Rh1DG160800

squalene

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000108
Physical Location & Seq
Reverse (-)
33195564 .. 33196277
714 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG160800.1

Sequence Viewer

Length: 504 bp
ATGAGAACATATGCTCCACTAACAATTGTGTGCGATGGCTGCCTTTCAAATCTGAGCAAATCTCTCAGTGCACCGAAGGTTGAAAGTCCCTCTTGTTTTGTTGGTTTGATCTTGGAGAACTGTGAGCTTCCACATGCAAATCATGGACATGTCATTTTGGGAGATCCTTCACGTATCTTGTTTTATCCCATCAGTAGCACAGAAGTTCGCTGTTTGGTGGATGTACCTGGAACCAAAGTACCTTCAGTAGCTAATGGTGAAATGGCTAACTATTTGAAAACTATGGTGGCTGCTGAGATTCCCCCACAGCTGCACAATGATTTTATGGTCACACTAGAGAAAGGAAACATCAGAACAATGCAAAACAAAAGCATGGCTGCTAATCCTGTCCCCACTCCTGGTGCAATTTTATTGGGGGATGCATTCAACATGAGGCAGCCTTTAACAGGAGGAGGGAATGACTCTGGCTCTTTCAGACCTTGTTCTTCTCCGCAATCTTCTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00100 ko00909 ko01100 ko01110 ko01130 map00100 map00909 map01100 map01110 map01130
Pfam Domains
Protein Families
SE

Protein Analysis

167

Amino Acids

17.77

Weight (kDa)

6.4

Isoelectric Point (pI)

56.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SE PF08491 5 - 152 3.2e-58 Squalene epoxidase
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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Orthologous Genes (Group: OG0000108)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G22830 AT4G37760
fragaria_vesca FvH4_1g18300 FvH4_1g20540 FvH4_2g02580 FvH4_2g02590 FvH4_2g02590 FvH4_2g02590 FvH4_2g02600 FvH4_2g02650 FvH4_2g02652 FvH4_2g02652 FvH4_2g02652 FvH4_2g02652 FvH4_2g02660 FvH4_2g02660 FvH4_2g02660 FvH4_2g02660 FvH4_4g14040 FvH4_4g14050
malus_domestica MD00G1080800.v1.1 MD02G1190300.v1.1 MD02G1272900.v1.1 MD05G1111800.v1.1 MD05G1112000.v1.1 MD05G1112100.v1.1 MD05G1112200.v1.1 MD07G1041500.v1.1 MD07G1041600.v1.1 MD07G1041700.v1.1 MD07G1041800.v1.1 MD07G1041900.v1.1 MD07G1042000.v1.1 MD10G1114800.v1.1 MD15G1301500.v1.1
prunus_persica Prupe.6G216100_v2.0.a1 Prupe.8G156600_v2.0.a1 Prupe.8G156800_v2.0.a1
pyrus_communis pycom02g15440 pycom02g15450 pycom02g23370 pycom02g23380 pycom05g10720 pycom05g10730 pycom05g10770 pycom07g02910 pycom07g02920 pycom07g02930 pycom07g02940 pycom07g02950 pycom07g02960 pycom10g09930 pycom15g26420 pycom15g26430
rosa_chinensis RchiOBHm_Chr1g0337291 RchiOBHm_Chr1g0337301 RchiOBHm_Chr2g0108881 RchiOBHm_Chr2g0108891 RchiOBHm_Chr2g0108921 RchiOBHm_Chr4g0411471 RchiOBHm_Chr4g0411481 RchiOBHm_Chr4g0411491 RchiOBHm_Chr4g0419301 RchiOBHm_Chr4g0419311 RchiOBHm_Chr4g0419381 RchiOBHm_Chr4g0419391 RchiOBHm_Chr4g0419471 RchiOBHm_Chr4g0419611 RchiOBHm_Chr6g0246411 RchiOBHm_Chr6g0246421 RchiOBHm_Chr6g0246521 RchiOBHm_Chr6g0246791 RchiOBHm_Chr6g0246801 RchiOBHm_Chr6g0246811 RchiOBHm_Chr6g0246841 RchiOBHm_Chr6g0246851 RchiOBHm_Chr6g0246941 RchiOBHm_Chr6g0246951 RchiOBHm_Chr6g0246961 RchiOBHm_Chr6g0246981 RchiOBHm_Chr6g0246991 RchiOBHm_Chr6g0247001 RchiOBHm_Chr7g0177171 RchiOBHm_Chr7g0177181 RchiOBHm_Chr7g0177191
rosa_laevigata RLG00000007810 RLG00000007811 RLG00000007817 RLG00000008351 RLG00000008352 RLG00000008353 RLG00000013274 RLG00000014276 RLG00000015230 RLG00000015231 RLG00000015232 RLG00000015236 RLG00000015237 RLG00000015238 RLG00000015239 RLG00000015240 RLG00000015244 RLG00000015245 RLG00000015246 RLG00000015247 RLG00000017694 RLG00000029286
rosa_multiflora Rmu_co7985368.1_g000001 Rmu_co8117354.1_g000001 Rmu_co8129060.1_g000001 Rmu_co8143900.1_g000001 Rmu_co8230369.1_g000001 Rmu_co8341411.1_g000001 Rmu_co8365495.1_g000001 Rmu_co8367749.1_g000001 Rmu_co8422277.1_g000001 Rmu_sc0000455.1_g000001 Rmu_sc0000989.1_g000003 Rmu_sc0001293.1_g000004 Rmu_sc0001293.1_g000005 Rmu_sc0001293.1_g000006 Rmu_sc0001293.1_g000007 Rmu_sc0001982.1_g000018 Rmu_sc0001982.1_g000019 Rmu_sc0002539.1_g000051 Rmu_sc0003387.1_g000001 Rmu_sc0004469.1_g000022 Rmu_sc0004830.1_g000004 Rmu_sc0004932.1_g000010 Rmu_sc0005310.1_g000017 Rmu_sc0006222.1_g000001 Rmu_sc0006767.1_g000002 Rmu_sc0006875.1_g000001 Rmu_sc0009831.1_g000001 Rmu_sc0009831.1_g000002 Rmu_sc0009831.1_g000003 Rmu_sc0010547.1_g000017 Rmu_sc0012369.1_g000005 Rmu_sc0012369.1_g000006 Rmu_sc0017606.1_g000010 Rmu_sc0018495.1_g000001 Rmu_sc0018495.1_g000002 Rmu_sc0024638.1_g000002 Rmu_sc0031581.1_g000001 Rmu_sc0032897.1_g000005 Rmu_sc0037307.1_g000001 Rmu_sc0038108.1_g000001 Rmu_sc0041017.1_g000001
rosa_roxburghii Rroxscaffold_176G00431650 Rroxscaffold_2G00134690 Rroxscaffold_2G00134720 Rroxscaffold_4G00314560 Rroxscaffold_4G00326020 Rroxscaffold_5G00356060 Rroxscaffold_5G00356070 Rroxscaffold_5G00362290 Rroxscaffold_5G00362330 Rroxscaffold_5G00362340 Rroxscaffold_5G00362440 Rroxscaffold_5G00362450 Rroxscaffold_7G00203370 Rroxscaffold_7G00214390 Rroxscaffold_7G00214400 Rroxscaffold_7G00214410 Rroxscaffold_7G00214430 Rroxscaffold_7G00214440 Rroxscaffold_7G00214450 Rroxscaffold_7G00214460 Rroxscaffold_7G00214500
rosa_rugosa Rorug01G0134000.1 Rorug01G0134100.1 Rorug01G0134200.1 Rorug02G0156600 Rorug02G0156700 Rorug04G0108500 Rorug04G0108600 Rorug04G0158200 Rorug04G0158500 Rorug04G0158600 Rorug05G0521200 Rorug05G0521300 Rorug05G0521300 Rorug05G0521500 Rorug05G0521600 Rorug05G0521700 Rorug05G0521800 Rorug05G0521900 Rorug06G0011500
rosa_samantha Rh1AG153200 Rh1AG153300 Rh1CG060800 Rh1CG144100 Rh1CG144200 Rh1DG064800 Rh1DG160800 Rh1DG160900 Rh1DG161000 Rh2AG207100 Rh2AG207200 Rh2DG213300 Rh2DG213400 Rh4AG168400 Rh4AG168500 Rh4AG220000 Rh4CG179900 Rh4CG232800 Rh4DG162800 Rh4DG219200 Rh4DG219300 Rh6AG035000 Rh6AG035900 Rh6AG036000 Rh6AG036200 Rh6AG036300 Rh6AG036600 Rh6BG030600 Rh6BG030700 Rh6BG030800 Rh6BG031000 Rh6BG031300 Rh6BG031400 Rh6CG031200 Rh6CG031500 Rh6CG031600 Rh6CG031700 Rh6CG031800 Rh6CG031900 Rh6CG032000 Rh7AG003800
rosa_wichuraiana Rw1G012540 Rw1G012550 Rw2G016450 Rw4G013990 Rw4G014000 Rw4G018830 Rw4G018850 Rw4G018960 Rw4G018970 Rw6G002850 Rw6G003030 Rw6G003040 Rw6G003050 Rw6G003060 Rw6G003100 Rw6G003110 Rw6G003140 Rw6G003150 Rw7G000310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 491
AclWI GGATC 1 cut(s) 158
AcuI CTGAAG 1 cut(s) 228
AfaI GTAC 2 cut(s) 225, 240
AfiI CCNNNNNNNGG 2 cut(s) 398, 446
AflIII ACRYGT 1 cut(s) 148
AgsI TTSAA 4 cut(s) 48, 83, 277, 427
AjnI CCWGG 2 cut(s) 226, 397
AloI GAACNNNNNNTCC 1 cut(s) 30
AluBI AGCT 3 cut(s) 127, 251, 310
AluI AGCT 3 cut(s) 127, 251, 310
Alw21I GWGCWC 1 cut(s) 73
Alw44I GTGCAC 1 cut(s) 69
AlwI GGATC 1 cut(s) 158
ApaLI GTGCAC 1 cut(s) 69
ApeKI GCWGC 5 cut(s) 39, 290, 310, 377, 436
AsuHPI GGTGA 1 cut(s) 269
BaeGI GKGCMC 1 cut(s) 73
BaeI ACNNNNGTAYC 2 cut(s) 222, 255
Bbv12I GWGCWC 1 cut(s) 73
BbvI GCAGC 5 cut(s) 26, 277, 297, 364, 448
BccI CCATC 2 cut(s) 29, 197
BciT130I CCWGG 2 cut(s) 228, 399
BfaI CTAG 1 cut(s) 335
BisI GCNGC 5 cut(s) 40, 291, 311, 378, 437
BlsI GCNGC 5 cut(s) 41, 292, 312, 379, 438
Bme1390I CCNGG 2 cut(s) 228, 399
BmiI GGNNCC 1 cut(s) 232
BmrFI CCNGG 2 cut(s) 228, 399
BmsI GCATC 1 cut(s) 409
BplI GAGNNNNNCTC 2 cut(s) 46, 78
BsaAI YACGTR 1 cut(s) 173
BsaXI ACNNNNNCTCC 1 cut(s) 28
Bsc4I CCNNNNNNNGG 2 cut(s) 398, 446
BseBI CCWGG 2 cut(s) 228, 399
BseGI GGATG 2 cut(s) 226, 424
BseLI CCNNNNNNNGG 2 cut(s) 398, 446
BseMII CTCAG 3 cut(s) 44, 79, 285
BseRI GAGGAG 1 cut(s) 465
BseSI GKGCMC 1 cut(s) 73
BseXI GCAGC 5 cut(s) 26, 277, 297, 364, 448
BsgI GTGCAG 1 cut(s) 296
BsiHKAI GWGCWC 1 cut(s) 73
BslFI GGGAC 2 cut(s) 72, 374
BslI CCNNNNNNNGG 2 cut(s) 398, 446
BsmFI GGGAC 2 cut(s) 72, 374
BsmI GAATGC 1 cut(s) 422
Bsp1286I GDGCHC 1 cut(s) 73
Bsp143I GATC 2 cut(s) 108, 163
BspACI CCGC 1 cut(s) 491
BspCNI CTCAG 3 cut(s) 45, 78, 286
BspLI GGNNCC 1 cut(s) 232
BspPI GGATC 1 cut(s) 158
BssMI GATC 2 cut(s) 108, 163
Bst2UI CCWGG 2 cut(s) 228, 399
Bst4CI ACNGT 1 cut(s) 122
BstBAI YACGTR 1 cut(s) 173
BstDEI CTNAG 4 cut(s) 53, 65, 294, 501
BstENI CCTNNNNNAGG 1 cut(s) 444
BstF5I GGATG 2 cut(s) 226, 424
BstKTI GATC 2 cut(s) 111, 166
BstMBI GATC 2 cut(s) 108, 163
BstMWI GCNNNNNNNGC 1 cut(s) 39
BstNI CCWGG 2 cut(s) 228, 399
BstNSI RCATGY 2 cut(s) 137, 152
BstSCI CCNGG 2 cut(s) 226, 397
BstSLI GKGCMC 1 cut(s) 73
BstV1I GCAGC 5 cut(s) 26, 277, 297, 364, 448
BstX2I RGATCY 1 cut(s) 163
BstYI RGATCY 1 cut(s) 163
BtgZI GCGATG 1 cut(s) 48
BtsCI GGATG 2 cut(s) 226, 424
BtsIMutI CAGTG 1 cut(s) 73
Csp6I GTAC 2 cut(s) 224, 239
CviAII CATG 5 cut(s) 134, 143, 149, 373, 430
CviJI RGCY 9 cut(s) 39, 127, 251, 266, 290, 310, 377, 439, 468
CviKI_1 RGCY 9 cut(s) 39, 127, 251, 266, 290, 310, 377, 439, 468
CviQI GTAC 2 cut(s) 224, 239
DdeI CTNAG 4 cut(s) 53, 65, 294, 501
DpnI GATC 2 cut(s) 110, 165
DpnII GATC 2 cut(s) 108, 163
Eco57I CTGAAG 1 cut(s) 228
EcoNI CCTNNNNNAGG 1 cut(s) 444
EcoRII CCWGG 2 cut(s) 226, 397
EcoT22I ATGCAT 1 cut(s) 424
FaeI CATG 5 cut(s) 137, 146, 152, 376, 433
FaiI YATR 9 cut(s) 10, 12, 135, 144, 150, 284, 326, 374, 431
FalI AAGNNNNNCTT 2 cut(s) 76, 108
FaqI GGGAC 2 cut(s) 72, 374
FatI CATG 5 cut(s) 133, 142, 148, 372, 429
FauNDI CATATG 1 cut(s) 10
Fnu4HI GCNGC 5 cut(s) 40, 291, 311, 378, 437
FokI GGATG 2 cut(s) 233, 431
Fsp4HI GCNGC 5 cut(s) 40, 291, 311, 378, 437
FspBI CTAG 1 cut(s) 335
GluI GCNGC 5 cut(s) 40, 291, 311, 378, 437
Hin1II CATG 5 cut(s) 137, 146, 152, 376, 433
HinfI GANTC 2 cut(s) 298, 461
HphI GGTGA 1 cut(s) 269
Hpy166II GTNNAC 1 cut(s) 71
Hpy188I TCNGA 3 cut(s) 54, 353, 476
Hpy8I GTNNAC 1 cut(s) 71
HpyAV CCTTC 3 cut(s) 70, 177, 252
HpyCH4III ACNGT 1 cut(s) 122
HpyCH4IV ACGT 1 cut(s) 172
HpyCH4V TGCA 6 cut(s) 71, 137, 313, 361, 404, 422
HpyF10VI GCNNNNNNNGC 1 cut(s) 39
HpyF3I CTNAG 4 cut(s) 53, 65, 294, 501
HpySE526I ACGT 1 cut(s) 172
Hsp92II CATG 5 cut(s) 137, 146, 152, 376, 433
Kzo9I GATC 2 cut(s) 108, 163
LmnI GCTCC 1 cut(s) 19
LpnPI CCDG 7 cut(s) 213, 240, 384, 399, 411, 432, 450
Lsp1109I GCAGC 5 cut(s) 26, 277, 297, 364, 448
LweI GCATC 1 cut(s) 409
MaeI CTAG 1 cut(s) 335
MaeII ACGT 1 cut(s) 172
MaeIII GTNAC 1 cut(s) 328
MalI GATC 2 cut(s) 110, 165
MboI GATC 2 cut(s) 108, 163
MboII GAAGA 2 cut(s) 477, 489
MfeI CAATTG 1 cut(s) 24
MflI RGATCY 1 cut(s) 163
MhlI GDGCHC 1 cut(s) 73
MluCI AATT 2 cut(s) 24, 405
MlyI GAGTC 1 cut(s) 455
MnlI CCTC 4 cut(s) 100, 426, 443, 446
Mph1103I ATGCAT 1 cut(s) 424
MseI TTAA 1 cut(s) 443
MslI CAYNNNNRTG 1 cut(s) 147
MspA1I CMGCKG 1 cut(s) 310
MspR9I CCNGG 2 cut(s) 228, 399
MunI CAATTG 1 cut(s) 24
Mva1269I GAATGC 1 cut(s) 422
MvaI CCWGG 2 cut(s) 228, 399
MwoI GCNNNNNNNGC 1 cut(s) 39
NdeI CATATG 1 cut(s) 10
NdeII GATC 2 cut(s) 108, 163
NlaIII CATG 5 cut(s) 137, 146, 152, 376, 433
NlaIV GGNNCC 1 cut(s) 232
NmuCI GTSAC 1 cut(s) 328
NsiI ATGCAT 1 cut(s) 424
NspI RCATGY 2 cut(s) 137, 152
PciI ACATGT 1 cut(s) 148
PctI GAATGC 1 cut(s) 422
PfeI GAWTC 1 cut(s) 298
PkrI GCNGC 5 cut(s) 41, 292, 312, 379, 438
PleI GAGTC 1 cut(s) 455
PpsI GAGTC 1 cut(s) 455
Ppu21I YACGTR 1 cut(s) 173
PscI ACATGT 1 cut(s) 148
Psp6I CCWGG 2 cut(s) 226, 397
PspGI CCWGG 2 cut(s) 226, 397
PspN4I GGNNCC 1 cut(s) 232
PsuI RGATCY 1 cut(s) 163
PvuII CAGCTG 1 cut(s) 310
RsaI GTAC 2 cut(s) 225, 240
RsaNI GTAC 2 cut(s) 224, 239
RseI CAYNNNNRTG 1 cut(s) 147
SaqAI TTAA 1 cut(s) 443
SatI GCNGC 5 cut(s) 40, 291, 311, 378, 437
Sau3AI GATC 2 cut(s) 108, 163
SchI GAGTC 1 cut(s) 455
ScrFI CCNGG 2 cut(s) 228, 399
SduI GDGCHC 1 cut(s) 73
SetI ASST 8 cut(s) 81, 129, 175, 229, 244, 253, 312, 481
SfaNI GCATC 1 cut(s) 409
SmiMI CAYNNNNRTG 1 cut(s) 147
Sse9I AATT 2 cut(s) 24, 405
SsiI CCGC 1 cut(s) 491
SspMI CTAG 1 cut(s) 335
StyD4I CCNGG 2 cut(s) 226, 397
TaaI ACNGT 1 cut(s) 122
TaiI ACGT 1 cut(s) 175
TasI AATT 2 cut(s) 24, 405
TfiI GAWTC 1 cut(s) 298
Tru1I TTAA 1 cut(s) 443
Tru9I TTAA 1 cut(s) 443
TscAI CASTG 1 cut(s) 73
TseFI GTSAC 1 cut(s) 328
TseI GCWGC 5 cut(s) 39, 290, 310, 377, 436
Tsp45I GTSAC 1 cut(s) 328
TspRI CASTG 1 cut(s) 73
VneI GTGCAC 1 cut(s) 69
XagI CCTNNNNNAGG 1 cut(s) 444
XceI RCATGY 2 cut(s) 137, 152
XspI CTAG 1 cut(s) 335
Zsp2I ATGCAT 1 cut(s) 424
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.