
Fsp4HI GCNGC 1 cut(s) 1018
FspBI CTAG 3 cut(s) 708, 948, 1049
FspI TGCGCA 1 cut(s) 392
GlaI GCGC 1 cut(s) 392
GluI GCNGC 1 cut(s) 1018
GsuI CTGGAG 1 cut(s) 228
HaeIII GGCC 6 cut(s) 819, 941, 974, 1017, 1033, 1054
HapII CCGG 3 cut(s) 68, 139, 1014
HgaI GACGC 2 cut(s) 142, 805
HhaI GCGC 1 cut(s) 393
Hin1II CATG 6 cut(s) 408, 596, 608, 612, 636, 749
Hin6I GCGC 1 cut(s) 391
HinP1I GCGC 1 cut(s) 391
HincII GTYRAC 2 cut(s) 157, 507
HindII GTYRAC 2 cut(s) 157, 507
HinfI GANTC 2 cut(s) 280, 534
HpaII CCGG 3 cut(s) 68, 139, 1014
HphI GGTGA 1 cut(s) 245
Hpy166II GTNNAC 3 cut(s) 157, 507, 1011
Hpy188I TCNGA 5 cut(s) 7, 198, 344, 557, 830
Hpy188III TCNNGA 4 cut(s) 184, 277, 284, 438
Hpy8I GTNNAC 3 cut(s) 157, 507, 1011
Hpy99I CGWCG 2 cut(s) 125, 158
HpyAV CCTTC 6 cut(s) 524, 629, 653, 931, 964, 1023
HpyCH4III ACNGT 2 cut(s) 114, 847
HpyCH4V TGCA 5 cut(s) 30, 294, 327, 604, 608
HpyF10VI GCNNNNNNNGC 1 cut(s) 258
HpyF3I CTNAG 2 cut(s) 341, 526
Hsp92II CATG 6 cut(s) 408, 596, 608, 612, 636, 749
HspAI GCGC 1 cut(s) 391
KroI GCCGGC 2 cut(s) 67, 138
KroNI GCCGGC 2 cut(s) 69, 140
Kzo9I GATC 3 cut(s) 168, 582, 742
LguI GCTCTTC 1 cut(s) 268
LmnI GCTCC 1 cut(s) 916
LweI GCATC 5 cut(s) 166, 378, 406, 591, 823
MaeI CTAG 3 cut(s) 708, 948, 1049
MaeIII GTNAC 3 cut(s) 535, 612, 847
MalI GATC 3 cut(s) 170, 584, 744
MboI GATC 3 cut(s) 168, 582, 742
MboII GAAGA 7 cut(s) 255, 425, 660, 668, 717, 815, 893
MfeI CAATTG 1 cut(s) 540
MflI RGATCY 1 cut(s) 582
MlsI TGGCCA 1 cut(s) 819
MluCI AATT 3 cut(s) 396, 540, 854
MluNI TGGCCA 1 cut(s) 819
MlyI GAGTC 1 cut(s) 543
MnlI CCTC 6 cut(s) 85, 91, 124, 280, 434, 617
Mox20I TGGCCA 1 cut(s) 819
Mph1103I ATGCAT 2 cut(s) 606, 610
MroNI GCCGGC 2 cut(s) 67, 138
MscI TGGCCA 1 cut(s) 819
MseI TTAA 5 cut(s) 12, 335, 399, 464, 888
MslI CAYNNNNRTG 1 cut(s) 637
Msp20I TGGCCA 1 cut(s) 819
MspA1I CMGCKG 1 cut(s) 1020
MspI CCGG 3 cut(s) 68, 139, 1014
MunI CAATTG 1 cut(s) 540
Mva1269I GAATGC 2 cut(s) 296, 357
MvnI CGCG 1 cut(s) 799
MwoI GCNNNNNNNGC 1 cut(s) 258
NaeI GCCGGC 2 cut(s) 69, 140
NcoI CCATGG 1 cut(s) 632
NdeII GATC 3 cut(s) 168, 582, 742
NgoMIV GCCGGC 2 cut(s) 67, 138
NlaIII CATG 6 cut(s) 408, 596, 608, 612, 636, 749
NmuCI GTSAC 1 cut(s) 535
NsbI TGCGCA 1 cut(s) 392
NsiI ATGCAT 2 cut(s) 606, 610
NspI RCATGY 2 cut(s) 408, 608
PaeI GCATGC 1 cut(s) 608
PciI ACATGT 1 cut(s) 404
PciSI GCTCTTC 1 cut(s) 268
PctI GAATGC 2 cut(s) 296, 357
PdiI GCCGGC 2 cut(s) 69, 140
PfeI GAWTC 1 cut(s) 280
PkrI GCNGC 1 cut(s) 1019
PleI GAGTC 1 cut(s) 542
PpsI GAGTC 1 cut(s) 542
PscI ACATGT 1 cut(s) 404
PshAI GACNNNNGTC 1 cut(s) 512
PshBI ATTAAT 2 cut(s) 12, 399
PsiI TTATAA 1 cut(s) 447
PspPI GGNCC 1 cut(s) 1052
PstI CTGCAG 1 cut(s) 329
PsuI RGATCY 1 cut(s) 582
RsaI GTAC 2 cut(s) 712, 776
RsaNI GTAC 2 cut(s) 711, 775
RseI CAYNNNNRTG 1 cut(s) 637
SalI GTCGAC 1 cut(s) 155
SapI GCTCTTC 1 cut(s) 268
SaqAI TTAA 5 cut(s) 12, 335, 399, 464, 888
SatI GCNGC 1 cut(s) 1018
Sau3AI GATC 3 cut(s) 168, 582, 742
Sau96I GGNCC 1 cut(s) 1052
ScaI AGTACT 2 cut(s) 712, 776
SchI GAGTC 1 cut(s) 543
SfaNI GCATC 5 cut(s) 166, 378, 406, 591, 823
SfcI CTRYAG 3 cut(s) 267, 325, 906
SmiMI CAYNNNNRTG 1 cut(s) 637
SmlI CTYRAG 1 cut(s) 436
SmoI CTYRAG 1 cut(s) 436
SpeI ACTAGT 1 cut(s) 947
SphI GCATGC 1 cut(s) 608
Sse9I AATT 3 cut(s) 396, 540, 854
SsiI CCGC 3 cut(s) 272, 799, 1018
SspI AATATT 3 cut(s) 221, 476, 496
SspMI CTAG 3 cut(s) 708, 948, 1049
StyI CCWWGG 3 cut(s) 229, 632, 820
TaaI ACNGT 2 cut(s) 114, 847
TaqI TCGA 4 cut(s) 123, 156, 283, 622
TasI AATT 3 cut(s) 396, 540, 854
TatI WGTACW 2 cut(s) 710, 774
TauI GCSGC 1 cut(s) 1020
TfiI GAWTC 1 cut(s) 280
Tru1I TTAA 5 cut(s) 12, 335, 399, 464, 888
Tru9I TTAA 5 cut(s) 12, 335, 399, 464, 888
TscAI CASTG 3 cut(s) 117, 879, 982
TseFI GTSAC 1 cut(s) 535
Tsp45I GTSAC 1 cut(s) 535
TspDTI ATGAA 3 cut(s) 215, 350, 710
TspRI CASTG 3 cut(s) 117, 879, 982
VspI ATTAAT 2 cut(s) 12, 399
XceI RCATGY 2 cut(s) 408, 608
XmiI GTMKAC 1 cut(s) 156
XspI CTAG 3 cut(s) 708, 948, 1049
ZrmI AGTACT 2 cut(s) 712, 776
Zsp2I ATGCAT 2 cut(s) 606, 610
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.