Rroxscaffold_4G00306840

PHD-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0004222
Physical Location & Seq
Reverse (-)
27769575 .. 27772192
2618 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00306840.1

Sequence Viewer

Length: 624 bp
ATGACCCATTCGTATCGCGCTGGAAAATCTAGCTACATTAAGGTATACTTGTTGAATTCTTTGAAGCAACTAAAATTTTGGTTCGAACATGGTGAAATTTGTGAATCCCGAGAACGCATTGAAGTGGGCGAAGAGTTGATCAATGTTGGGCATAAGCAAGAGGCATTGCAATCTCTTCATAATATGCGCAAGGGTATTTTTGCCAAGTATGGTCTGATTAAGTACCGCAATAAATGTCAACAAATAAATGTCAGCTCCTTGGAAGAGGTCATCAAGCACTTCATAAATCTATCTACTCGGAGAGCCGAGCAGCCGATTCAGCTGGAGTTGGACCAGTTCAGGCTTTTGATATACAATGCCAATGTTAAACAGTTGGTGGACGTTAGGGGACATGAGTATTTCAGTTGCTTGGGGCAGAAGATTCAGCTGGAGGCCGCCAACCAGGCCAAGGTTGTTGAGTATGTTGGAGAGATTGTGGGGCGACGTGTTGCTGATAAAAGGGAAAATGAATATCAATCTGGAAAAAAGCTTCAGTACAAGAGCGCATGCTACTTTTTCAGGATAGACAAAGAGCATATCATTGATGCTACATGCAAAGGAGGGATTGCTCGATTTGTTACTTAA
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

207

Amino Acids

24.14

Weight (kDa)

9.27

Isoelectric Point (pI)

35.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
eIF3a_PCI_TPR-like PF22591 61 - 104 2.5e-06 eIF3a, PCI domain, TPR-like region
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)
Acc16I TGCGCA 1 cut(s) 188
AccI GTMKAC 1 cut(s) 45
AccII CGCG 1 cut(s) 18
AciI CCGC 2 cut(s) 226, 435
AcsI RAATTY 3 cut(s) 55, 74, 96
AcuI CTGAAG 1 cut(s) 515
AfaI GTAC 2 cut(s) 224, 536
AfiI CCNNNNNNNGG 1 cut(s) 448
AflIII ACRYGT 1 cut(s) 484
AgsI TTSAA 3 cut(s) 55, 64, 122
AjiI CACGTC 1 cut(s) 485
AjnI CCWGG 1 cut(s) 441
AluBI AGCT 5 cut(s) 33, 255, 322, 427, 529
AluI AGCT 5 cut(s) 33, 255, 322, 427, 529
Ama87I CYCGRG 1 cut(s) 108
AoxI GGCC 2 cut(s) 432, 444
ApeKI GCWGC 1 cut(s) 310
ApoI RAATTY 3 cut(s) 55, 74, 96
AspLEI GCGC 3 cut(s) 20, 189, 545
AspS9I GGNCC 1 cut(s) 331
AsuHPI GGTGA 1 cut(s) 104
AsuII TTCGAA 1 cut(s) 84
AvaI CYCGRG 1 cut(s) 108
AvaII GGWCC 1 cut(s) 331
BbvI GCAGC 1 cut(s) 322
BciT130I CCWGG 1 cut(s) 443
BclI TGATCA 1 cut(s) 138
BfaI CTAG 1 cut(s) 30
BglI GCCNNNNNGGC 1 cut(s) 443
BisI GCNGC 2 cut(s) 311, 435
BlsI GCNGC 2 cut(s) 312, 436
Bme1390I CCNGG 1 cut(s) 443
Bme18I GGWCC 1 cut(s) 331
BmeT110I CYCGRG 1 cut(s) 108
BmgBI CACGTC 1 cut(s) 485
BmgT120I GGNCC 1 cut(s) 331
BmrFI CCNGG 1 cut(s) 443
BmsI GCATC 1 cut(s) 574
BpmI CTGGAG 2 cut(s) 344, 449
Bpu14I TTCGAA 1 cut(s) 84
BsaJI CCNNGG 2 cut(s) 258, 447
BsaXI ACNNNNNCTCC 2 cut(s) 459, 489
Bsc4I CCNNNNNNNGG 1 cut(s) 448
Bse1I ACTGG 1 cut(s) 334
Bse3DI GCAATG 1 cut(s) 164
BseBI CCWGG 1 cut(s) 443
BseDI CCNNGG 2 cut(s) 258, 447
BseLI CCNNNNNNNGG 1 cut(s) 448
BseMI GCAATG 1 cut(s) 164
BseNI ACTGG 1 cut(s) 334
BseXI GCAGC 1 cut(s) 322
Bsh1236I CGCG 1 cut(s) 18
BshFI GGCC 2 cut(s) 434, 446
BsiHKCI CYCGRG 1 cut(s) 108
BslFI GGGAC 1 cut(s) 402
BslI CCNNNNNNNGG 1 cut(s) 448
BsmFI GGGAC 1 cut(s) 402
BsnI GGCC 2 cut(s) 434, 446
BsoBI CYCGRG 1 cut(s) 108
Bsp119I TTCGAA 1 cut(s) 84
Bsp143I GATC 1 cut(s) 138
BspACI CCGC 2 cut(s) 226, 435
BspANI GGCC 2 cut(s) 434, 446
BspFNI CGCG 1 cut(s) 18
BspT104I TTCGAA 1 cut(s) 84
BsrDI GCAATG 1 cut(s) 164
BsrI ACTGG 1 cut(s) 334
BssECI CCNNGG 2 cut(s) 258, 447
BssMI GATC 1 cut(s) 138
BssNAI GTATAC 1 cut(s) 46
BssT1I CCWWGG 2 cut(s) 258, 447
Bst1107I GTATAC 1 cut(s) 46
Bst2UI CCWGG 1 cut(s) 443
Bst4CI ACNGT 1 cut(s) 372
Bst6I CTCTTC 3 cut(s) 126, 180, 258
BstBI TTCGAA 1 cut(s) 84
BstC8I GCNNGC 1 cut(s) 547
BstFNI CGCG 1 cut(s) 18
BstHHI GCGC 3 cut(s) 20, 189, 545
BstKTI GATC 1 cut(s) 141
BstMBI GATC 1 cut(s) 138
BstMWI GCNNNNNNNGC 2 cut(s) 319, 443
BstNI CCWGG 1 cut(s) 443
BstNSI RCATGY 2 cut(s) 549, 594
BstSCI CCNGG 1 cut(s) 441
BstUI CGCG 1 cut(s) 18
BstV1I GCAGC 1 cut(s) 322
BstZ17I GTATAC 1 cut(s) 46
BsuRI GGCC 2 cut(s) 434, 446
BtrI CACGTC 1 cut(s) 485
Cac8I GCNNGC 1 cut(s) 547
CfoI GCGC 3 cut(s) 20, 189, 545
Cfr13I GGNCC 1 cut(s) 331
Csp6I GTAC 2 cut(s) 223, 535
CviAII CATG 4 cut(s) 89, 392, 546, 591
CviQI GTAC 2 cut(s) 223, 535
DpnI GATC 1 cut(s) 140
DpnII GATC 1 cut(s) 138
Eam1104I CTCTTC 3 cut(s) 126, 180, 258
EarI CTCTTC 3 cut(s) 126, 180, 258
Eco130I CCWWGG 2 cut(s) 258, 447
Eco47I GGWCC 1 cut(s) 331
Eco57I CTGAAG 1 cut(s) 515
Eco88I CYCGRG 1 cut(s) 108
EcoRI GAATTC 1 cut(s) 55
EcoRII CCWGG 1 cut(s) 441
EcoT14I CCWWGG 2 cut(s) 258, 447
ErhI CCWWGG 2 cut(s) 258, 447
FaeI CATG 4 cut(s) 92, 395, 549, 594
FalI AAGNNNNNCTT 2 cut(s) 32, 64
FaqI GGGAC 1 cut(s) 402
FatI CATG 4 cut(s) 88, 391, 545, 590
FbaI TGATCA 1 cut(s) 138
FblI GTMKAC 1 cut(s) 45
Fnu4HI GCNGC 2 cut(s) 311, 435
Fsp4HI GCNGC 2 cut(s) 311, 435
FspBI CTAG 1 cut(s) 30
FspI TGCGCA 1 cut(s) 188
GlaI GCGC 3 cut(s) 19, 188, 544
GluI GCNGC 2 cut(s) 311, 435
GsuI CTGGAG 2 cut(s) 344, 449
HaeIII GGCC 2 cut(s) 434, 446
HhaI GCGC 3 cut(s) 20, 189, 545
Hin1II CATG 4 cut(s) 92, 395, 549, 594
Hin6I GCGC 3 cut(s) 18, 187, 543
HinP1I GCGC 3 cut(s) 18, 187, 543
HincII GTYRAC 1 cut(s) 239
HindII GTYRAC 1 cut(s) 239
HindIII AAGCTT 1 cut(s) 527
HinfI GANTC 3 cut(s) 104, 316, 421
HphI GGTGA 1 cut(s) 104
Hpy166II GTNNAC 3 cut(s) 46, 239, 379
Hpy188I TCNGA 2 cut(s) 216, 300
Hpy188III TCNNGA 3 cut(s) 108, 519, 559
Hpy8I GTNNAC 3 cut(s) 46, 239, 379
Hpy99I CGWCG 1 cut(s) 486
HpyCH4III ACNGT 1 cut(s) 372
HpyCH4IV ACGT 2 cut(s) 381, 484
HpyCH4V TGCA 2 cut(s) 169, 594
HpyF10VI GCNNNNNNNGC 2 cut(s) 319, 443
HpySE526I ACGT 2 cut(s) 381, 484
Hsp92II CATG 4 cut(s) 92, 395, 549, 594
HspAI GCGC 3 cut(s) 18, 187, 543
Ksp22I TGATCA 1 cut(s) 138
Kzo9I GATC 1 cut(s) 138
LmnI GCTCC 1 cut(s) 260
LpnPI CCDG 9 cut(s) 6, 308, 325, 347, 413, 428, 455, 504, 544
Lsp1109I GCAGC 1 cut(s) 322
LweI GCATC 1 cut(s) 574
MaeI CTAG 1 cut(s) 30
MaeII ACGT 2 cut(s) 381, 484
MaeIII GTNAC 1 cut(s) 616
MalI GATC 1 cut(s) 140
MboI GATC 1 cut(s) 138
MboII GAAGA 4 cut(s) 143, 167, 275, 430
MluCI AATT 3 cut(s) 55, 74, 96
MmeI TCCRAC 2 cut(s) 309, 445
MnlI CCTC 4 cut(s) 154, 259, 424, 593
MseI TTAA 4 cut(s) 39, 219, 366, 622
MslI CAYNNNNRTG 1 cut(s) 122
MspA1I CMGCKG 2 cut(s) 322, 427
MspR9I CCNGG 1 cut(s) 443
MvaI CCWGG 1 cut(s) 443
MvnI CGCG 1 cut(s) 18
MwoI GCNNNNNNNGC 2 cut(s) 319, 443
NdeII GATC 1 cut(s) 138
NlaIII CATG 4 cut(s) 92, 395, 549, 594
NmeAIII GCCGAG 1 cut(s) 331
NsbI TGCGCA 1 cut(s) 188
NspI RCATGY 2 cut(s) 549, 594
NspV TTCGAA 1 cut(s) 84
PaeI GCATGC 1 cut(s) 549
PfeI GAWTC 3 cut(s) 104, 316, 421
PkrI GCNGC 2 cut(s) 312, 436
Psp6I CCWGG 1 cut(s) 441
PspGI CCWGG 1 cut(s) 441
PspPI GGNCC 1 cut(s) 331
PvuII CAGCTG 2 cut(s) 322, 427
RsaI GTAC 2 cut(s) 224, 536
RsaNI GTAC 2 cut(s) 223, 535
RseI CAYNNNNRTG 1 cut(s) 122
SaqAI TTAA 4 cut(s) 39, 219, 366, 622
SatI GCNGC 2 cut(s) 311, 435
Sau3AI GATC 1 cut(s) 138
Sau96I GGNCC 1 cut(s) 331
ScrFI CCNGG 1 cut(s) 443
SfaNI GCATC 1 cut(s) 574
SfuI TTCGAA 1 cut(s) 84
SinI GGWCC 1 cut(s) 331
SmiMI CAYNNNNRTG 1 cut(s) 122
SphI GCATGC 1 cut(s) 549
Sse9I AATT 3 cut(s) 55, 74, 96
SsiI CCGC 2 cut(s) 226, 435
SspMI CTAG 1 cut(s) 30
StyD4I CCNGG 1 cut(s) 441
StyI CCWWGG 2 cut(s) 258, 447
TaaI ACNGT 1 cut(s) 372
TaiI ACGT 2 cut(s) 384, 487
TaqI TCGA 2 cut(s) 84, 610
TasI AATT 3 cut(s) 55, 74, 96
TatI WGTACW 1 cut(s) 534
TauI GCSGC 1 cut(s) 437
TfiI GAWTC 3 cut(s) 104, 316, 421
Tru1I TTAA 4 cut(s) 39, 219, 366, 622
Tru9I TTAA 4 cut(s) 39, 219, 366, 622
TseI GCWGC 1 cut(s) 310
TspDTI ATGAA 3 cut(s) 167, 271, 522
VpaK11BI GGWCC 1 cut(s) 331
XapI RAATTY 3 cut(s) 55, 74, 96
XceI RCATGY 2 cut(s) 549, 594
XmiI GTMKAC 1 cut(s) 45
XspI CTAG 1 cut(s) 30
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.