Rroxscaffold_6G00426050

Isopentenyl-diphosphate Delta-isomerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0009079
Physical Location & Seq
Forward (+)
46940405 .. 46943250
2846 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00426050.1

Sequence Viewer

Length: 603 bp
ATGAGTAGTGGTCTTCTTAACACAGCTACCAGAGCCACACTCTCTTCTTCCTTCTTCCCCAAATCTCATCTTCGTCGTCTCTTCTCTTCTTCTTCTTCAAAACCTTTCCCTTCTCTCCTTCCGGCGAGGTCATCTCCGTCTTTACGCATCTCCACCATGGCCGACGCCCCCGATGCCGGCATGGACGCCGTCCAGCGACGCCTCATGTTCGACGACGAAAATGCTGCCCAAAGGAAGCTTTTGGATGAACTGGGTATCCCTGCTGAAGATGTGCCTGTTGATCAGTTTATTCCTTTGGGTCGCATGTTGTACAAGGCACCTTCTGATGGCAAGTGGGGAGAGCATGAACTTGACTACCTGCTCTTCACTGTGCGAGATGTGAATGTGCATCCGAACCCTGATGAAGTTGCGGATATCAAATACGTAAACCAAGAGGAGTTGAAGGAGCTGTTGAGGAAGGCGGATGCCGGGGAGGAAGGTCTGAAGCTGTCCCCTTGGTTCAGACTAGTTGTGGACAATTTCCTCTTCAAGTGGTGGGATCATGTTGAGAAACGCACCATCAAGGAAGCTGCTGACATGAAAACCATCCACAGGTTGACTTAA
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

200

Amino Acids

22.71

Weight (kDa)

5.98

Isoelectric Point (pI)

43.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NUDIX PF00293 73 - 154 3.4e-08 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) 366
AccB1I GGYRCC 1 cut(s) 316
AciI CCGC 2 cut(s) 410, 461
AclWI GGATC 1 cut(s) 546
AcoI YGGCCR 1 cut(s) 159
AcuI CTGAAG 2 cut(s) 285, 503
AcyI GRCGYC 3 cut(s) 165, 186, 199
AfaI GTAC 1 cut(s) 311
AfiI CCNNNNNNNGG 3 cut(s) 176, 326, 591
AgsI TTSAA 3 cut(s) 99, 442, 529
AhlI ACTAGT 1 cut(s) 505
AloI GAACNNNNNNTCC 2 cut(s) 240, 272
AluBI AGCT 5 cut(s) 26, 238, 448, 487, 569
AluI AGCT 5 cut(s) 26, 238, 448, 487, 569
Alw26I GTCTC 1 cut(s) 83
AlwI GGATC 1 cut(s) 546
AoxI GGCC 1 cut(s) 159
ApeKI GCWGC 2 cut(s) 224, 569
AsuC2I CCSGG 1 cut(s) 469
BanI GGYRCC 1 cut(s) 316
BbsI GAAGAC 1 cut(s) 5
BbvI GCAGC 2 cut(s) 211, 556
BccI CCATC 3 cut(s) 320, 566, 593
BceAI ACGGC 1 cut(s) 173
BcgI CGANNNNNNTGC 4 cut(s) 203, 206, 237, 240
BciVI GTATCC 1 cut(s) 266
BclI TGATCA 1 cut(s) 280
BcnI CCSGG 1 cut(s) 469
BcoDI GTCTC 1 cut(s) 83
BcuI ACTAGT 1 cut(s) 505
BfaI CTAG 1 cut(s) 506
BfuAI ACCTGC 1 cut(s) 366
BfuI GTATCC 1 cut(s) 266
BisI GCNGC 2 cut(s) 225, 570
BlsI GCNGC 2 cut(s) 226, 571
Bme1390I CCNGG 1 cut(s) 469
BmiI GGNNCC 1 cut(s) 318
BmrFI CCNGG 1 cut(s) 469
BmrI ACTGGG 1 cut(s) 260
BmsI GCATC 4 cut(s) 156, 163, 397, 454
BmuI ACTGGG 1 cut(s) 260
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 4 cut(s) 24, 56, 118, 150
BpuMI CCSGG 1 cut(s) 469
BsaAI YACGTR 1 cut(s) 424
BsaHI GRCGYC 3 cut(s) 165, 186, 199
BsaJI CCNNGG 3 cut(s) 156, 468, 494
Bsc4I CCNNNNNNNGG 3 cut(s) 176, 326, 591
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 1 cut(s) 255
BseDI CCNNGG 3 cut(s) 156, 468, 494
BseGI GGATG 4 cut(s) 250, 388, 469, 585
BseLI CCNNNNNNNGG 3 cut(s) 176, 326, 591
BseNI ACTGG 1 cut(s) 255
BseRI GAGGAG 1 cut(s) 449
BseXI GCAGC 2 cut(s) 211, 556
BshFI GGCC 1 cut(s) 161
BshNI GGYRCC 1 cut(s) 316
BsiSI CCGG 3 cut(s) 122, 177, 468
BslFI GGGAC 1 cut(s) 475
BslI CCNNNNNNNGG 3 cut(s) 176, 326, 591
BsmAI GTCTC 1 cut(s) 83
BsmBI CGTCTC 1 cut(s) 83
BsmFI GGGAC 1 cut(s) 475
BsnI GGCC 1 cut(s) 161
Bsp1407I TGTACA 1 cut(s) 309
Bsp143I GATC 2 cut(s) 280, 538
Bsp19I CCATGG 1 cut(s) 156
BspACI CCGC 2 cut(s) 410, 461
BspANI GGCC 1 cut(s) 161
BspLI GGNNCC 1 cut(s) 318
BspMI ACCTGC 1 cut(s) 366
BspPI GGATC 1 cut(s) 546
BspQI GCTCTTC 1 cut(s) 368
BspT107I GGYRCC 1 cut(s) 316
BsrFI RCCGGY 1 cut(s) 176
BsrGI TGTACA 1 cut(s) 309
BsrI ACTGG 1 cut(s) 255
BssAI RCCGGY 1 cut(s) 176
BssECI CCNNGG 3 cut(s) 156, 468, 494
BssMI GATC 2 cut(s) 280, 538
BssNI GRCGYC 3 cut(s) 165, 186, 199
BssT1I CCWWGG 2 cut(s) 156, 494
Bst4CI ACNGT 1 cut(s) 370
Bst6I CTCTTC 5 cut(s) 49, 86, 91, 368, 530
BstACI GRCGYC 3 cut(s) 165, 186, 199
BstAUI TGTACA 1 cut(s) 309
BstBAI YACGTR 1 cut(s) 424
BstC8I GCNNGC 1 cut(s) 178
BstDSI CCRYGG 1 cut(s) 156
BstF5I GGATG 4 cut(s) 250, 388, 469, 585
BstKTI GATC 2 cut(s) 283, 541
BstMAI GTCTC 1 cut(s) 83
BstMBI GATC 2 cut(s) 280, 538
BstMWI GCNNNNNNNGC 2 cut(s) 32, 173
BstNSI RCATGY 1 cut(s) 307
BstSCI CCNGG 1 cut(s) 467
BstSNI TACGTA 1 cut(s) 424
BstV1I GCAGC 2 cut(s) 211, 556
BstV2I GAAGAC 1 cut(s) 5
BsuI GTATCC 1 cut(s) 266
BsuRI GGCC 1 cut(s) 161
BtgI CCRYGG 1 cut(s) 156
BtsCI GGATG 4 cut(s) 250, 388, 469, 585
BtsIMutI CAGTG 1 cut(s) 366
BveI ACCTGC 1 cut(s) 366
Cac8I GCNNGC 1 cut(s) 178
Cfr10I RCCGGY 1 cut(s) 176
CseI GACGC 3 cut(s) 173, 194, 207
Csp6I GTAC 1 cut(s) 310
CviAII CATG 7 cut(s) 157, 181, 205, 304, 344, 542, 577
CviJI RGCY 7 cut(s) 26, 35, 161, 238, 448, 487, 569
CviKI_1 RGCY 7 cut(s) 26, 35, 161, 238, 448, 487, 569
CviQI GTAC 1 cut(s) 310
DpnI GATC 2 cut(s) 282, 540
DpnII GATC 2 cut(s) 280, 538
EaeI YGGCCR 1 cut(s) 159
Eam1104I CTCTTC 5 cut(s) 49, 86, 91, 368, 530
EarI CTCTTC 5 cut(s) 49, 86, 91, 368, 530
EciI GGCGGA 1 cut(s) 476
Eco105I TACGTA 1 cut(s) 424
Eco130I CCWWGG 2 cut(s) 156, 494
Eco32I GATATC 1 cut(s) 415
Eco57I CTGAAG 2 cut(s) 285, 503
EcoRV GATATC 1 cut(s) 415
EcoT14I CCWWGG 2 cut(s) 156, 494
ErhI CCWWGG 2 cut(s) 156, 494
Esp3I CGTCTC 1 cut(s) 83
FaeI CATG 7 cut(s) 160, 184, 208, 307, 347, 545, 580
FaiI YATR 7 cut(s) 158, 182, 206, 305, 345, 543, 578
FaqI GGGAC 1 cut(s) 475
FatI CATG 7 cut(s) 156, 180, 204, 303, 343, 541, 576
FbaI TGATCA 1 cut(s) 280
Fnu4HI GCNGC 2 cut(s) 225, 570
FokI GGATG 4 cut(s) 257, 375, 476, 572
Fsp4HI GCNGC 2 cut(s) 225, 570
FspBI CTAG 1 cut(s) 506
GluI GCNGC 2 cut(s) 225, 570
HaeIII GGCC 1 cut(s) 161
HapII CCGG 3 cut(s) 122, 177, 468
HgaI GACGC 3 cut(s) 173, 194, 207
Hin1I GRCGYC 3 cut(s) 165, 186, 199
Hin1II CATG 7 cut(s) 160, 184, 208, 307, 347, 545, 580
HincII GTYRAC 1 cut(s) 597
HindII GTYRAC 1 cut(s) 597
HindIII AAGCTT 1 cut(s) 236
HpaII CCGG 3 cut(s) 122, 177, 468
Hpy166II GTNNAC 3 cut(s) 427, 514, 597
Hpy188I TCNGA 4 cut(s) 325, 393, 483, 503
Hpy8I GTNNAC 3 cut(s) 427, 514, 597
Hpy99I CGWCG 5 cut(s) 78, 167, 201, 215, 218
HpyAV CCTTC 7 cut(s) 61, 120, 128, 330, 436, 451, 470
HpyCH4III ACNGT 1 cut(s) 370
HpyCH4IV ACGT 1 cut(s) 423
HpyCH4V TGCA 1 cut(s) 388
HpyF10VI GCNNNNNNNGC 2 cut(s) 32, 173
HpySE526I ACGT 1 cut(s) 423
Hsp92I GRCGYC 3 cut(s) 165, 186, 199
Hsp92II CATG 7 cut(s) 160, 184, 208, 307, 347, 545, 580
KroI GCCGGC 1 cut(s) 176
KroNI GCCGGC 1 cut(s) 178
Ksp22I TGATCA 1 cut(s) 280
Kzo9I GATC 2 cut(s) 280, 538
LguI GCTCTTC 1 cut(s) 368
LmnI GCTCC 1 cut(s) 445
Lsp1109I GCAGC 2 cut(s) 211, 556
LweI GCATC 4 cut(s) 156, 163, 397, 454
MaeI CTAG 1 cut(s) 506
MaeII ACGT 1 cut(s) 423
MalI GATC 2 cut(s) 282, 540
MboI GATC 2 cut(s) 280, 538
MluCI AATT 1 cut(s) 517
MnlI CCTC 6 cut(s) 120, 212, 427, 447, 466, 533
MroNI GCCGGC 1 cut(s) 176
MseI TTAA 2 cut(s) 18, 601
MspI CCGG 3 cut(s) 122, 177, 468
MspR9I CCNGG 1 cut(s) 469
MwoI GCNNNNNNNGC 2 cut(s) 32, 173
NaeI GCCGGC 1 cut(s) 178
NciI CCSGG 1 cut(s) 469
NcoI CCATGG 1 cut(s) 156
NdeII GATC 2 cut(s) 280, 538
NgoMIV GCCGGC 1 cut(s) 176
NlaIII CATG 7 cut(s) 160, 184, 208, 307, 347, 545, 580
NlaIV GGNNCC 1 cut(s) 318
NspI RCATGY 1 cut(s) 307
PciSI GCTCTTC 1 cut(s) 368
PdiI GCCGGC 1 cut(s) 178
PflFI GACNNNGTC 1 cut(s) 188
PkrI GCNGC 2 cut(s) 226, 571
Ppu21I YACGTR 1 cut(s) 424
PspN4I GGNNCC 1 cut(s) 318
PsyI GACNNNGTC 1 cut(s) 188
RsaI GTAC 1 cut(s) 311
RsaNI GTAC 1 cut(s) 310
SapI GCTCTTC 1 cut(s) 368
SaqAI TTAA 2 cut(s) 18, 601
SatI GCNGC 2 cut(s) 225, 570
Sau3AI GATC 2 cut(s) 280, 538
ScrFI CCNGG 1 cut(s) 469
SfaNI GCATC 4 cut(s) 156, 163, 397, 454
SnaBI TACGTA 1 cut(s) 424
SpeI ACTAGT 1 cut(s) 505
Sse9I AATT 1 cut(s) 517
SsiI CCGC 2 cut(s) 410, 461
SspMI CTAG 1 cut(s) 506
StyD4I CCNGG 1 cut(s) 467
StyI CCWWGG 2 cut(s) 156, 494
TaaI ACNGT 1 cut(s) 370
TaiI ACGT 1 cut(s) 426
TaqI TCGA 1 cut(s) 210
TasI AATT 1 cut(s) 517
TatI WGTACW 1 cut(s) 309
Tru1I TTAA 2 cut(s) 18, 601
Tru9I TTAA 2 cut(s) 18, 601
TscAI CASTG 1 cut(s) 373
TseI GCWGC 2 cut(s) 224, 569
TspDTI ATGAA 4 cut(s) 261, 360, 417, 593
TspGWI ACGGA 1 cut(s) 126
TspRI CASTG 1 cut(s) 373
Tth111I GACNNNGTC 1 cut(s) 188
XceI RCATGY 1 cut(s) 307
XspI CTAG 1 cut(s) 506
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.