RchiOBHm_Chr3g0447851

Isopentenyl-diphosphate Delta-isomerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0009079
Physical Location & Seq
Forward (+)
381008 .. 384439
3432 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ41531

Sequence Viewer

Length: 858 bp
ATGAGCAGTGGTCTTCTTAACACAGCTACCAGAGCCACACTCTCTTCTTCCTTCTTCCCCAAATCCCATCTTCATCGTCTCTTCTCTTCTTCTTCAAAACCTTTCCCTTCTCTCCTTCCGGCGAGGTCATCTCCGTCTTTACGCATCTCCACCATGGCCGACGCCCCCGATGCCGGCATGGACGCCGTCCAGCGACGCCTCATGTTCGACGACGAATGTATTCTAGTGGATGAGAATGATCGTGTGGTTGGTCATGACACCAAGTACAATTGTCACTTGATGGAAAAGATTGAATCTGAAAATCTGCTTCACAGAGCTTTCAGTGTGTTTTTGTTCAACTCAAAGAACGAGTTGCTTCTTCAGCAACGTTCTGCAACAAAGGTAACATTCCCACTTGTGTGGACAAACACCTGTTGTAGCCATCCACTATACCGTGAATCTGAGCTTATCGATGAGGAGTGTCTTGGTGTAAGAAATGCTGCCCAAAGGAAGCTTTTGGATGAACTGGGTATCCCTGCTGAAGATGTGCCTGTTGATCAGTTTATTCCTTTGGGTCGCATGTTGTACAAGGCACCTTCTGATGGCAAGTGGGGAGAACATGAACTTGATTACCTGCTCTTCACTGTGCGAGATGTGAATGTGCATCCGAACCCTGATGAAGTTGCAGATATCAAATACGTAAACCAAGAGGAGTTGAAGGAGCTGTTGAGGAAGGCGGATGCCGGGGAGGAAGGTCTGAAGCTGTCCCCTTGGTTCAGACTAGTTGTGGACAATTTCCTCTTCAAGTGGTGGGATCATGTTGAGAAACGCACCATCAAGGAAGCTGCTGACATGAAAACCATCCACAGGTTGACTTAA
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

285

Amino Acids

32.63

Weight (kDa)

5.72

Isoelectric Point (pI)

41.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX PF00293 103 - 238 3e-14 NUDIX domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 621
AccB1I GGYRCC 1 cut(s) 571
AciI CCGC 1 cut(s) 716
AclI AACGTT 1 cut(s) 367
AclWI GGATC 1 cut(s) 801
AcoI YGGCCR 1 cut(s) 156
AcuI CTGAAG 3 cut(s) 344, 540, 758
AcyI GRCGYC 3 cut(s) 162, 183, 196
AfaI GTAC 2 cut(s) 266, 566
AfiI CCNNNNNNNGG 3 cut(s) 173, 581, 846
AgsI TTSAA 5 cut(s) 96, 293, 337, 697, 784
AhlI ACTAGT 1 cut(s) 760
AleI CACNNNNGTG 1 cut(s) 397
AloI GAACNNNNNNTCC 2 cut(s) 495, 527
AluBI AGCT 7 cut(s) 26, 317, 445, 493, 703, 742, 824
AluI AGCT 7 cut(s) 26, 317, 445, 493, 703, 742, 824
Alw26I GTCTC 1 cut(s) 83
AlwI GGATC 1 cut(s) 801
AoxI GGCC 1 cut(s) 156
ApeKI GCWGC 2 cut(s) 479, 824
Asp700I GAANNNNTTC 1 cut(s) 219
AsuC2I CCSGG 1 cut(s) 724
BanI GGYRCC 1 cut(s) 571
BbsI GAAGAC 1 cut(s) 5
BbvI GCAGC 2 cut(s) 466, 811
BccI CCATC 6 cut(s) 75, 274, 429, 575, 821, 848
BceAI ACGGC 1 cut(s) 170
BciVI GTATCC 1 cut(s) 521
BclI TGATCA 1 cut(s) 535
BcnI CCSGG 1 cut(s) 724
BcoDI GTCTC 1 cut(s) 83
BcuI ACTAGT 1 cut(s) 760
BfaI CTAG 2 cut(s) 224, 761
BfuAI ACCTGC 1 cut(s) 621
BfuI GTATCC 1 cut(s) 521
BisI GCNGC 2 cut(s) 480, 825
BlsI GCNGC 2 cut(s) 481, 826
Bme1390I CCNGG 1 cut(s) 724
BmiI GGNNCC 1 cut(s) 573
BmrFI CCNGG 1 cut(s) 724
BmrI ACTGGG 1 cut(s) 515
BmsI GCATC 4 cut(s) 153, 160, 652, 709
BmuI ACTGGG 1 cut(s) 515
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 4 cut(s) 24, 56, 115, 147
BpuMI CCSGG 1 cut(s) 724
Bsa29I ATCGAT 1 cut(s) 450
BsaAI YACGTR 1 cut(s) 679
BsaHI GRCGYC 3 cut(s) 162, 183, 196
BsaJI CCNNGG 3 cut(s) 153, 723, 749
Bsc4I CCNNNNNNNGG 3 cut(s) 173, 581, 846
Bse118I RCCGGY 1 cut(s) 173
Bse1I ACTGG 1 cut(s) 510
BseCI ATCGAT 1 cut(s) 450
BseDI CCNNGG 3 cut(s) 153, 723, 749
BseGI GGATG 6 cut(s) 235, 421, 505, 643, 724, 840
BseLI CCNNNNNNNGG 3 cut(s) 173, 581, 846
BseMII CTCAG 1 cut(s) 432
BseNI ACTGG 1 cut(s) 510
BseRI GAGGAG 2 cut(s) 470, 704
BseXI GCAGC 2 cut(s) 466, 811
BshFI GGCC 1 cut(s) 158
BshNI GGYRCC 1 cut(s) 571
BshVI ATCGAT 1 cut(s) 450
BsiSI CCGG 3 cut(s) 119, 174, 723
BslFI GGGAC 1 cut(s) 730
BslI CCNNNNNNNGG 3 cut(s) 173, 581, 846
BsmAI GTCTC 1 cut(s) 83
BsmBI CGTCTC 1 cut(s) 83
BsmFI GGGAC 1 cut(s) 730
BsnI GGCC 1 cut(s) 158
Bsp1407I TGTACA 1 cut(s) 564
Bsp143I GATC 3 cut(s) 238, 535, 793
Bsp19I CCATGG 1 cut(s) 153
BspACI CCGC 1 cut(s) 716
BspANI GGCC 1 cut(s) 158
BspCNI CTCAG 1 cut(s) 433
BspDI ATCGAT 1 cut(s) 450
BspHI TCATGA 1 cut(s) 253
BspLI GGNNCC 1 cut(s) 573
BspMI ACCTGC 1 cut(s) 621
BspPI GGATC 1 cut(s) 801
BspQI GCTCTTC 1 cut(s) 623
BspT107I GGYRCC 1 cut(s) 571
BsrFI RCCGGY 1 cut(s) 173
BsrGI TGTACA 1 cut(s) 564
BsrI ACTGG 1 cut(s) 510
BssAI RCCGGY 1 cut(s) 173
BssECI CCNNGG 3 cut(s) 153, 723, 749
BssMI GATC 3 cut(s) 238, 535, 793
BssNI GRCGYC 3 cut(s) 162, 183, 196
BssT1I CCWWGG 2 cut(s) 153, 749
Bst4CI ACNGT 2 cut(s) 434, 625
Bst6I CTCTTC 5 cut(s) 49, 86, 91, 623, 785
BstACI GRCGYC 3 cut(s) 162, 183, 196
BstAUI TGTACA 1 cut(s) 564
BstBAI YACGTR 1 cut(s) 679
BstC8I GCNNGC 1 cut(s) 175
BstDEI CTNAG 1 cut(s) 441
BstDSI CCRYGG 1 cut(s) 153
BstF5I GGATG 6 cut(s) 235, 421, 505, 643, 724, 840
BstKTI GATC 3 cut(s) 241, 538, 796
BstMAI GTCTC 1 cut(s) 83
BstMBI GATC 3 cut(s) 238, 535, 793
BstMWI GCNNNNNNNGC 3 cut(s) 32, 170, 361
BstNSI RCATGY 1 cut(s) 562
BstSCI CCNGG 1 cut(s) 722
BstSNI TACGTA 1 cut(s) 679
BstV1I GCAGC 2 cut(s) 466, 811
BstV2I GAAGAC 1 cut(s) 5
BstXI CCANNNNNNTGG 1 cut(s) 399
Bsu15I ATCGAT 1 cut(s) 450
BsuI GTATCC 1 cut(s) 521
BsuRI GGCC 1 cut(s) 158
BsuTUI ATCGAT 1 cut(s) 450
BtgI CCRYGG 1 cut(s) 153
BtsCI GGATG 6 cut(s) 235, 421, 505, 643, 724, 840
BtsI GCAGTG 1 cut(s) 13
BtsIMutI CAGTG 3 cut(s) 13, 328, 621
BveI ACCTGC 1 cut(s) 621
Cac8I GCNNGC 1 cut(s) 175
CciI TCATGA 1 cut(s) 253
Cfr10I RCCGGY 1 cut(s) 173
ClaI ATCGAT 1 cut(s) 450
CseI GACGC 3 cut(s) 170, 191, 204
Csp6I GTAC 2 cut(s) 265, 565
CviAII CATG 8 cut(s) 154, 178, 202, 254, 559, 599, 797, 832
CviQI GTAC 2 cut(s) 265, 565
DdeI CTNAG 1 cut(s) 441
DpnI GATC 3 cut(s) 240, 537, 795
DpnII GATC 3 cut(s) 238, 535, 793
EaeI YGGCCR 1 cut(s) 156
Eam1104I CTCTTC 5 cut(s) 49, 86, 91, 623, 785
EarI CTCTTC 5 cut(s) 49, 86, 91, 623, 785
EciI GGCGGA 1 cut(s) 731
Eco105I TACGTA 1 cut(s) 679
Eco130I CCWWGG 2 cut(s) 153, 749
Eco32I GATATC 1 cut(s) 670
Eco57I CTGAAG 3 cut(s) 344, 540, 758
EcoRV GATATC 1 cut(s) 670
EcoT14I CCWWGG 2 cut(s) 153, 749
ErhI CCWWGG 2 cut(s) 153, 749
Esp3I CGTCTC 1 cut(s) 83
FaeI CATG 8 cut(s) 157, 181, 205, 257, 562, 602, 800, 835
FaiI YATR 9 cut(s) 155, 179, 203, 255, 430, 560, 600, 798, 833
FaqI GGGAC 1 cut(s) 730
FatI CATG 8 cut(s) 153, 177, 201, 253, 558, 598, 796, 831
FbaI TGATCA 1 cut(s) 535
Fnu4HI GCNGC 2 cut(s) 480, 825
FokI GGATG 6 cut(s) 242, 408, 512, 630, 731, 827
Fsp4HI GCNGC 2 cut(s) 480, 825
FspBI CTAG 2 cut(s) 224, 761
GluI GCNGC 2 cut(s) 480, 825
HaeIII GGCC 1 cut(s) 158
HapII CCGG 3 cut(s) 119, 174, 723
HgaI GACGC 3 cut(s) 170, 191, 204
Hin1I GRCGYC 3 cut(s) 162, 183, 196
Hin1II CATG 8 cut(s) 157, 181, 205, 257, 562, 602, 800, 835
HincII GTYRAC 1 cut(s) 852
HindII GTYRAC 1 cut(s) 852
HindIII AAGCTT 1 cut(s) 491
HinfI GANTC 2 cut(s) 293, 437
HpaII CCGG 3 cut(s) 119, 174, 723
Hpy166II GTNNAC 4 cut(s) 402, 682, 769, 852
Hpy188I TCNGA 6 cut(s) 298, 442, 580, 648, 738, 758
Hpy188III TCNNGA 1 cut(s) 254
Hpy8I GTNNAC 4 cut(s) 402, 682, 769, 852
Hpy99I CGWCG 4 cut(s) 164, 198, 212, 215
HpyAV CCTTC 7 cut(s) 61, 117, 125, 585, 691, 706, 725
HpyCH4III ACNGT 2 cut(s) 434, 625
HpyCH4IV ACGT 2 cut(s) 367, 678
HpyCH4V TGCA 3 cut(s) 374, 643, 665
HpyF10VI GCNNNNNNNGC 3 cut(s) 32, 170, 361
HpyF3I CTNAG 1 cut(s) 441
HpySE526I ACGT 2 cut(s) 367, 678
Hsp92I GRCGYC 3 cut(s) 162, 183, 196
Hsp92II CATG 8 cut(s) 157, 181, 205, 257, 562, 602, 800, 835
KroI GCCGGC 1 cut(s) 173
KroNI GCCGGC 1 cut(s) 175
Ksp22I TGATCA 1 cut(s) 535
Kzo9I GATC 3 cut(s) 238, 535, 793
LguI GCTCTTC 1 cut(s) 623
LmnI GCTCC 1 cut(s) 700
Lsp1109I GCAGC 2 cut(s) 466, 811
LweI GCATC 4 cut(s) 153, 160, 652, 709
MaeI CTAG 2 cut(s) 224, 761
MaeII ACGT 2 cut(s) 367, 678
MaeIII GTNAC 2 cut(s) 272, 382
MalI GATC 3 cut(s) 240, 537, 795
MboI GATC 3 cut(s) 238, 535, 793
MfeI CAATTG 1 cut(s) 268
MluCI AATT 2 cut(s) 268, 772
MnlI CCTC 7 cut(s) 117, 209, 448, 682, 702, 721, 788
MroNI GCCGGC 1 cut(s) 173
MroXI GAANNNNTTC 1 cut(s) 219
MseI TTAA 2 cut(s) 18, 856
MslI CAYNNNNRTG 1 cut(s) 397
MspI CCGG 3 cut(s) 119, 174, 723
MspR9I CCNGG 1 cut(s) 724
MunI CAATTG 1 cut(s) 268
MwoI GCNNNNNNNGC 3 cut(s) 32, 170, 361
NaeI GCCGGC 1 cut(s) 175
NciI CCSGG 1 cut(s) 724
NcoI CCATGG 1 cut(s) 153
NdeII GATC 3 cut(s) 238, 535, 793
NgoMIV GCCGGC 1 cut(s) 173
NlaIII CATG 8 cut(s) 157, 181, 205, 257, 562, 602, 800, 835
NlaIV GGNNCC 1 cut(s) 573
NmuCI GTSAC 1 cut(s) 272
NspI RCATGY 1 cut(s) 562
OliI CACNNNNGTG 1 cut(s) 397
PagI TCATGA 1 cut(s) 253
PciSI GCTCTTC 1 cut(s) 623
PdiI GCCGGC 1 cut(s) 175
PdmI GAANNNNTTC 1 cut(s) 219
PfeI GAWTC 2 cut(s) 293, 437
PflFI GACNNNGTC 1 cut(s) 185
PkrI GCNGC 2 cut(s) 481, 826
Ppu21I YACGTR 1 cut(s) 679
Psp1406I AACGTT 1 cut(s) 367
PspN4I GGNNCC 1 cut(s) 573
PsyI GACNNNGTC 1 cut(s) 185
RsaI GTAC 2 cut(s) 266, 566
RsaNI GTAC 2 cut(s) 265, 565
RseI CAYNNNNRTG 1 cut(s) 397
SapI GCTCTTC 1 cut(s) 623
SaqAI TTAA 2 cut(s) 18, 856
SatI GCNGC 2 cut(s) 480, 825
Sau3AI GATC 3 cut(s) 238, 535, 793
ScrFI CCNGG 1 cut(s) 724
SfaNI GCATC 4 cut(s) 153, 160, 652, 709
SmiMI CAYNNNNRTG 1 cut(s) 397
SnaBI TACGTA 1 cut(s) 679
SpeI ACTAGT 1 cut(s) 760
Sse9I AATT 2 cut(s) 268, 772
SsiI CCGC 1 cut(s) 716
SspMI CTAG 2 cut(s) 224, 761
StyD4I CCNGG 1 cut(s) 722
StyI CCWWGG 2 cut(s) 153, 749
TaaI ACNGT 2 cut(s) 434, 625
TaiI ACGT 2 cut(s) 370, 681
TaqI TCGA 2 cut(s) 207, 450
TasI AATT 2 cut(s) 268, 772
TatI WGTACW 2 cut(s) 264, 564
TfiI GAWTC 2 cut(s) 293, 437
Tru1I TTAA 2 cut(s) 18, 856
Tru9I TTAA 2 cut(s) 18, 856
TscAI CASTG 3 cut(s) 13, 328, 628
TseFI GTSAC 1 cut(s) 272
TseI GCWGC 2 cut(s) 479, 824
Tsp45I GTSAC 1 cut(s) 272
TspDTI ATGAA 5 cut(s) 62, 516, 615, 672, 848
TspGWI ACGGA 1 cut(s) 123
TspRI CASTG 3 cut(s) 13, 328, 628
Tth111I GACNNNGTC 1 cut(s) 185
XceI RCATGY 1 cut(s) 562
XmnI GAANNNNTTC 1 cut(s) 219
XspI CTAG 2 cut(s) 224, 761
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.