Rroxscaffold_176G00431650

squalene

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000176
OG0000108
Physical Location & Seq
Forward (+)
1509300 .. 1510157
858 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_176G00431650.1

Sequence Viewer

Length: 438 bp
ATGTCCCATGAATTTCATTGCGGTGTAAAATTGGAACAAGGATCGGTGACAACACTAATTGAGGAAAAGGGCACTATCAAAAGAGTCATTTACAAGAACAAGGCTGGAGAGGAGATGAGAACATATGCTTTACTAACAATAGTGTGTGATGGCTGCTTTTCAAATTTGCGCAAATCTCTCGGTGCACCAAAGTTCCCCCCACACTTGTACAATGCTTTTATGGCAGTCGTCAACAAGAGAAATATCATATCCATGCAAAACAAAAGCATGGCTGCTAATCCTCTTCCCACTCCTGGTGCAATTTTATTGGGTGATTCATTCAACATGAGACATCCTTTAACCGGAGGAAGTATGAATGTGGCTCTTTCGGACATAGTTCTTCTCCGTGATCTTCTTAGACCCCTACGTGATCTCAATGATGCACCTCGCTTTGTGTAA
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

145

Amino Acids

16.07

Weight (kDa)

9.47

Isoelectric Point (pI)

48.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SE PF08491 62 - 141 1.6e-26 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
Acc16I TGCGCA 1 cut(s) 170
AciI CCGC 1 cut(s) 21
AclWI GGATC 1 cut(s) 49
AcsI RAATTY 2 cut(s) 11, 163
AfaI GTAC 1 cut(s) 209
AfiI CCNNNNNNNGG 2 cut(s) 293, 341
AgsI TTSAA 2 cut(s) 162, 322
AjnI CCWGG 1 cut(s) 292
Alw21I GWGCWC 1 cut(s) 187
Alw26I GTCTC 1 cut(s) 322
Alw44I GTGCAC 1 cut(s) 183
AlwI GGATC 1 cut(s) 49
ApaLI GTGCAC 1 cut(s) 183
ApeKI GCWGC 2 cut(s) 153, 272
ApoI RAATTY 2 cut(s) 11, 163
AspLEI GCGC 1 cut(s) 171
AsuHPI GGTGA 2 cut(s) 58, 323
BaeGI GKGCMC 2 cut(s) 74, 187
Bbv12I GWGCWC 1 cut(s) 187
BbvI GCAGC 2 cut(s) 140, 259
BccI CCATC 1 cut(s) 143
BcgI CGANNNNNNTGC 2 cut(s) 160, 194
BciT130I CCWGG 1 cut(s) 294
BcoDI GTCTC 1 cut(s) 322
BisI GCNGC 2 cut(s) 154, 273
BlsI GCNGC 2 cut(s) 155, 274
Bme1390I CCNGG 1 cut(s) 294
BmrFI CCNGG 1 cut(s) 294
BmsI GCATC 1 cut(s) 409
BpmI CTGGAG 1 cut(s) 126
BsaAI YACGTR 1 cut(s) 407
BsaWI WCCGGW 1 cut(s) 341
Bsc4I CCNNNNNNNGG 2 cut(s) 293, 341
Bse3DI GCAATG 1 cut(s) 16
BseBI CCWGG 1 cut(s) 294
BseGI GGATG 1 cut(s) 331
BseLI CCNNNNNNNGG 2 cut(s) 293, 341
BseMI GCAATG 1 cut(s) 16
BseRI GAGGAG 1 cut(s) 125
BseSI GKGCMC 2 cut(s) 74, 187
BseXI GCAGC 2 cut(s) 140, 259
BsiHKAI GWGCWC 1 cut(s) 187
BsiSI CCGG 1 cut(s) 342
BslI CCNNNNNNNGG 2 cut(s) 293, 341
BsmAI GTCTC 1 cut(s) 322
Bsp1286I GDGCHC 2 cut(s) 74, 187
Bsp1407I TGTACA 1 cut(s) 207
Bsp143I GATC 3 cut(s) 41, 388, 409
BspACI CCGC 1 cut(s) 21
BspPI GGATC 1 cut(s) 49
BsrDI GCAATG 1 cut(s) 16
BsrGI TGTACA 1 cut(s) 207
BssMI GATC 3 cut(s) 41, 388, 409
Bst2UI CCWGG 1 cut(s) 294
Bst6I CTCTTC 1 cut(s) 288
BstAUI TGTACA 1 cut(s) 207
BstBAI YACGTR 1 cut(s) 407
BstDEI CTNAG 1 cut(s) 395
BstF5I GGATG 1 cut(s) 331
BstHHI GCGC 1 cut(s) 171
BstKTI GATC 3 cut(s) 44, 391, 412
BstMAI GTCTC 1 cut(s) 322
BstMBI GATC 3 cut(s) 41, 388, 409
BstMWI GCNNNNNNNGC 1 cut(s) 221
BstNI CCWGG 1 cut(s) 294
BstSCI CCNGG 1 cut(s) 292
BstSLI GKGCMC 2 cut(s) 74, 187
BstV1I GCAGC 2 cut(s) 140, 259
BtsCI GGATG 1 cut(s) 331
CfoI GCGC 1 cut(s) 171
Csp6I GTAC 1 cut(s) 208
CviAII CATG 4 cut(s) 8, 253, 268, 325
CviJI RGCY 4 cut(s) 104, 153, 272, 362
CviKI_1 RGCY 4 cut(s) 104, 153, 272, 362
CviQI GTAC 1 cut(s) 208
DdeI CTNAG 1 cut(s) 395
DpnI GATC 3 cut(s) 43, 390, 411
DpnII GATC 3 cut(s) 41, 388, 409
Eam1104I CTCTTC 1 cut(s) 288
EarI CTCTTC 1 cut(s) 288
EcoRII CCWGG 1 cut(s) 292
FaeI CATG 4 cut(s) 11, 256, 271, 328
FatI CATG 4 cut(s) 7, 252, 267, 324
FauNDI CATATG 1 cut(s) 124
Fnu4HI GCNGC 2 cut(s) 154, 273
FokI GGATG 1 cut(s) 318
Fsp4HI GCNGC 2 cut(s) 154, 273
FspI TGCGCA 1 cut(s) 170
GlaI GCGC 1 cut(s) 170
GluI GCNGC 2 cut(s) 154, 273
GsuI CTGGAG 1 cut(s) 126
HapII CCGG 1 cut(s) 342
HhaI GCGC 1 cut(s) 171
Hin1II CATG 4 cut(s) 11, 256, 271, 328
Hin6I GCGC 1 cut(s) 169
HinP1I GCGC 1 cut(s) 169
HincII GTYRAC 1 cut(s) 232
HindII GTYRAC 1 cut(s) 232
HinfI GANTC 2 cut(s) 84, 314
HpaII CCGG 1 cut(s) 342
HphI GGTGA 2 cut(s) 58, 323
Hpy166II GTNNAC 2 cut(s) 185, 232
Hpy188I TCNGA 1 cut(s) 370
Hpy8I GTNNAC 2 cut(s) 185, 232
HpyCH4IV ACGT 1 cut(s) 406
HpyCH4V TGCA 4 cut(s) 185, 256, 299, 422
HpyF10VI GCNNNNNNNGC 1 cut(s) 221
HpyF3I CTNAG 1 cut(s) 395
HpySE526I ACGT 1 cut(s) 406
Hsp92II CATG 4 cut(s) 11, 256, 271, 328
HspAI GCGC 1 cut(s) 169
Kzo9I GATC 3 cut(s) 41, 388, 409
LpnPI CCDG 4 cut(s) 90, 279, 306, 355
Lsp1109I GCAGC 2 cut(s) 140, 259
LweI GCATC 1 cut(s) 409
MaeII ACGT 1 cut(s) 406
MaeIII GTNAC 1 cut(s) 46
MalI GATC 3 cut(s) 43, 390, 411
MboI GATC 3 cut(s) 41, 388, 409
MboII GAAGA 3 cut(s) 275, 371, 383
MhlI GDGCHC 2 cut(s) 74, 187
MluCI AATT 5 cut(s) 11, 29, 57, 163, 300
MlyI GAGTC 1 cut(s) 93
MnlI CCTC 5 cut(s) 55, 103, 291, 338, 435
MseI TTAA 1 cut(s) 338
MslI CAYNNNNRTG 2 cut(s) 21, 251
MspI CCGG 1 cut(s) 342
MspR9I CCNGG 1 cut(s) 294
MvaI CCWGG 1 cut(s) 294
MwoI GCNNNNNNNGC 1 cut(s) 221
NdeI CATATG 1 cut(s) 124
NdeII GATC 3 cut(s) 41, 388, 409
NlaIII CATG 4 cut(s) 11, 256, 271, 328
NmuCI GTSAC 1 cut(s) 46
NsbI TGCGCA 1 cut(s) 170
PfeI GAWTC 1 cut(s) 314
PkrI GCNGC 2 cut(s) 155, 274
PleI GAGTC 1 cut(s) 92
PpsI GAGTC 1 cut(s) 92
Ppu21I YACGTR 1 cut(s) 407
Psp6I CCWGG 1 cut(s) 292
PspGI CCWGG 1 cut(s) 292
RsaI GTAC 1 cut(s) 209
RsaNI GTAC 1 cut(s) 208
RseI CAYNNNNRTG 2 cut(s) 21, 251
SaqAI TTAA 1 cut(s) 338
SatI GCNGC 2 cut(s) 154, 273
Sau3AI GATC 3 cut(s) 41, 388, 409
SchI GAGTC 1 cut(s) 93
ScrFI CCNGG 1 cut(s) 294
SduI GDGCHC 2 cut(s) 74, 187
SetI ASST 2 cut(s) 409, 427
SfaNI GCATC 1 cut(s) 409
SmiMI CAYNNNNRTG 2 cut(s) 21, 251
Sse9I AATT 5 cut(s) 11, 29, 57, 163, 300
SsiI CCGC 1 cut(s) 21
StyD4I CCNGG 1 cut(s) 292
TaiI ACGT 1 cut(s) 409
TasI AATT 5 cut(s) 11, 29, 57, 163, 300
TatI WGTACW 1 cut(s) 207
TfiI GAWTC 1 cut(s) 314
Tru1I TTAA 1 cut(s) 338
Tru9I TTAA 1 cut(s) 338
TseFI GTSAC 1 cut(s) 46
TseI GCWGC 2 cut(s) 153, 272
Tsp45I GTSAC 1 cut(s) 46
TspDTI ATGAA 4 cut(s) 5, 24, 306, 368
TspGWI ACGGA 1 cut(s) 374
VneI GTGCAC 1 cut(s) 183
XapI RAATTY 2 cut(s) 11, 163
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.