Rh3DG005900

Isopentenyl-diphosphate Delta-isomerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0009079
Physical Location & Seq
Forward (+)
411500 .. 415037
3538 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG005900.1

Sequence Viewer

Length: 861 bp
ATGAGCAGTGGTCTTCTTAACACAGCTACCAGAGCCACACTCTCTTCTTCCTTCTTCCCCAAATCTCATCTTCATCGTCTCTTCTCCTCTTCTTCTTCAAAACCTTTCCCTTCCCTCCTTCCGGCGAGGTCATCTCCGTCTTTACGCATCTCCACCATGGCCGACGCCCCCGATGCCGGCATGGACGCCGTCCAGCGACGCCTCATGTTCGACGACGAATGTATTCTAGTGGATGAGAATGATCGTGTTGTTGGTCATGACACCAAGTACAATTGTCACTTGATGGAAAAGATTGAATCTGAAAATCTGCTTCACAGAGCTTTCAGTGTGTTTTTGTTCAACTCAAAGAACGAGTTGCTTCTGCAGCAACGTTCTGCAACAAAGGTAACATTCCCACTTGTGTGGACAAACACCTGTTGTAGCCATCCACTATACCGTGAATCTGAGCTTATCGATGAGGAGTGTCTTGGTGTAAGAAATGCTGCCCAAAGGAAGCTTTTGGATGAACTGGGTATCCCTGCTGAAGATGTGCCTGTTGATCAGTTTATTCCTTTGGGTCGCATGTTGTACAAGGCACCTTCTGATGGCAAGTGGGGAGAACATGAACTTGATTACCTGCTCTTCACTGTGCGAGATGTGAATGTGCATCCGAACCCTGATGAAGTTGCAGATATCAAATACGTAAACCAAGAGGAGTTGAAGGAGCTGTTGAGGAAGGCGGATGCCGGGGAGGAAGGTCTGAAGCTGTCCCCTTGGTTCAGACTAGTTGTGGACAATTTCATCTTCAAGTGGTGGGATCATGTTGAGAAACGCACCATCAAGGAAGCAGCTGACATGAAAACCATCCACAGGTTGACTTAA
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

286

Amino Acids

32.72

Weight (kDa)

5.72

Isoelectric Point (pI)

41.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX PF00293 104 - 239 3e-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) 624
AccB1I GGYRCC 1 cut(s) 574
AciI CCGC 1 cut(s) 719
AclI AACGTT 1 cut(s) 370
AclWI GGATC 1 cut(s) 804
AcoI YGGCCR 1 cut(s) 159
AcuI CTGAAG 2 cut(s) 543, 761
AcyI GRCGYC 3 cut(s) 165, 186, 199
AfaI GTAC 2 cut(s) 269, 569
AfiI CCNNNNNNNGG 4 cut(s) 121, 176, 584, 849
AgsI TTSAA 5 cut(s) 99, 296, 340, 700, 787
AhlI ACTAGT 1 cut(s) 763
AleI CACNNNNGTG 1 cut(s) 400
AloI GAACNNNNNNTCC 2 cut(s) 498, 530
AluBI AGCT 7 cut(s) 26, 320, 448, 496, 706, 745, 830
AluI AGCT 7 cut(s) 26, 320, 448, 496, 706, 745, 830
Alw26I GTCTC 1 cut(s) 83
AlwI GGATC 1 cut(s) 804
AoxI GGCC 1 cut(s) 159
ApeKI GCWGC 3 cut(s) 364, 482, 827
Asp700I GAANNNNTTC 1 cut(s) 222
AsuC2I CCSGG 1 cut(s) 727
BanI GGYRCC 1 cut(s) 574
BbsI GAAGAC 1 cut(s) 5
BbvI GCAGC 3 cut(s) 376, 469, 839
BccI CCATC 5 cut(s) 277, 432, 578, 824, 851
BceAI ACGGC 1 cut(s) 173
BciVI GTATCC 1 cut(s) 524
BclI TGATCA 1 cut(s) 538
BcnI CCSGG 1 cut(s) 727
BcoDI GTCTC 1 cut(s) 83
BcuI ACTAGT 1 cut(s) 763
BfaI CTAG 2 cut(s) 227, 764
BfmI CTRYAG 1 cut(s) 362
BfuAI ACCTGC 1 cut(s) 624
BfuI GTATCC 1 cut(s) 524
BisI GCNGC 3 cut(s) 365, 483, 828
BlsI GCNGC 3 cut(s) 366, 484, 829
Bme1390I CCNGG 1 cut(s) 727
BmiI GGNNCC 1 cut(s) 576
BmrFI CCNGG 1 cut(s) 727
BmrI ACTGGG 1 cut(s) 518
BmsI GCATC 4 cut(s) 156, 163, 655, 712
BmuI ACTGGG 1 cut(s) 518
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 4 cut(s) 24, 56, 118, 150
BpuMI CCSGG 1 cut(s) 727
Bsa29I ATCGAT 1 cut(s) 453
BsaAI YACGTR 1 cut(s) 682
BsaHI GRCGYC 3 cut(s) 165, 186, 199
BsaJI CCNNGG 3 cut(s) 156, 726, 752
Bsc4I CCNNNNNNNGG 4 cut(s) 121, 176, 584, 849
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 1 cut(s) 513
BseCI ATCGAT 1 cut(s) 453
BseDI CCNNGG 3 cut(s) 156, 726, 752
BseGI GGATG 6 cut(s) 238, 424, 508, 646, 727, 843
BseLI CCNNNNNNNGG 4 cut(s) 121, 176, 584, 849
BseMII CTCAG 1 cut(s) 435
BseNI ACTGG 1 cut(s) 513
BseRI GAGGAG 3 cut(s) 76, 473, 707
BseXI GCAGC 3 cut(s) 376, 469, 839
BshFI GGCC 1 cut(s) 161
BshNI GGYRCC 1 cut(s) 574
BshVI ATCGAT 1 cut(s) 453
BsiSI CCGG 3 cut(s) 122, 177, 726
BslFI GGGAC 1 cut(s) 733
BslI CCNNNNNNNGG 4 cut(s) 121, 176, 584, 849
BsmAI GTCTC 1 cut(s) 83
BsmBI CGTCTC 1 cut(s) 83
BsmFI GGGAC 1 cut(s) 733
BsnI GGCC 1 cut(s) 161
Bsp1407I TGTACA 1 cut(s) 567
Bsp143I GATC 3 cut(s) 241, 538, 796
Bsp19I CCATGG 1 cut(s) 156
BspACI CCGC 1 cut(s) 719
BspANI GGCC 1 cut(s) 161
BspCNI CTCAG 1 cut(s) 436
BspDI ATCGAT 1 cut(s) 453
BspHI TCATGA 1 cut(s) 256
BspLI GGNNCC 1 cut(s) 576
BspMAI CTGCAG 1 cut(s) 366
BspMI ACCTGC 1 cut(s) 624
BspPI GGATC 1 cut(s) 804
BspQI GCTCTTC 1 cut(s) 626
BspT107I GGYRCC 1 cut(s) 574
BsrFI RCCGGY 1 cut(s) 176
BsrGI TGTACA 1 cut(s) 567
BsrI ACTGG 1 cut(s) 513
BssAI RCCGGY 1 cut(s) 176
BssECI CCNNGG 3 cut(s) 156, 726, 752
BssMI GATC 3 cut(s) 241, 538, 796
BssNI GRCGYC 3 cut(s) 165, 186, 199
BssT1I CCWWGG 2 cut(s) 156, 752
Bst4CI ACNGT 2 cut(s) 437, 628
Bst6I CTCTTC 4 cut(s) 49, 86, 94, 626
BstACI GRCGYC 3 cut(s) 165, 186, 199
BstAUI TGTACA 1 cut(s) 567
BstBAI YACGTR 1 cut(s) 682
BstC8I GCNNGC 1 cut(s) 178
BstDEI CTNAG 1 cut(s) 444
BstDSI CCRYGG 1 cut(s) 156
BstF5I GGATG 6 cut(s) 238, 424, 508, 646, 727, 843
BstKTI GATC 3 cut(s) 244, 541, 799
BstMAI GTCTC 1 cut(s) 83
BstMBI GATC 3 cut(s) 241, 538, 796
BstMWI GCNNNNNNNGC 3 cut(s) 32, 173, 364
BstNSI RCATGY 1 cut(s) 565
BstSCI CCNGG 1 cut(s) 725
BstSFI CTRYAG 1 cut(s) 362
BstSNI TACGTA 1 cut(s) 682
BstV1I GCAGC 3 cut(s) 376, 469, 839
BstV2I GAAGAC 1 cut(s) 5
BstXI CCANNNNNNTGG 1 cut(s) 402
Bsu15I ATCGAT 1 cut(s) 453
BsuI GTATCC 1 cut(s) 524
BsuRI GGCC 1 cut(s) 161
BsuTUI ATCGAT 1 cut(s) 453
BtgI CCRYGG 1 cut(s) 156
BtsCI GGATG 6 cut(s) 238, 424, 508, 646, 727, 843
BtsI GCAGTG 1 cut(s) 13
BtsIMutI CAGTG 3 cut(s) 13, 331, 624
BveI ACCTGC 1 cut(s) 624
Cac8I GCNNGC 1 cut(s) 178
CciI TCATGA 1 cut(s) 256
Cfr10I RCCGGY 1 cut(s) 176
ClaI ATCGAT 1 cut(s) 453
CseI GACGC 3 cut(s) 173, 194, 207
Csp6I GTAC 2 cut(s) 268, 568
CviAII CATG 8 cut(s) 157, 181, 205, 257, 562, 602, 800, 835
CviQI GTAC 2 cut(s) 268, 568
DdeI CTNAG 1 cut(s) 444
DpnI GATC 3 cut(s) 243, 540, 798
DpnII GATC 3 cut(s) 241, 538, 796
EaeI YGGCCR 1 cut(s) 159
Eam1104I CTCTTC 4 cut(s) 49, 86, 94, 626
EarI CTCTTC 4 cut(s) 49, 86, 94, 626
EciI GGCGGA 1 cut(s) 734
Eco105I TACGTA 1 cut(s) 682
Eco130I CCWWGG 2 cut(s) 156, 752
Eco32I GATATC 1 cut(s) 673
Eco57I CTGAAG 2 cut(s) 543, 761
EcoRV GATATC 1 cut(s) 673
EcoT14I CCWWGG 2 cut(s) 156, 752
ErhI CCWWGG 2 cut(s) 156, 752
Esp3I CGTCTC 1 cut(s) 83
FaeI CATG 8 cut(s) 160, 184, 208, 260, 565, 605, 803, 838
FaiI YATR 9 cut(s) 158, 182, 206, 258, 433, 563, 603, 801, 836
FaqI GGGAC 1 cut(s) 733
FatI CATG 8 cut(s) 156, 180, 204, 256, 561, 601, 799, 834
FbaI TGATCA 1 cut(s) 538
Fnu4HI GCNGC 3 cut(s) 365, 483, 828
FokI GGATG 6 cut(s) 245, 411, 515, 633, 734, 830
Fsp4HI GCNGC 3 cut(s) 365, 483, 828
FspBI CTAG 2 cut(s) 227, 764
GluI GCNGC 3 cut(s) 365, 483, 828
HaeIII GGCC 1 cut(s) 161
HapII CCGG 3 cut(s) 122, 177, 726
HgaI GACGC 3 cut(s) 173, 194, 207
Hin1I GRCGYC 3 cut(s) 165, 186, 199
Hin1II CATG 8 cut(s) 160, 184, 208, 260, 565, 605, 803, 838
HincII GTYRAC 1 cut(s) 855
HindII GTYRAC 1 cut(s) 855
HindIII AAGCTT 1 cut(s) 494
HinfI GANTC 2 cut(s) 296, 440
HpaII CCGG 3 cut(s) 122, 177, 726
Hpy166II GTNNAC 4 cut(s) 405, 685, 772, 855
Hpy188I TCNGA 6 cut(s) 301, 445, 583, 651, 741, 761
Hpy188III TCNNGA 1 cut(s) 257
Hpy8I GTNNAC 4 cut(s) 405, 685, 772, 855
Hpy99I CGWCG 4 cut(s) 167, 201, 215, 218
HpyAV CCTTC 7 cut(s) 61, 120, 128, 588, 694, 709, 728
HpyCH4III ACNGT 2 cut(s) 437, 628
HpyCH4IV ACGT 2 cut(s) 370, 681
HpyCH4V TGCA 4 cut(s) 364, 377, 646, 668
HpyF10VI GCNNNNNNNGC 3 cut(s) 32, 173, 364
HpyF3I CTNAG 1 cut(s) 444
HpySE526I ACGT 2 cut(s) 370, 681
Hsp92I GRCGYC 3 cut(s) 165, 186, 199
Hsp92II CATG 8 cut(s) 160, 184, 208, 260, 565, 605, 803, 838
KroI GCCGGC 1 cut(s) 176
KroNI GCCGGC 1 cut(s) 178
Ksp22I TGATCA 1 cut(s) 538
Kzo9I GATC 3 cut(s) 241, 538, 796
LguI GCTCTTC 1 cut(s) 626
LmnI GCTCC 1 cut(s) 703
Lsp1109I GCAGC 3 cut(s) 376, 469, 839
LweI GCATC 4 cut(s) 156, 163, 655, 712
MaeI CTAG 2 cut(s) 227, 764
MaeII ACGT 2 cut(s) 370, 681
MaeIII GTNAC 2 cut(s) 275, 385
MalI GATC 3 cut(s) 243, 540, 798
MboI GATC 3 cut(s) 241, 538, 796
MfeI CAATTG 1 cut(s) 271
MluCI AATT 2 cut(s) 271, 775
MnlI CCTC 8 cut(s) 97, 120, 125, 212, 451, 685, 705, 724
MroNI GCCGGC 1 cut(s) 176
MroXI GAANNNNTTC 1 cut(s) 222
MseI TTAA 2 cut(s) 18, 859
MslI CAYNNNNRTG 1 cut(s) 400
MspA1I CMGCKG 1 cut(s) 830
MspI CCGG 3 cut(s) 122, 177, 726
MspR9I CCNGG 1 cut(s) 727
MunI CAATTG 1 cut(s) 271
MwoI GCNNNNNNNGC 3 cut(s) 32, 173, 364
NaeI GCCGGC 1 cut(s) 178
NciI CCSGG 1 cut(s) 727
NcoI CCATGG 1 cut(s) 156
NdeII GATC 3 cut(s) 241, 538, 796
NgoMIV GCCGGC 1 cut(s) 176
NlaIII CATG 8 cut(s) 160, 184, 208, 260, 565, 605, 803, 838
NlaIV GGNNCC 1 cut(s) 576
NmuCI GTSAC 1 cut(s) 275
NspI RCATGY 1 cut(s) 565
OliI CACNNNNGTG 1 cut(s) 400
PagI TCATGA 1 cut(s) 256
PciSI GCTCTTC 1 cut(s) 626
PdiI GCCGGC 1 cut(s) 178
PdmI GAANNNNTTC 1 cut(s) 222
PfeI GAWTC 2 cut(s) 296, 440
PflFI GACNNNGTC 1 cut(s) 188
PkrI GCNGC 3 cut(s) 366, 484, 829
Ppu21I YACGTR 1 cut(s) 682
Psp1406I AACGTT 1 cut(s) 370
PspN4I GGNNCC 1 cut(s) 576
PstI CTGCAG 1 cut(s) 366
PsyI GACNNNGTC 1 cut(s) 188
PvuII CAGCTG 1 cut(s) 830
RsaI GTAC 2 cut(s) 269, 569
RsaNI GTAC 2 cut(s) 268, 568
RseI CAYNNNNRTG 1 cut(s) 400
SapI GCTCTTC 1 cut(s) 626
SaqAI TTAA 2 cut(s) 18, 859
SatI GCNGC 3 cut(s) 365, 483, 828
Sau3AI GATC 3 cut(s) 241, 538, 796
ScrFI CCNGG 1 cut(s) 727
SfaNI GCATC 4 cut(s) 156, 163, 655, 712
SfcI CTRYAG 1 cut(s) 362
SmiMI CAYNNNNRTG 1 cut(s) 400
SnaBI TACGTA 1 cut(s) 682
SpeI ACTAGT 1 cut(s) 763
Sse9I AATT 2 cut(s) 271, 775
SsiI CCGC 1 cut(s) 719
SspMI CTAG 2 cut(s) 227, 764
StyD4I CCNGG 1 cut(s) 725
StyI CCWWGG 2 cut(s) 156, 752
TaaI ACNGT 2 cut(s) 437, 628
TaiI ACGT 2 cut(s) 373, 684
TaqI TCGA 2 cut(s) 210, 453
TasI AATT 2 cut(s) 271, 775
TatI WGTACW 2 cut(s) 267, 567
TfiI GAWTC 2 cut(s) 296, 440
Tru1I TTAA 2 cut(s) 18, 859
Tru9I TTAA 2 cut(s) 18, 859
TscAI CASTG 3 cut(s) 13, 331, 631
TseFI GTSAC 1 cut(s) 275
TseI GCWGC 3 cut(s) 364, 482, 827
Tsp45I GTSAC 1 cut(s) 275
TspDTI ATGAA 6 cut(s) 62, 519, 618, 675, 769, 851
TspGWI ACGGA 1 cut(s) 126
TspRI CASTG 3 cut(s) 13, 331, 631
Tth111I GACNNNGTC 1 cut(s) 188
XceI RCATGY 1 cut(s) 565
XmnI GAANNNNTTC 1 cut(s) 222
XspI CTAG 2 cut(s) 227, 764
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.