Rw3G000430

Isopentenyl-diphosphate Delta-isomerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0009079
Physical Location & Seq
Forward (+)
406765 .. 409655
2891 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G000430.1

Sequence Viewer

Length: 867 bp
ATGAGCAGTGGTCTTCTTAACACAGCTACCAGAGCCACACTCTCTTCTTCCTTCTTCCCCAAATCTCATCTTCATCGTCTCTTCTCCTCCTCTTCTTCTTCTTCAAAACCTTTCCCTTCTCTCCTTCCGGCGAGGTCATCTCCGTCTTTACGCATCTCCACCATGGCCGACGCCCCCGATGCCGGCATGGACGCCGTCCAGCGACGCCTCATGTTCGACGACGAATGTATTCTAGTGGATGAGAATGATCGTGTTGTTGGTCATGACACCAAGTACAATTGTCACTTGATGGAAAAGATTGAATCTGAAAATCTGCTTCACAGAGCTTTCAGTGTGTTTTTGTTCAACTCAAAGAACGAGTTGCTTCTTCAGCAACGTTCTGCAACAAAGGTAACATTCCCACTTGTGTGGACAAACACCTGTTGTAGCCATCCACTATACCGTGAATCTGAGCTTATCGATGAGGAGTGTCTTGGTGTAAGAAATGCTGCCCAAAGGAAGCTTTTGGATGAACTGGGTATCCCTGCTGAAGATGTGCCTGTTGATCAGTTTATTCCTTTGGGTCGCATGTTGTACAAGGCACCTTCTGATGGCAAGTGGGGAGAACATGAACTAGATTACCTGCTCTTCACTGTGCGAGATGTGAATGTACATCCGAACCCTGATGAAGTTGCAGATATCAAATATGTAAACCAAGAGGAGTTGAAGGAGCTGTTGAGGAAGGCGGATGCCGGGGAGGAAGGTCTGAAGCTGTCCCCTTGGTTCAGACTAGTTGTGGACAATTTCCTCTTCAAGTGGTGGGATCATGTTGAGAAACGCACCATCAAGGAAGCTGCTGACATGAAAACCATCCACAGGTTGACTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00900 ko01100 ko01110 ko01130 map00900 map01100 map01110 map01130
Pfam Domains
Protein Families
NUDIX

Protein Analysis

288

Amino Acids

32.89

Weight (kDa)

5.72

Isoelectric Point (pI)

43.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX PF00293 106 - 241 3.1e-14 NUDIX 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)
Acc36I ACCTGC 1 cut(s) 630
AccB1I GGYRCC 1 cut(s) 580
AciI CCGC 1 cut(s) 725
AclI AACGTT 1 cut(s) 376
AclWI GGATC 1 cut(s) 810
AcoI YGGCCR 1 cut(s) 165
AcuI CTGAAG 3 cut(s) 353, 549, 767
AcyI GRCGYC 3 cut(s) 171, 192, 205
AfaI GTAC 3 cut(s) 275, 575, 651
AfiI CCNNNNNNNGG 3 cut(s) 182, 590, 855
AgsI TTSAA 5 cut(s) 105, 302, 346, 706, 793
AhlI ACTAGT 1 cut(s) 769
AleI CACNNNNGTG 1 cut(s) 406
AloI GAACNNNNNNTCC 2 cut(s) 504, 536
AluBI AGCT 7 cut(s) 26, 326, 454, 502, 712, 751, 833
AluI AGCT 7 cut(s) 26, 326, 454, 502, 712, 751, 833
Alw26I GTCTC 1 cut(s) 83
AlwI GGATC 1 cut(s) 810
AoxI GGCC 1 cut(s) 165
ApeKI GCWGC 2 cut(s) 488, 833
Asp700I GAANNNNTTC 1 cut(s) 228
AsuC2I CCSGG 1 cut(s) 733
BanI GGYRCC 1 cut(s) 580
BbsI GAAGAC 1 cut(s) 5
BbvI GCAGC 2 cut(s) 475, 820
BccI CCATC 5 cut(s) 283, 438, 584, 830, 857
BceAI ACGGC 1 cut(s) 179
BciVI GTATCC 1 cut(s) 530
BclI TGATCA 1 cut(s) 544
BcnI CCSGG 1 cut(s) 733
BcoDI GTCTC 1 cut(s) 83
BcuI ACTAGT 1 cut(s) 769
BfaI CTAG 3 cut(s) 233, 614, 770
BfuAI ACCTGC 1 cut(s) 630
BfuI GTATCC 1 cut(s) 530
BisI GCNGC 2 cut(s) 489, 834
BlsI GCNGC 2 cut(s) 490, 835
Bme1390I CCNGG 1 cut(s) 733
BmiI GGNNCC 1 cut(s) 582
BmrFI CCNGG 1 cut(s) 733
BmrI ACTGGG 1 cut(s) 524
BmsI GCATC 3 cut(s) 162, 169, 718
BmuI ACTGGG 1 cut(s) 524
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 4 cut(s) 24, 56, 124, 156
BpuMI CCSGG 1 cut(s) 733
Bsa29I ATCGAT 1 cut(s) 459
BsaHI GRCGYC 3 cut(s) 171, 192, 205
BsaJI CCNNGG 3 cut(s) 162, 732, 758
Bsc4I CCNNNNNNNGG 3 cut(s) 182, 590, 855
Bse118I RCCGGY 1 cut(s) 182
Bse1I ACTGG 1 cut(s) 519
BseCI ATCGAT 1 cut(s) 459
BseDI CCNNGG 3 cut(s) 162, 732, 758
BseGI GGATG 6 cut(s) 244, 430, 514, 652, 733, 849
BseLI CCNNNNNNNGG 3 cut(s) 182, 590, 855
BseMII CTCAG 1 cut(s) 441
BseNI ACTGG 1 cut(s) 519
BseRI GAGGAG 4 cut(s) 76, 79, 479, 713
BseXI GCAGC 2 cut(s) 475, 820
BshFI GGCC 1 cut(s) 167
BshNI GGYRCC 1 cut(s) 580
BshVI ATCGAT 1 cut(s) 459
BsiSI CCGG 3 cut(s) 128, 183, 732
BslFI GGGAC 1 cut(s) 739
BslI CCNNNNNNNGG 3 cut(s) 182, 590, 855
BsmAI GTCTC 1 cut(s) 83
BsmBI CGTCTC 1 cut(s) 83
BsmFI GGGAC 1 cut(s) 739
BsnI GGCC 1 cut(s) 167
Bsp1407I TGTACA 2 cut(s) 573, 649
Bsp143I GATC 3 cut(s) 247, 544, 802
Bsp19I CCATGG 1 cut(s) 162
BspACI CCGC 1 cut(s) 725
BspANI GGCC 1 cut(s) 167
BspCNI CTCAG 1 cut(s) 442
BspDI ATCGAT 1 cut(s) 459
BspHI TCATGA 1 cut(s) 262
BspLI GGNNCC 1 cut(s) 582
BspMI ACCTGC 1 cut(s) 630
BspPI GGATC 1 cut(s) 810
BspQI GCTCTTC 1 cut(s) 632
BspT107I GGYRCC 1 cut(s) 580
BsrFI RCCGGY 1 cut(s) 182
BsrGI TGTACA 2 cut(s) 573, 649
BsrI ACTGG 1 cut(s) 519
BssAI RCCGGY 1 cut(s) 182
BssECI CCNNGG 3 cut(s) 162, 732, 758
BssMI GATC 3 cut(s) 247, 544, 802
BssNI GRCGYC 3 cut(s) 171, 192, 205
BssT1I CCWWGG 2 cut(s) 162, 758
Bst4CI ACNGT 2 cut(s) 443, 634
Bst6I CTCTTC 5 cut(s) 49, 86, 97, 632, 794
BstACI GRCGYC 3 cut(s) 171, 192, 205
BstAUI TGTACA 2 cut(s) 573, 649
BstC8I GCNNGC 1 cut(s) 184
BstDEI CTNAG 1 cut(s) 450
BstDSI CCRYGG 1 cut(s) 162
BstF5I GGATG 6 cut(s) 244, 430, 514, 652, 733, 849
BstKTI GATC 3 cut(s) 250, 547, 805
BstMAI GTCTC 1 cut(s) 83
BstMBI GATC 3 cut(s) 247, 544, 802
BstMWI GCNNNNNNNGC 3 cut(s) 32, 179, 370
BstNSI RCATGY 1 cut(s) 571
BstSCI CCNGG 1 cut(s) 731
BstV1I GCAGC 2 cut(s) 475, 820
BstV2I GAAGAC 1 cut(s) 5
BstXI CCANNNNNNTGG 1 cut(s) 408
Bsu15I ATCGAT 1 cut(s) 459
BsuI GTATCC 1 cut(s) 530
BsuRI GGCC 1 cut(s) 167
BsuTUI ATCGAT 1 cut(s) 459
BtgI CCRYGG 1 cut(s) 162
BtsCI GGATG 6 cut(s) 244, 430, 514, 652, 733, 849
BtsI GCAGTG 1 cut(s) 13
BtsIMutI CAGTG 3 cut(s) 13, 337, 630
BveI ACCTGC 1 cut(s) 630
Cac8I GCNNGC 1 cut(s) 184
CciI TCATGA 1 cut(s) 262
Cfr10I RCCGGY 1 cut(s) 182
ClaI ATCGAT 1 cut(s) 459
CseI GACGC 3 cut(s) 179, 200, 213
Csp6I GTAC 3 cut(s) 274, 574, 650
CviAII CATG 8 cut(s) 163, 187, 211, 263, 568, 608, 806, 841
CviQI GTAC 3 cut(s) 274, 574, 650
DdeI CTNAG 1 cut(s) 450
DpnI GATC 3 cut(s) 249, 546, 804
DpnII GATC 3 cut(s) 247, 544, 802
EaeI YGGCCR 1 cut(s) 165
Eam1104I CTCTTC 5 cut(s) 49, 86, 97, 632, 794
EarI CTCTTC 5 cut(s) 49, 86, 97, 632, 794
EciI GGCGGA 1 cut(s) 740
Eco130I CCWWGG 2 cut(s) 162, 758
Eco32I GATATC 1 cut(s) 679
Eco57I CTGAAG 3 cut(s) 353, 549, 767
EcoRV GATATC 1 cut(s) 679
EcoT14I CCWWGG 2 cut(s) 162, 758
ErhI CCWWGG 2 cut(s) 162, 758
Esp3I CGTCTC 1 cut(s) 83
FaeI CATG 8 cut(s) 166, 190, 214, 266, 571, 611, 809, 844
FaqI GGGAC 1 cut(s) 739
FatI CATG 8 cut(s) 162, 186, 210, 262, 567, 607, 805, 840
FbaI TGATCA 1 cut(s) 544
Fnu4HI GCNGC 2 cut(s) 489, 834
FokI GGATG 6 cut(s) 251, 417, 521, 639, 740, 836
Fsp4HI GCNGC 2 cut(s) 489, 834
FspBI CTAG 3 cut(s) 233, 614, 770
GluI GCNGC 2 cut(s) 489, 834
HaeIII GGCC 1 cut(s) 167
HapII CCGG 3 cut(s) 128, 183, 732
HgaI GACGC 3 cut(s) 179, 200, 213
Hin1I GRCGYC 3 cut(s) 171, 192, 205
Hin1II CATG 8 cut(s) 166, 190, 214, 266, 571, 611, 809, 844
HincII GTYRAC 1 cut(s) 861
HindII GTYRAC 1 cut(s) 861
HindIII AAGCTT 1 cut(s) 500
HinfI GANTC 2 cut(s) 302, 446
HpaII CCGG 3 cut(s) 128, 183, 732
Hpy166II GTNNAC 4 cut(s) 411, 691, 778, 861
Hpy188I TCNGA 6 cut(s) 307, 451, 589, 657, 747, 767
Hpy188III TCNNGA 1 cut(s) 263
Hpy8I GTNNAC 4 cut(s) 411, 691, 778, 861
Hpy99I CGWCG 4 cut(s) 173, 207, 221, 224
HpyAV CCTTC 7 cut(s) 61, 126, 134, 594, 700, 715, 734
HpyCH4III ACNGT 2 cut(s) 443, 634
HpyCH4IV ACGT 1 cut(s) 376
HpyCH4V TGCA 2 cut(s) 383, 674
HpyF10VI GCNNNNNNNGC 3 cut(s) 32, 179, 370
HpyF3I CTNAG 1 cut(s) 450
HpySE526I ACGT 1 cut(s) 376
Hsp92I GRCGYC 3 cut(s) 171, 192, 205
Hsp92II CATG 8 cut(s) 166, 190, 214, 266, 571, 611, 809, 844
KroI GCCGGC 1 cut(s) 182
KroNI GCCGGC 1 cut(s) 184
Ksp22I TGATCA 1 cut(s) 544
Kzo9I GATC 3 cut(s) 247, 544, 802
LguI GCTCTTC 1 cut(s) 632
LmnI GCTCC 1 cut(s) 709
Lsp1109I GCAGC 2 cut(s) 475, 820
LweI GCATC 3 cut(s) 162, 169, 718
MaeI CTAG 3 cut(s) 233, 614, 770
MaeII ACGT 1 cut(s) 376
MaeIII GTNAC 2 cut(s) 281, 391
MalI GATC 3 cut(s) 249, 546, 804
MboI GATC 3 cut(s) 247, 544, 802
MfeI CAATTG 1 cut(s) 277
MluCI AATT 2 cut(s) 277, 781
MnlI CCTC 9 cut(s) 97, 100, 126, 218, 457, 691, 711, 730, 797
MroNI GCCGGC 1 cut(s) 182
MroXI GAANNNNTTC 1 cut(s) 228
MseI TTAA 2 cut(s) 18, 865
MslI CAYNNNNRTG 1 cut(s) 406
MspI CCGG 3 cut(s) 128, 183, 732
MspR9I CCNGG 1 cut(s) 733
MunI CAATTG 1 cut(s) 277
MwoI GCNNNNNNNGC 3 cut(s) 32, 179, 370
NaeI GCCGGC 1 cut(s) 184
NciI CCSGG 1 cut(s) 733
NcoI CCATGG 1 cut(s) 162
NdeII GATC 3 cut(s) 247, 544, 802
NgoMIV GCCGGC 1 cut(s) 182
NlaIII CATG 8 cut(s) 166, 190, 214, 266, 571, 611, 809, 844
NlaIV GGNNCC 1 cut(s) 582
NmuCI GTSAC 1 cut(s) 281
NspI RCATGY 1 cut(s) 571
OliI CACNNNNGTG 1 cut(s) 406
PagI TCATGA 1 cut(s) 262
PciSI GCTCTTC 1 cut(s) 632
PdiI GCCGGC 1 cut(s) 184
PdmI GAANNNNTTC 1 cut(s) 228
PfeI GAWTC 2 cut(s) 302, 446
PflFI GACNNNGTC 1 cut(s) 194
PkrI GCNGC 2 cut(s) 490, 835
Psp1406I AACGTT 1 cut(s) 376
PspN4I GGNNCC 1 cut(s) 582
PsyI GACNNNGTC 1 cut(s) 194
RsaI GTAC 3 cut(s) 275, 575, 651
RsaNI GTAC 3 cut(s) 274, 574, 650
RseI CAYNNNNRTG 1 cut(s) 406
SapI GCTCTTC 1 cut(s) 632
SaqAI TTAA 2 cut(s) 18, 865
SatI GCNGC 2 cut(s) 489, 834
Sau3AI GATC 3 cut(s) 247, 544, 802
ScrFI CCNGG 1 cut(s) 733
SfaNI GCATC 3 cut(s) 162, 169, 718
SmiMI CAYNNNNRTG 1 cut(s) 406
SpeI ACTAGT 1 cut(s) 769
Sse9I AATT 2 cut(s) 277, 781
SsiI CCGC 1 cut(s) 725
SspMI CTAG 3 cut(s) 233, 614, 770
StyD4I CCNGG 1 cut(s) 731
StyI CCWWGG 2 cut(s) 162, 758
TaaI ACNGT 2 cut(s) 443, 634
TaiI ACGT 1 cut(s) 379
TaqI TCGA 2 cut(s) 216, 459
TasI AATT 2 cut(s) 277, 781
TatI WGTACW 3 cut(s) 273, 573, 649
TfiI GAWTC 2 cut(s) 302, 446
Tru1I TTAA 2 cut(s) 18, 865
Tru9I TTAA 2 cut(s) 18, 865
TscAI CASTG 3 cut(s) 13, 337, 637
TseFI GTSAC 1 cut(s) 281
TseI GCWGC 2 cut(s) 488, 833
Tsp45I GTSAC 1 cut(s) 281
TspDTI ATGAA 5 cut(s) 62, 525, 624, 681, 857
TspGWI ACGGA 1 cut(s) 132
TspRI CASTG 3 cut(s) 13, 337, 637
Tth111I GACNNNGTC 1 cut(s) 194
XceI RCATGY 1 cut(s) 571
XmnI GAANNNNTTC 1 cut(s) 228
XspI CTAG 3 cut(s) 233, 614, 770
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.