Rroxscaffold_3G00270880

PHD zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0013826
Physical Location & Seq
Reverse (-)
63336314 .. 63339048
2735 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00270880.1

Sequence Viewer

Length: 963 bp
ATGGCACACATGACCGTCACCCAATATAGGGAGCGTGTTGAGAATGTGTATAAATATAACTCCCGTGTTGAAGTACACACCTCTCATAACCAAGGCCCTGTCCAAATAGATACCATGGTAACAATGTCTAGAAGGCATTCCAACGAGTTTAAACATGGCCGTAAAGATTTATCTTTACAAAAGGTGAAGGTTACTTACAAAAGTGAACCTACTGGACATGGCACTGAAGAAATCAATTCAATCATTGAGAAACAAGAGTCTAAATCATCTGCTGAACTAAAATATAAAGCTACTTCTATCAAGTATAAGAATCAAAACAACTGCAAGAAAGAGTCACAGGATGCTCCGCTCATCAACTTTCCAGGCAAAAAGCTTCTCGGAAGAGATAACTCTATTGCCTCTGAACTTCTAAACATCAAACCCAAAACAGAGATAATTCTGCCAATTCGCGCAGTTTTAGATGCTACTTGGTGTGGAAGCCTTGAGATCCTTGATAAGGATTCAGGTTGTCAATTTTATGATGGATTTGTGGCTCATCTTCCTGGAAAAGTTTGTCGTAAAGCTCTAGAGCATACACATCTGATGCCTAATGTGCTGCCTTGTACTATGCTCTCTTGTTGCAATGTATGGGAAGAAATATTTCAGAACGAAATCCCCACCATTGAGGATATTGCAGTATTCTTTTTCCCTGGAAATTTTGAGAGGTCCAAAGAGCAGTACTTTAGCCTTGTACAAGTTATGGAGACACAAGATCTGATACTAAGGAGTCTTATAAAGGGCGTCAATCTATTGATTTTCTCTTCTAAGAGGCTGCATCAGGATCCTTGTGGATTGAAAATGAAATCTTTCCTGTGGGGAATATATTGCCCTCTCCAGCTTACCAATGACTCCCAAGCACACTCAGTGAAGGCTAACCGCCTCTCCCTGCTGCAGGGGATGCTGCTCTACCACAACATGAGTTGA
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
No domains found.

Protein Analysis

320

Amino Acids

36.61

Weight (kDa)

8.73

Isoelectric Point (pI)

46.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SPOC_AIPP2 PF23121 157 - 288 1.6e-41 AIPP2, SPOC-like 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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Orthologous Genes (Group: OG0013826)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G08005 AT5G61100 AT5G61100 AT5G61110
fragaria_vesca FvH4_5g13941
malus_domestica MD06G1202100.v1.1
prunus_persica Prupe.5G204000_v2.0.a1 Prupe.5G204100_v2.0.a1
pyrus_communis pycom06g17810
rosa_chinensis RchiOBHm_Chr7g0183011
rosa_laevigata RLG00000005090
rosa_roxburghii Rroxscaffold_3G00270880
rosa_rugosa Rorug06G0451600
rosa_samantha Rh7AG054900 Rh7BG054400 Rh7DG054500
rosa_wichuraiana Rw7G004480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 773
AccBSI CCGCTC 1 cut(s) 349
AccII CGCG 1 cut(s) 450
AciI CCGC 2 cut(s) 347, 916
AclWI GGATC 3 cut(s) 481, 815, 828
AcoI YGGCCR 1 cut(s) 157
AcsI RAATTY 1 cut(s) 694
AcuI CTGAAG 1 cut(s) 246
AcyI GRCGYC 1 cut(s) 780
AdeI CACNNNGTG 1 cut(s) 904
AfaI GTAC 4 cut(s) 75, 604, 719, 732
AfiI CCNNNNNNNGG 4 cut(s) 27, 28, 496, 931
AgsI TTSAA 3 cut(s) 71, 240, 835
AjnI CCWGG 3 cut(s) 361, 541, 688
AluBI AGCT 4 cut(s) 290, 373, 563, 877
AluI AGCT 4 cut(s) 290, 373, 563, 877
Alw26I GTCTC 1 cut(s) 737
AlwI GGATC 3 cut(s) 481, 815, 828
AoxI GGCC 2 cut(s) 94, 157
ApeKI GCWGC 4 cut(s) 595, 811, 928, 940
ApoI RAATTY 1 cut(s) 694
Asp700I GAANNNNTTC 3 cut(s) 136, 639, 845
AspLEI GCGC 1 cut(s) 452
AspS9I GGNCC 2 cut(s) 95, 705
AsuHPI GGTGA 2 cut(s) 10, 196
AvaII GGWCC 1 cut(s) 705
BaeI ACNNNNGTAYC 2 cut(s) 102, 135
BamHI GGATCC 1 cut(s) 820
BarI GAAGNNNNNNTAC 2 cut(s) 179, 211
BbvI GCAGC 4 cut(s) 582, 798, 915, 927
BccI CCATC 1 cut(s) 515
BceAI ACGGC 1 cut(s) 144
BciT130I CCWGG 3 cut(s) 363, 543, 690
BcoDI GTCTC 1 cut(s) 737
BfaI CTAG 2 cut(s) 129, 566
BfmI CTRYAG 1 cut(s) 929
BglII AGATCT 1 cut(s) 751
BisI GCNGC 4 cut(s) 596, 812, 929, 941
BlsI GCNGC 4 cut(s) 597, 813, 930, 942
BmcAI AGTACT 1 cut(s) 719
Bme1390I CCNGG 3 cut(s) 363, 543, 690
Bme18I GGWCC 1 cut(s) 705
BmgT120I GGNCC 2 cut(s) 95, 705
BmiI GGNNCC 1 cut(s) 822
BmrFI CCNGG 3 cut(s) 363, 543, 690
BmsI GCATC 5 cut(s) 331, 451, 573, 823, 927
BpmI CTGGAG 1 cut(s) 857
BpuEI CTTGAG 1 cut(s) 503
BsaHI GRCGYC 1 cut(s) 780
BsaJI CCNNGG 3 cut(s) 91, 114, 688
BsaXI ACNNNNNCTCC 2 cut(s) 905, 935
Bsc4I CCNNNNNNNGG 4 cut(s) 27, 28, 496, 931
Bse1I ACTGG 1 cut(s) 217
Bse3DI GCAATG 1 cut(s) 628
BseBI CCWGG 3 cut(s) 363, 543, 690
BseDI CCNNGG 3 cut(s) 91, 114, 688
BseGI GGATG 2 cut(s) 346, 942
BseLI CCNNNNNNNGG 4 cut(s) 27, 28, 496, 931
BseMI GCAATG 1 cut(s) 628
BseMII CTCAG 1 cut(s) 915
BseNI ACTGG 1 cut(s) 217
BseXI GCAGC 4 cut(s) 582, 798, 915, 927
Bsh1236I CGCG 1 cut(s) 450
BshFI GGCC 2 cut(s) 96, 159
BslI CCNNNNNNNGG 4 cut(s) 27, 28, 496, 931
BsmAI GTCTC 1 cut(s) 737
BsmI GAATGC 1 cut(s) 136
BsnI GGCC 2 cut(s) 96, 159
Bsp1407I TGTACA 1 cut(s) 730
Bsp143I GATC 3 cut(s) 486, 751, 820
Bsp19I CCATGG 1 cut(s) 114
BspACI CCGC 2 cut(s) 347, 916
BspANI GGCC 2 cut(s) 96, 159
BspCNI CTCAG 1 cut(s) 914
BspFNI CGCG 1 cut(s) 450
BspLI GGNNCC 1 cut(s) 822
BspMAI CTGCAG 1 cut(s) 933
BspPI GGATC 3 cut(s) 481, 815, 828
BsrBI CCGCTC 1 cut(s) 349
BsrDI GCAATG 1 cut(s) 628
BsrGI TGTACA 1 cut(s) 730
BsrI ACTGG 1 cut(s) 217
BssECI CCNNGG 3 cut(s) 91, 114, 688
BssMI GATC 3 cut(s) 486, 751, 820
BssNI GRCGYC 1 cut(s) 780
BssT1I CCWWGG 2 cut(s) 91, 114
Bst2UI CCWGG 3 cut(s) 363, 543, 690
Bst4CI ACNGT 1 cut(s) 16
Bst6I CTCTTC 2 cut(s) 376, 805
BstACI GRCGYC 1 cut(s) 780
BstAPI GCANNNNNTGC 1 cut(s) 937
BstAUI TGTACA 1 cut(s) 730
BstDEI CTNAG 3 cut(s) 761, 804, 901
BstDSI CCRYGG 1 cut(s) 114
BstENI CCTNNNNNAGG 2 cut(s) 494, 929
BstF5I GGATG 2 cut(s) 346, 942
BstFNI CGCG 1 cut(s) 450
BstHHI GCGC 1 cut(s) 452
BstKTI GATC 3 cut(s) 489, 754, 823
BstMAI GTCTC 1 cut(s) 737
BstMBI GATC 3 cut(s) 486, 751, 820
BstMWI GCNNNNNNNGC 2 cut(s) 592, 937
BstNI CCWGG 3 cut(s) 363, 543, 690
BstSCI CCNGG 3 cut(s) 361, 541, 688
BstSFI CTRYAG 1 cut(s) 929
BstUI CGCG 1 cut(s) 450
BstV1I GCAGC 4 cut(s) 582, 798, 915, 927
BstX2I RGATCY 3 cut(s) 486, 751, 820
BstYI RGATCY 3 cut(s) 486, 751, 820
BsuRI GGCC 2 cut(s) 96, 159
BtgI CCRYGG 1 cut(s) 114
BtsCI GGATG 2 cut(s) 346, 942
BtsIMutI CAGTG 2 cut(s) 222, 909
CfoI GCGC 1 cut(s) 452
Cfr13I GGNCC 2 cut(s) 95, 705
CseI GACGC 1 cut(s) 769
Csp6I GTAC 4 cut(s) 74, 603, 718, 731
CviAII CATG 5 cut(s) 10, 115, 155, 218, 955
CviQI GTAC 4 cut(s) 74, 603, 718, 731
DdeI CTNAG 3 cut(s) 761, 804, 901
DpnI GATC 3 cut(s) 488, 753, 822
DpnII GATC 3 cut(s) 486, 751, 820
DraI TTTAAA 1 cut(s) 151
DraIII CACNNNGTG 1 cut(s) 904
EaeI YGGCCR 1 cut(s) 157
Eam1104I CTCTTC 2 cut(s) 376, 805
EarI CTCTTC 2 cut(s) 376, 805
Eco130I CCWWGG 2 cut(s) 91, 114
Eco47I GGWCC 1 cut(s) 705
Eco57I CTGAAG 1 cut(s) 246
EcoNI CCTNNNNNAGG 2 cut(s) 494, 929
EcoO109I RGGNCCY 1 cut(s) 95
EcoRII CCWGG 3 cut(s) 361, 541, 688
EcoT14I CCWWGG 2 cut(s) 91, 114
ErhI CCWWGG 2 cut(s) 91, 114
FaeI CATG 5 cut(s) 13, 118, 158, 221, 958
FatI CATG 5 cut(s) 9, 114, 154, 217, 954
Fnu4HI GCNGC 4 cut(s) 596, 812, 929, 941
FokI GGATG 2 cut(s) 353, 949
Fsp4HI GCNGC 4 cut(s) 596, 812, 929, 941
FspBI CTAG 2 cut(s) 129, 566
GlaI GCGC 1 cut(s) 451
GluI GCNGC 4 cut(s) 596, 812, 929, 941
GsuI CTGGAG 1 cut(s) 857
HaeIII GGCC 2 cut(s) 96, 159
HgaI GACGC 1 cut(s) 769
HhaI GCGC 1 cut(s) 452
Hin1I GRCGYC 1 cut(s) 780
Hin1II CATG 5 cut(s) 13, 118, 158, 221, 958
Hin6I GCGC 1 cut(s) 450
HinP1I GCGC 1 cut(s) 450
HindIII AAGCTT 1 cut(s) 371
HinfI GANTC 6 cut(s) 257, 310, 332, 500, 766, 887
HphI GGTGA 2 cut(s) 10, 196
Hpy166II GTNNAC 2 cut(s) 76, 206
Hpy188I TCNGA 5 cut(s) 380, 403, 582, 645, 756
Hpy188III TCNNGA 3 cut(s) 129, 566, 818
Hpy8I GTNNAC 2 cut(s) 76, 206
HpyAV CCTTC 3 cut(s) 126, 181, 901
HpyCH4III ACNGT 1 cut(s) 16
HpyCH4V TGCA 5 cut(s) 324, 621, 674, 814, 931
HpyF10VI GCNNNNNNNGC 2 cut(s) 592, 937
HpyF3I CTNAG 3 cut(s) 761, 804, 901
Hsp92I GRCGYC 1 cut(s) 780
Hsp92II CATG 5 cut(s) 13, 118, 158, 221, 958
HspAI GCGC 1 cut(s) 450
Kzo9I GATC 3 cut(s) 486, 751, 820
LmnI GCTCC 2 cut(s) 31, 349
Lsp1109I GCAGC 4 cut(s) 582, 798, 915, 927
LweI GCATC 5 cut(s) 331, 451, 573, 823, 927
MaeI CTAG 2 cut(s) 129, 566
MaeIII GTNAC 4 cut(s) 16, 118, 190, 333
MalI GATC 3 cut(s) 488, 753, 822
MbiI CCGCTC 1 cut(s) 349
MboI GATC 3 cut(s) 486, 751, 820
MboII GAAGA 5 cut(s) 239, 393, 530, 644, 792
MflI RGATCY 3 cut(s) 486, 751, 820
MluCI AATT 5 cut(s) 235, 435, 444, 512, 694
MlyI GAGTC 4 cut(s) 266, 341, 775, 881
MmeI TCCRAC 1 cut(s) 165
MnlI CCTC 7 cut(s) 91, 409, 658, 696, 801, 879, 929
MroXI GAANNNNTTC 3 cut(s) 136, 639, 845
MseI TTAA 1 cut(s) 150
MspR9I CCNGG 3 cut(s) 363, 543, 690
MssI GTTTAAAC 1 cut(s) 151
Mva1269I GAATGC 1 cut(s) 136
MvaI CCWGG 3 cut(s) 363, 543, 690
MvnI CGCG 1 cut(s) 450
MwoI GCNNNNNNNGC 2 cut(s) 592, 937
NcoI CCATGG 1 cut(s) 114
NdeII GATC 3 cut(s) 486, 751, 820
NlaIII CATG 5 cut(s) 13, 118, 158, 221, 958
NlaIV GGNNCC 1 cut(s) 822
NmuCI GTSAC 2 cut(s) 16, 333
PctI GAATGC 1 cut(s) 136
PdmI GAANNNNTTC 3 cut(s) 136, 639, 845
PfeI GAWTC 2 cut(s) 310, 500
PfoI TCCNGGA 1 cut(s) 541
PkrI GCNGC 4 cut(s) 597, 813, 930, 942
PleI GAGTC 4 cut(s) 265, 340, 774, 881
PmeI GTTTAAAC 1 cut(s) 151
PpsI GAGTC 4 cut(s) 265, 340, 774, 881
PsiI TTATAA 1 cut(s) 773
Psp6I CCWGG 3 cut(s) 361, 541, 688
PspGI CCWGG 3 cut(s) 361, 541, 688
PspN4I GGNNCC 1 cut(s) 822
PspPI GGNCC 2 cut(s) 95, 705
PstI CTGCAG 1 cut(s) 933
PsuI RGATCY 3 cut(s) 486, 751, 820
RsaI GTAC 4 cut(s) 75, 604, 719, 732
RsaNI GTAC 4 cut(s) 74, 603, 718, 731
SaqAI TTAA 1 cut(s) 150
SatI GCNGC 4 cut(s) 596, 812, 929, 941
Sau3AI GATC 3 cut(s) 486, 751, 820
Sau96I GGNCC 2 cut(s) 95, 705
ScaI AGTACT 1 cut(s) 719
SchI GAGTC 4 cut(s) 266, 341, 775, 881
ScrFI CCNGG 3 cut(s) 363, 543, 690
SfaNI GCATC 5 cut(s) 331, 451, 573, 823, 927
SfcI CTRYAG 1 cut(s) 929
SinI GGWCC 1 cut(s) 705
SmlI CTYRAG 1 cut(s) 482
SmoI CTYRAG 1 cut(s) 482
Sse9I AATT 5 cut(s) 235, 435, 444, 512, 694
SsiI CCGC 2 cut(s) 347, 916
SspI AATATT 1 cut(s) 639
SspMI CTAG 2 cut(s) 129, 566
StyD4I CCNGG 3 cut(s) 361, 541, 688
StyI CCWWGG 2 cut(s) 91, 114
TaaI ACNGT 1 cut(s) 16
TasI AATT 5 cut(s) 235, 435, 444, 512, 694
TatI WGTACW 4 cut(s) 73, 602, 717, 730
TfiI GAWTC 2 cut(s) 310, 500
Tru1I TTAA 1 cut(s) 150
Tru9I TTAA 1 cut(s) 150
TscAI CASTG 2 cut(s) 229, 909
TseFI GTSAC 2 cut(s) 16, 333
TseI GCWGC 4 cut(s) 595, 811, 928, 940
Tsp45I GTSAC 2 cut(s) 16, 333
TspDTI ATGAA 1 cut(s) 854
TspRI CASTG 2 cut(s) 229, 909
VpaK11BI GGWCC 1 cut(s) 705
XagI CCTNNNNNAGG 2 cut(s) 494, 929
XapI RAATTY 1 cut(s) 694
XbaI TCTAGA 2 cut(s) 128, 565
XmnI GAANNNNTTC 3 cut(s) 136, 639, 845
XspI CTAG 2 cut(s) 129, 566
ZrmI AGTACT 1 cut(s) 719
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.