RchiOBHm_Chr5g0029281

PHD-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0004804
Physical Location & Seq
Reverse (-)
22929533 .. 22931270
1738 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ30868

Sequence Viewer

Length: 984 bp
ATGGATCCCCACTTCCATGGCCTACCTCCCCTCAAAAGATTCAGACTCATGCAGCAGCAACAGAGCCAGCACCGCCCCGACGTCGTTTTGCCCATTCTTCCGGCGAAGAAGAGAAAGGAGACGAGGGAAAAACCCATTCTCCCTGGCCCAACTCCCGCCGCCTTCGCCGTCTCCACCTATTCCTTGCCGGCGAAGAAGAGGGTGTGGGCGCTTCCGCCGGATTTAGTCCCCGAGAAGCCGGTTTCGGAGTTGGATTTGAATCTTGAGTACAAGCCGGATCTCGGGGAAGAGTCCGAGGCTGCAGTGGGGAAACTTGAAGAATGCACGGAAGGTGTTTGCGAAAATGCCTCAGAGAAGAGCCCGGAAGATTCTGGCGGCGAGGAAGAGTGTGAGGATGAGGATGGGATTGTTTGTGATGTTTGTAAGAGCACAGATGGAGATCCGTCGGATCCGATTGTGTTCTGTGATGGGTGTGATCTGATGGTTCATGCCACCTGCTATGGTAATCCCCTTATAAAGGGTATTCCAGAGGGGGATTGGTTCTGCTCGCAATGCTCCGGTTCTTCTGAGGCTTCACAGTCCAATGAGTCCTTCTCTTGCTGTTTGTGTCCTGGCAAAGGTGGAGCAATGAAGCCAACTGGAGATGGCCGGTGGGCACATATTGTGTGCGCGCTTTATGTTCCTGAGGTGTTCTTTAAGGACCCAGAAGGCCGAGAGGGGATTGATTGCTCAAAGGTTCCCAAGAGGAGGTGGAAAGAGAGGTGTTATGTCTGCAAGAGTGCAAGTGGGTGTGCTATTCAGTGCTCGGAGATCAAATGCCCTTTGGCGTTCCATGTGACTTGTGGGTTGAATGAGGATCTTTGCATAGAGTACAGGGAAGGAAGGAAGGGTGATATTGTAGCTGGGTTTTGCAGAACCCACACTGATTTGTGGGAAAAGCAACAAGAATCTGGGAAGTTCAAGATTGTGGCTAGAAAAGACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0008150 GO:0009966 GO:0010646 GO:0023051 GO:0030111 GO:0048583 GO:0050789 GO:0050794 GO:0060828 GO:0065007
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PHD PHD_2 zf-HC5HC2H_2

Protein Analysis

327

Amino Acids

36.06

Weight (kDa)

5.16

Isoelectric Point (pI)

55.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD PF00628 138 - 185 9.1e-11 PHD-finger
PHD_2 PF13831 150 - 185 1.2e-09 PHD-finger
zf-HC5HC2H_2 PF13832 199 - 297 1.3e-29 PHD-zinc-finger like domain
zf-HC5HC2H PF13771 220 - 308 1.2e-17 PHD-like zinc-binding domain
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) 515
AarI CACCTGC 1 cut(s) 503
AatII GACGTC 1 cut(s) 84
Acc36I ACCTGC 1 cut(s) 503
AccII CGCG 1 cut(s) 671
AciI CCGC 5 cut(s) 73, 156, 159, 215, 375
AclWI GGATC 6 cut(s) 12, 285, 434, 443, 456, 864
AcoI YGGCCR 1 cut(s) 646
AcyI GRCGYC 1 cut(s) 81
AfaI GTAC 2 cut(s) 269, 872
AfiI CCNNNNNNNGG 4 cut(s) 281, 517, 617, 747
AgsI TTSAA 4 cut(s) 259, 317, 850, 961
AjnI CCWGG 2 cut(s) 142, 610
AjuI GAANNNNNNNTTGG 2 cut(s) 575, 607
AluBI AGCT 1 cut(s) 902
AluI AGCT 1 cut(s) 902
Alw21I GWGCWC 2 cut(s) 431, 806
Alw26I GTCTC 2 cut(s) 113, 175
AlwI GGATC 6 cut(s) 12, 285, 434, 443, 456, 864
Ama87I CYCGRG 2 cut(s) 230, 281
AoxI GGCC 4 cut(s) 19, 145, 646, 709
ApeKI GCWGC 3 cut(s) 52, 55, 299
AspLEI GCGC 3 cut(s) 211, 671, 673
AspS9I GGNCC 2 cut(s) 146, 700
AsuC2I CCSGG 1 cut(s) 362
AsuHPI GGTGA 1 cut(s) 902
AvaI CYCGRG 2 cut(s) 230, 281
AvaII GGWCC 1 cut(s) 700
AxyI CCTNAGG 1 cut(s) 684
BaeGI GKGCMC 1 cut(s) 658
BamHI GGATCC 2 cut(s) 4, 448
BanII GRGCYC 1 cut(s) 362
Bbv12I GWGCWC 2 cut(s) 431, 806
BbvI GCAGC 3 cut(s) 64, 67, 286
BccI CCATC 5 cut(s) 395, 428, 461, 475, 638
BceAI ACGGC 1 cut(s) 152
BciT130I CCWGG 2 cut(s) 144, 612
BcnI CCSGG 1 cut(s) 362
BcoDI GTCTC 2 cut(s) 113, 175
BfaI CTAG 1 cut(s) 972
BfmI CTRYAG 1 cut(s) 300
BfoI RGCGCY 1 cut(s) 212
BfuAI ACCTGC 1 cut(s) 503
BisI GCNGC 5 cut(s) 53, 56, 159, 300, 376
BlsI GCNGC 5 cut(s) 54, 57, 160, 301, 377
Bme1390I CCNGG 3 cut(s) 144, 362, 612
Bme18I GGWCC 1 cut(s) 700
BmeT110I CYCGRG 2 cut(s) 230, 281
BmgT120I GGNCC 2 cut(s) 146, 700
BmiI GGNNCC 4 cut(s) 6, 450, 702, 738
BmrFI CCNGG 3 cut(s) 144, 362, 612
BplI GAGNNNNNCTC 2 cut(s) 578, 610
BpmI CTGGAG 1 cut(s) 660
BpuEI CTTGAG 1 cut(s) 284
BpuMI CCSGG 1 cut(s) 362
BsaBI GATNNNNATC 2 cut(s) 258, 438
BsaHI GRCGYC 1 cut(s) 81
BsaJI CCNNGG 3 cut(s) 16, 142, 294
BsaWI WCCGGW 1 cut(s) 557
BsaXI ACNNNNNCTCC 2 cut(s) 123, 153
Bsc4I CCNNNNNNNGG 4 cut(s) 281, 517, 617, 747
Bse118I RCCGGY 3 cut(s) 187, 238, 648
Bse1I ACTGG 1 cut(s) 643
Bse21I CCTNAGG 1 cut(s) 684
Bse3DI GCAATG 2 cut(s) 557, 633
Bse8I GATNNNNATC 2 cut(s) 258, 438
BseBI CCWGG 2 cut(s) 144, 612
BseDI CCNNGG 3 cut(s) 16, 142, 294
BseGI GGATG 2 cut(s) 400, 406
BseJI GATNNNNATC 2 cut(s) 258, 438
BseLI CCNNNNNNNGG 4 cut(s) 281, 517, 617, 747
BseMI GCAATG 2 cut(s) 557, 633
BseMII CTCAG 3 cut(s) 363, 558, 675
BseNI ACTGG 1 cut(s) 643
BsePI GCGCGC 1 cut(s) 669
BseRI GAGGAG 1 cut(s) 760
BseSI GKGCMC 1 cut(s) 658
BseXI GCAGC 3 cut(s) 64, 67, 286
BseYI CCCAGC 1 cut(s) 902
Bsh1236I CGCG 1 cut(s) 671
BshFI GGCC 4 cut(s) 21, 147, 648, 711
BsiHKAI GWGCWC 2 cut(s) 431, 806
BsiHKCI CYCGRG 2 cut(s) 230, 281
BsiSI CCGG 8 cut(s) 101, 188, 218, 239, 275, 362, 558, 649
BslFI GGGAC 1 cut(s) 212
BslI CCNNNNNNNGG 4 cut(s) 281, 517, 617, 747
BsmAI GTCTC 2 cut(s) 113, 175
BsmBI CGTCTC 2 cut(s) 113, 175
BsmFI GGGAC 1 cut(s) 212
BsmI GAATGC 1 cut(s) 326
BsnI GGCC 4 cut(s) 21, 147, 648, 711
BsoBI CYCGRG 2 cut(s) 230, 281
Bsp1286I GDGCHC 4 cut(s) 362, 431, 658, 806
Bsp143I GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
Bsp19I CCATGG 1 cut(s) 16
BspACI CCGC 5 cut(s) 73, 156, 159, 215, 375
BspANI GGCC 4 cut(s) 21, 147, 648, 711
BspCNI CTCAG 3 cut(s) 362, 559, 676
BspFNI CGCG 1 cut(s) 671
BspLI GGNNCC 4 cut(s) 6, 450, 702, 738
BspMAI CTGCAG 1 cut(s) 304
BspMI ACCTGC 1 cut(s) 503
BspPI GGATC 6 cut(s) 12, 285, 434, 443, 456, 864
BspQI GCTCTTC 1 cut(s) 350
BsrDI GCAATG 2 cut(s) 557, 633
BsrFI RCCGGY 3 cut(s) 187, 238, 648
BsrI ACTGG 1 cut(s) 643
BssAI RCCGGY 3 cut(s) 187, 238, 648
BssECI CCNNGG 3 cut(s) 16, 142, 294
BssHII GCGCGC 1 cut(s) 669
BssMI GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
BssNI GRCGYC 1 cut(s) 81
BssT1I CCWWGG 1 cut(s) 16
Bst2UI CCWGG 2 cut(s) 144, 612
Bst4CI ACNGT 1 cut(s) 579
Bst6I CTCTTC 5 cut(s) 104, 191, 282, 350, 378
BstACI GRCGYC 1 cut(s) 81
BstC8I GCNNGC 4 cut(s) 68, 189, 548, 671
BstDEI CTNAG 3 cut(s) 349, 567, 684
BstDSI CCRYGG 1 cut(s) 16
BstENI CCTNNNNNAGG 2 cut(s) 515, 615
BstF5I GGATG 2 cut(s) 400, 406
BstFNI CGCG 1 cut(s) 671
BstH2I RGCGCY 1 cut(s) 212
BstHHI GCGC 3 cut(s) 211, 671, 673
BstKTI GATC 7 cut(s) 7, 280, 442, 451, 478, 813, 859
BstMAI GTCTC 2 cut(s) 113, 175
BstMBI GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
BstMWI GCNNNNNNNGC 3 cut(s) 72, 164, 552
BstNI CCWGG 2 cut(s) 144, 612
BstSCI CCNGG 3 cut(s) 142, 360, 610
BstSFI CTRYAG 1 cut(s) 300
BstSLI GKGCMC 1 cut(s) 658
BstUI CGCG 1 cut(s) 671
BstV1I GCAGC 3 cut(s) 64, 67, 286
BstX2I RGATCY 5 cut(s) 4, 277, 439, 448, 856
BstXI CCANNNNNNTGG 1 cut(s) 17
BstYI RGATCY 5 cut(s) 4, 277, 439, 448, 856
Bsu36I CCTNAGG 1 cut(s) 684
BsuRI GGCC 4 cut(s) 21, 147, 648, 711
BtgI CCRYGG 1 cut(s) 16
BtsCI GGATG 2 cut(s) 400, 406
BtsI GCAGTG 1 cut(s) 309
BtsIMutI CAGTG 3 cut(s) 309, 806, 921
BveI ACCTGC 1 cut(s) 503
Cac8I GCNNGC 4 cut(s) 68, 189, 548, 671
CfoI GCGC 3 cut(s) 211, 671, 673
Cfr10I RCCGGY 3 cut(s) 187, 238, 648
Cfr13I GGNCC 2 cut(s) 146, 700
Csp6I GTAC 2 cut(s) 268, 871
CviAII CATG 4 cut(s) 17, 49, 488, 833
CviQI GTAC 2 cut(s) 268, 871
DdeI CTNAG 3 cut(s) 349, 567, 684
DpnI GATC 7 cut(s) 6, 279, 441, 450, 477, 812, 858
DpnII GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
EaeI YGGCCR 1 cut(s) 646
Eam1104I CTCTTC 5 cut(s) 104, 191, 282, 350, 378
EarI CTCTTC 5 cut(s) 104, 191, 282, 350, 378
EciI GGCGGA 1 cut(s) 204
Eco130I CCWWGG 1 cut(s) 16
Eco24I GRGCYC 1 cut(s) 362
Eco47I GGWCC 1 cut(s) 700
Eco81I CCTNAGG 1 cut(s) 684
Eco88I CYCGRG 2 cut(s) 230, 281
EcoNI CCTNNNNNAGG 2 cut(s) 515, 615
EcoO109I RGGNCCY 1 cut(s) 700
EcoRII CCWGG 2 cut(s) 142, 610
EcoT14I CCWWGG 1 cut(s) 16
EcoT38I GRGCYC 1 cut(s) 362
ErhI CCWWGG 1 cut(s) 16
Esp3I CGTCTC 2 cut(s) 113, 175
FaeI CATG 4 cut(s) 20, 52, 491, 836
FaqI GGGAC 1 cut(s) 212
FatI CATG 4 cut(s) 16, 48, 487, 832
FauI CCCGC 1 cut(s) 163
Fnu4HI GCNGC 5 cut(s) 53, 56, 159, 300, 376
FokI GGATG 2 cut(s) 407, 413
FriOI GRGCYC 1 cut(s) 362
Fsp4HI GCNGC 5 cut(s) 53, 56, 159, 300, 376
FspBI CTAG 1 cut(s) 972
GlaI GCGC 3 cut(s) 210, 670, 672
GluI GCNGC 5 cut(s) 53, 56, 159, 300, 376
GsaI CCCAGC 1 cut(s) 906
GsuI CTGGAG 1 cut(s) 660
HaeII RGCGCY 1 cut(s) 212
HaeIII GGCC 4 cut(s) 21, 147, 648, 711
HapII CCGG 8 cut(s) 101, 188, 218, 239, 275, 362, 558, 649
HhaI GCGC 3 cut(s) 211, 671, 673
Hin1I GRCGYC 1 cut(s) 81
Hin1II CATG 4 cut(s) 20, 52, 491, 836
Hin6I GCGC 3 cut(s) 209, 669, 671
HinP1I GCGC 3 cut(s) 209, 669, 671
HinfI GANTC 7 cut(s) 39, 45, 259, 290, 368, 587, 947
HpaII CCGG 8 cut(s) 101, 188, 218, 239, 275, 362, 558, 649
HphI GGTGA 1 cut(s) 902
Hpy188I TCNGA 9 cut(s) 44, 247, 295, 352, 448, 453, 480, 568, 808
Hpy188III TCNNGA 4 cut(s) 263, 527, 683, 961
Hpy99I CGWCG 3 cut(s) 83, 86, 448
HpyAV CCTTC 7 cut(s) 172, 323, 601, 701, 872, 876, 880
HpyCH4III ACNGT 1 cut(s) 579
HpyCH4IV ACGT 1 cut(s) 81
HpyCH4V TGCA 7 cut(s) 52, 302, 324, 774, 782, 864, 912
HpyF10VI GCNNNNNNNGC 3 cut(s) 72, 164, 552
HpyF3I CTNAG 3 cut(s) 349, 567, 684
HpySE526I ACGT 1 cut(s) 81
Hsp92I GRCGYC 1 cut(s) 81
Hsp92II CATG 4 cut(s) 20, 52, 491, 836
HspAI GCGC 3 cut(s) 209, 669, 671
KroI GCCGGC 1 cut(s) 187
KroNI GCCGGC 1 cut(s) 189
Kzo9I GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
LguI GCTCTTC 1 cut(s) 350
LmnI GCTCC 2 cut(s) 560, 623
Lsp1109I GCAGC 3 cut(s) 64, 67, 286
MaeI CTAG 1 cut(s) 972
MaeII ACGT 1 cut(s) 81
MaeIII GTNAC 1 cut(s) 835
MalI GATC 7 cut(s) 6, 279, 441, 450, 477, 812, 858
MboI GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
MflI RGATCY 5 cut(s) 4, 277, 439, 448, 856
MhlI GDGCHC 4 cut(s) 362, 431, 658, 806
MlyI GAGTC 3 cut(s) 39, 299, 596
MmeI TCCRAC 2 cut(s) 231, 426
MroNI GCCGGC 1 cut(s) 187
MseI TTAA 1 cut(s) 696
MslI CAYNNNNRTG 1 cut(s) 15
MspI CCGG 8 cut(s) 101, 188, 218, 239, 275, 362, 558, 649
MspR9I CCNGG 3 cut(s) 144, 362, 612
Mva1269I GAATGC 1 cut(s) 326
MvaI CCWGG 2 cut(s) 144, 612
MvnI CGCG 1 cut(s) 671
MwoI GCNNNNNNNGC 3 cut(s) 72, 164, 552
NaeI GCCGGC 1 cut(s) 189
NciI CCSGG 1 cut(s) 362
NcoI CCATGG 1 cut(s) 16
NdeII GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
NgoMIV GCCGGC 1 cut(s) 187
NlaIII CATG 4 cut(s) 20, 52, 491, 836
NlaIV GGNNCC 4 cut(s) 6, 450, 702, 738
NmeAIII GCCGAG 1 cut(s) 737
NmuCI GTSAC 1 cut(s) 835
PaqCI CACCTGC 1 cut(s) 503
PauI GCGCGC 1 cut(s) 669
PciSI GCTCTTC 1 cut(s) 350
PctI GAATGC 1 cut(s) 326
PdiI GCCGGC 1 cut(s) 189
PfeI GAWTC 4 cut(s) 39, 259, 368, 947
PkrI GCNGC 5 cut(s) 54, 57, 160, 301, 377
PleI GAGTC 3 cut(s) 39, 298, 595
PpsI GAGTC 3 cut(s) 39, 298, 595
PpuMI RGGWCCY 1 cut(s) 700
PsiI TTATAA 1 cut(s) 515
Psp5II RGGWCCY 1 cut(s) 700
Psp6I CCWGG 2 cut(s) 142, 610
PspFI CCCAGC 1 cut(s) 902
PspGI CCWGG 2 cut(s) 142, 610
PspN4I GGNNCC 4 cut(s) 6, 450, 702, 738
PspPI GGNCC 2 cut(s) 146, 700
PspPPI RGGWCCY 1 cut(s) 700
PstI CTGCAG 1 cut(s) 304
PsuI RGATCY 5 cut(s) 4, 277, 439, 448, 856
PteI GCGCGC 1 cut(s) 669
RsaI GTAC 2 cut(s) 269, 872
RsaNI GTAC 2 cut(s) 268, 871
RseI CAYNNNNRTG 1 cut(s) 15
SapI GCTCTTC 1 cut(s) 350
SaqAI TTAA 1 cut(s) 696
SatI GCNGC 5 cut(s) 53, 56, 159, 300, 376
Sau3AI GATC 7 cut(s) 4, 277, 439, 448, 475, 810, 856
Sau96I GGNCC 2 cut(s) 146, 700
SchI GAGTC 3 cut(s) 39, 299, 596
ScrFI CCNGG 3 cut(s) 144, 362, 612
SduI GDGCHC 4 cut(s) 362, 431, 658, 806
SfcI CTRYAG 1 cut(s) 300
SinI GGWCC 1 cut(s) 700
SmiMI CAYNNNNRTG 1 cut(s) 15
SmlI CTYRAG 1 cut(s) 263
SmoI CTYRAG 1 cut(s) 263
SsiI CCGC 5 cut(s) 73, 156, 159, 215, 375
SspMI CTAG 1 cut(s) 972
StyD4I CCNGG 3 cut(s) 142, 360, 610
StyI CCWWGG 1 cut(s) 16
TaaI ACNGT 1 cut(s) 579
TaiI ACGT 1 cut(s) 84
TatI WGTACW 2 cut(s) 267, 870
TauI GCSGC 2 cut(s) 161, 378
TfiI GAWTC 4 cut(s) 39, 259, 368, 947
Tru1I TTAA 1 cut(s) 696
Tru9I TTAA 1 cut(s) 696
TscAI CASTG 3 cut(s) 309, 806, 928
TseFI GTSAC 1 cut(s) 835
TseI GCWGC 3 cut(s) 52, 55, 299
Tsp45I GTSAC 1 cut(s) 835
TspDTI ATGAA 2 cut(s) 476, 644
TspGWI ACGGA 2 cut(s) 341, 432
TspRI CASTG 3 cut(s) 309, 806, 928
VpaK11BI GGWCC 1 cut(s) 700
XagI CCTNNNNNAGG 2 cut(s) 515, 615
XcmI CCANNNNNNNNNTGG 2 cut(s) 534, 839
XspI CTAG 1 cut(s) 972
ZraI GACGTC 1 cut(s) 82
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.