Rh3BG005400

Isopentenyl-diphosphate Delta-isomerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0009079
Physical Location & Seq
Forward (+)
411500 .. 415037
3538 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG005400.1

Sequence Viewer

Length: 642 bp
ATGAGCAGTGGTCTTCTTAACACAGCTACCAGAGCCACACTCTCTTCTTCCTTCTTCCCCAAATCTCATCTTCATCGTCTCTTCTCCTCTTCTTCTTCAAAACCTTTCCCTTCCCTCCTTCCGGCGAGGTCATCTCCGTCTTTACGCATCTCCACCATGGCCGACGCCCCCGATGCCGGCATGGACGCCGTCCAGCGACGCCTCATGTTCGACGACGAATGTATTCTAGTGGATGAGAATGATCGTGTTGTTGGTCATGACACCAAGTACAATTGTCACTTGATGGAAAAGATTGAATCTGAAAATCTGCTTCACAGAGCTTTCAGTGTGTTTTTGTTCAACTCAAAGAACGAGTTGCTTCTGCAGCAACGTTCTGCAACAAAGGTAACATTCCCACTTGTGTGGACAAACACCTGTTGTAGCCATCCACTATACCGTGAATCTGAGCTTATCGATGAGGAGTGTCTTGGTGTAAGAAATGCTGCCCAAAGGAAGCTTTTGGATGAACTGGGTATCCCTGCTGAAGATGTGCCTGTTGATCAGTTTATTCCTTTGGGTCGCATGTTGTACAAGGCACCTTCTGATGGCAAGTGGGGAGAACATGAACGTAATATTCAGTTTACCCTACGTTGTTTTGCTTAG
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

213

Amino Acids

24.08

Weight (kDa)

6.16

Isoelectric Point (pI)

53.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX PF00293 104 - 207 2e-08 NUDIX domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 574
AclI AACGTT 1 cut(s) 370
AcoI YGGCCR 1 cut(s) 159
AcuI CTGAAG 1 cut(s) 543
AcyI GRCGYC 3 cut(s) 165, 186, 199
AfaI GTAC 2 cut(s) 269, 569
AfiI CCNNNNNNNGG 3 cut(s) 121, 176, 584
AgsI TTSAA 3 cut(s) 99, 296, 340
AleI CACNNNNGTG 1 cut(s) 400
AloI GAACNNNNNNTCC 2 cut(s) 498, 530
AluBI AGCT 4 cut(s) 26, 320, 448, 496
AluI AGCT 4 cut(s) 26, 320, 448, 496
Alw26I GTCTC 1 cut(s) 83
AoxI GGCC 1 cut(s) 159
ApeKI GCWGC 2 cut(s) 364, 482
Asp700I GAANNNNTTC 1 cut(s) 222
BanI GGYRCC 1 cut(s) 574
BbsI GAAGAC 1 cut(s) 5
BbvI GCAGC 2 cut(s) 376, 469
BccI CCATC 3 cut(s) 277, 432, 578
BceAI ACGGC 1 cut(s) 173
BciVI GTATCC 1 cut(s) 524
BclI TGATCA 1 cut(s) 538
BcoDI GTCTC 1 cut(s) 83
BfaI CTAG 1 cut(s) 227
BfmI CTRYAG 1 cut(s) 362
BfuI GTATCC 1 cut(s) 524
BisI GCNGC 2 cut(s) 365, 483
BlsI GCNGC 2 cut(s) 366, 484
BmiI GGNNCC 1 cut(s) 576
BmrI ACTGGG 1 cut(s) 518
BmsI GCATC 2 cut(s) 156, 163
BmuI ACTGGG 1 cut(s) 518
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 4 cut(s) 24, 56, 118, 150
Bsa29I ATCGAT 1 cut(s) 453
BsaHI GRCGYC 3 cut(s) 165, 186, 199
BsaJI CCNNGG 1 cut(s) 156
Bsc4I CCNNNNNNNGG 3 cut(s) 121, 176, 584
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 1 cut(s) 513
BseCI ATCGAT 1 cut(s) 453
BseDI CCNNGG 1 cut(s) 156
BseGI GGATG 3 cut(s) 238, 424, 508
BseLI CCNNNNNNNGG 3 cut(s) 121, 176, 584
BseMII CTCAG 1 cut(s) 435
BseNI ACTGG 1 cut(s) 513
BseRI GAGGAG 2 cut(s) 76, 473
BseXI GCAGC 2 cut(s) 376, 469
BshFI GGCC 1 cut(s) 161
BshNI GGYRCC 1 cut(s) 574
BshVI ATCGAT 1 cut(s) 453
BsiSI CCGG 2 cut(s) 122, 177
BslI CCNNNNNNNGG 3 cut(s) 121, 176, 584
BsmAI GTCTC 1 cut(s) 83
BsmBI CGTCTC 1 cut(s) 83
BsnI GGCC 1 cut(s) 161
Bsp1407I TGTACA 1 cut(s) 567
Bsp143I GATC 2 cut(s) 241, 538
Bsp19I CCATGG 1 cut(s) 156
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
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 1 cut(s) 156
BssMI GATC 2 cut(s) 241, 538
BssNI GRCGYC 3 cut(s) 165, 186, 199
BssT1I CCWWGG 1 cut(s) 156
Bst4CI ACNGT 1 cut(s) 437
Bst6I CTCTTC 3 cut(s) 49, 86, 94
BstACI GRCGYC 3 cut(s) 165, 186, 199
BstAUI TGTACA 1 cut(s) 567
BstC8I GCNNGC 1 cut(s) 178
BstDEI CTNAG 2 cut(s) 444, 639
BstDSI CCRYGG 1 cut(s) 156
BstF5I GGATG 3 cut(s) 238, 424, 508
BstKTI GATC 2 cut(s) 244, 541
BstMAI GTCTC 1 cut(s) 83
BstMBI GATC 2 cut(s) 241, 538
BstMWI GCNNNNNNNGC 3 cut(s) 32, 173, 364
BstNSI RCATGY 1 cut(s) 565
BstSFI CTRYAG 1 cut(s) 362
BstV1I GCAGC 2 cut(s) 376, 469
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 3 cut(s) 238, 424, 508
BtsI GCAGTG 1 cut(s) 13
BtsIMutI CAGTG 2 cut(s) 13, 331
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 6 cut(s) 157, 181, 205, 257, 562, 602
CviJI RGCY 7 cut(s) 26, 35, 161, 320, 423, 448, 496
CviKI_1 RGCY 7 cut(s) 26, 35, 161, 320, 423, 448, 496
CviQI GTAC 2 cut(s) 268, 568
DdeI CTNAG 2 cut(s) 444, 639
DpnI GATC 2 cut(s) 243, 540
DpnII GATC 2 cut(s) 241, 538
EaeI YGGCCR 1 cut(s) 159
Eam1104I CTCTTC 3 cut(s) 49, 86, 94
EarI CTCTTC 3 cut(s) 49, 86, 94
Eco130I CCWWGG 1 cut(s) 156
Eco57I CTGAAG 1 cut(s) 543
EcoT14I CCWWGG 1 cut(s) 156
ErhI CCWWGG 1 cut(s) 156
Esp3I CGTCTC 1 cut(s) 83
FaeI CATG 6 cut(s) 160, 184, 208, 260, 565, 605
FaiI YATR 7 cut(s) 158, 182, 206, 258, 433, 563, 603
FatI CATG 6 cut(s) 156, 180, 204, 256, 561, 601
FbaI TGATCA 1 cut(s) 538
Fnu4HI GCNGC 2 cut(s) 365, 483
FokI GGATG 3 cut(s) 245, 411, 515
Fsp4HI GCNGC 2 cut(s) 365, 483
FspBI CTAG 1 cut(s) 227
GluI GCNGC 2 cut(s) 365, 483
HaeIII GGCC 1 cut(s) 161
HapII CCGG 2 cut(s) 122, 177
HgaI GACGC 3 cut(s) 173, 194, 207
Hin1I GRCGYC 3 cut(s) 165, 186, 199
Hin1II CATG 6 cut(s) 160, 184, 208, 260, 565, 605
HindIII AAGCTT 1 cut(s) 494
HinfI GANTC 2 cut(s) 296, 440
HpaII CCGG 2 cut(s) 122, 177
Hpy166II GTNNAC 2 cut(s) 405, 621
Hpy188I TCNGA 3 cut(s) 301, 445, 583
Hpy188III TCNNGA 1 cut(s) 257
Hpy8I GTNNAC 2 cut(s) 405, 621
Hpy99I CGWCG 4 cut(s) 167, 201, 215, 218
HpyAV CCTTC 4 cut(s) 61, 120, 128, 588
HpyCH4III ACNGT 1 cut(s) 437
HpyCH4IV ACGT 3 cut(s) 370, 607, 628
HpyCH4V TGCA 2 cut(s) 364, 377
HpyF10VI GCNNNNNNNGC 3 cut(s) 32, 173, 364
HpyF3I CTNAG 2 cut(s) 444, 639
HpySE526I ACGT 3 cut(s) 370, 607, 628
Hsp92I GRCGYC 3 cut(s) 165, 186, 199
Hsp92II CATG 6 cut(s) 160, 184, 208, 260, 565, 605
KroI GCCGGC 1 cut(s) 176
KroNI GCCGGC 1 cut(s) 178
Ksp22I TGATCA 1 cut(s) 538
Kzo9I GATC 2 cut(s) 241, 538
LpnPI CCDG 8 cut(s) 43, 135, 190, 206, 427, 494, 531, 546
Lsp1109I GCAGC 2 cut(s) 376, 469
LweI GCATC 2 cut(s) 156, 163
MaeI CTAG 1 cut(s) 227
MaeII ACGT 3 cut(s) 370, 607, 628
MaeIII GTNAC 2 cut(s) 275, 385
MalI GATC 2 cut(s) 243, 540
MboI GATC 2 cut(s) 241, 538
MfeI CAATTG 1 cut(s) 271
MluCI AATT 1 cut(s) 271
MnlI CCTC 5 cut(s) 97, 120, 125, 212, 451
MroNI GCCGGC 1 cut(s) 176
MroXI GAANNNNTTC 1 cut(s) 222
MseI TTAA 1 cut(s) 18
MslI CAYNNNNRTG 1 cut(s) 400
MspI CCGG 2 cut(s) 122, 177
MunI CAATTG 1 cut(s) 271
MwoI GCNNNNNNNGC 3 cut(s) 32, 173, 364
NaeI GCCGGC 1 cut(s) 178
NcoI CCATGG 1 cut(s) 156
NdeII GATC 2 cut(s) 241, 538
NgoMIV GCCGGC 1 cut(s) 176
NlaIII CATG 6 cut(s) 160, 184, 208, 260, 565, 605
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
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 2 cut(s) 366, 484
Psp1406I AACGTT 1 cut(s) 370
PspN4I GGNNCC 1 cut(s) 576
PstI CTGCAG 1 cut(s) 366
PsyI GACNNNGTC 1 cut(s) 188
RsaI GTAC 2 cut(s) 269, 569
RsaNI GTAC 2 cut(s) 268, 568
RseI CAYNNNNRTG 1 cut(s) 400
SaqAI TTAA 1 cut(s) 18
SatI GCNGC 2 cut(s) 365, 483
Sau3AI GATC 2 cut(s) 241, 538
SfaNI GCATC 2 cut(s) 156, 163
SfcI CTRYAG 1 cut(s) 362
SmiMI CAYNNNNRTG 1 cut(s) 400
Sse9I AATT 1 cut(s) 271
SspI AATATT 1 cut(s) 613
SspMI CTAG 1 cut(s) 227
StyI CCWWGG 1 cut(s) 156
TaaI ACNGT 1 cut(s) 437
TaiI ACGT 3 cut(s) 373, 610, 631
TaqI TCGA 2 cut(s) 210, 453
TasI AATT 1 cut(s) 271
TatI WGTACW 2 cut(s) 267, 567
TfiI GAWTC 2 cut(s) 296, 440
Tru1I TTAA 1 cut(s) 18
Tru9I TTAA 1 cut(s) 18
TscAI CASTG 2 cut(s) 13, 331
TseFI GTSAC 1 cut(s) 275
TseI GCWGC 2 cut(s) 364, 482
Tsp45I GTSAC 1 cut(s) 275
TspDTI ATGAA 3 cut(s) 62, 519, 618
TspGWI ACGGA 1 cut(s) 126
TspRI CASTG 2 cut(s) 13, 331
Tth111I GACNNNGTC 1 cut(s) 188
XceI RCATGY 1 cut(s) 565
XmnI GAANNNNTTC 1 cut(s) 222
XspI CTAG 1 cut(s) 227
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.