Rroxscaffold_7G00214410

squalene

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000108
Physical Location & Seq
Reverse (-)
65051373 .. 65055815
4443 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00214410.1

Sequence Viewer

Length: 399 bp
ATGGAGCGGAAGTGTTTCGGGCGAATAATTATTCAGAAGCGTCATTTAGGGAGAGGCGCAAGGCCTGTGTCATCAACCAAAAACACATTGGCAGGTGCTTTGTACAAGGTCTTTTGTGCATCACCTGATCCAGCAAGACAGGAAATGCTTGAAGCATGTTTTGGCTATTTGAGCCTTGGAGGCGTTTGTTCATATGGACCAGTATCGCTTCTCTCTGGTCTTAACCCTCATCCACCATACTTGTTTCTCCATTTCTTTGTTGTTGCCATCTATGGTGTCGGCCGCTTAATGCTTCCAATCCCTTCACCTAAATGCATGTGGCTTGGGTTTCGATTGATCTTGGCCCACTTGATAGACAAGTGGCTTGACCCACAAGGCGTAATGAATGATTATGACTAA
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

132

Amino Acids

14.73

Weight (kDa)

9.25

Isoelectric Point (pI)

39.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SE PF08491 21 - 103 9e-25 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)
AarI CACCTGC 1 cut(s) 83
Acc36I ACCTGC 1 cut(s) 83
AccBSI CCGCTC 1 cut(s) 7
AciI CCGC 2 cut(s) 7, 283
AclWI GGATC 1 cut(s) 122
AcoI YGGCCR 1 cut(s) 280
AfaI GTAC 1 cut(s) 104
AgsI TTSAA 1 cut(s) 152
AjuI GAANNNNNNNTTGG 2 cut(s) 144, 176
AlwI GGATC 1 cut(s) 122
AoxI GGCC 3 cut(s) 62, 280, 342
Asp700I GAANNNNTTC 1 cut(s) 14
AspLEI GCGC 1 cut(s) 59
AspS9I GGNCC 2 cut(s) 197, 343
AsuHPI GGTGA 2 cut(s) 114, 297
AvaII GGWCC 1 cut(s) 197
BccI CCATC 1 cut(s) 275
BfuAI ACCTGC 1 cut(s) 83
BglI GCCNNNNNGGC 1 cut(s) 180
BisI GCNGC 1 cut(s) 283
BlsI GCNGC 1 cut(s) 284
Bme18I GGWCC 1 cut(s) 197
BmgT120I GGNCC 2 cut(s) 197, 343
BmsI GCATC 1 cut(s) 128
BsaJI CCNNGG 1 cut(s) 175
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bse1I ACTGG 1 cut(s) 200
BseDI CCNNGG 1 cut(s) 175
BseGI GGATG 1 cut(s) 229
BseNI ACTGG 1 cut(s) 200
BseX3I CGGCCG 1 cut(s) 280
Bsh1285I CGRYCG 1 cut(s) 283
BshFI GGCC 3 cut(s) 64, 282, 344
BsiEI CGRYCG 1 cut(s) 283
BsnI GGCC 3 cut(s) 64, 282, 344
Bsp1407I TGTACA 1 cut(s) 102
Bsp143I GATC 2 cut(s) 127, 336
BspACI CCGC 2 cut(s) 7, 283
BspANI GGCC 3 cut(s) 64, 282, 344
BspMI ACCTGC 1 cut(s) 83
BspPI GGATC 1 cut(s) 122
BsrBI CCGCTC 1 cut(s) 7
BsrGI TGTACA 1 cut(s) 102
BsrI ACTGG 1 cut(s) 200
BssECI CCNNGG 1 cut(s) 175
BssMI GATC 2 cut(s) 127, 336
BssT1I CCWWGG 1 cut(s) 175
BstAUI TGTACA 1 cut(s) 102
BstF5I GGATG 1 cut(s) 229
BstHHI GCGC 1 cut(s) 59
BstKTI GATC 2 cut(s) 130, 339
BstMBI GATC 2 cut(s) 127, 336
BstMCI CGRYCG 1 cut(s) 283
BstMWI GCNNNNNNNGC 2 cut(s) 171, 180
BstNSI RCATGY 2 cut(s) 159, 319
BstZI CGGCCG 1 cut(s) 280
BsuRI GGCC 3 cut(s) 64, 282, 344
BtsCI GGATG 1 cut(s) 229
BveI ACCTGC 1 cut(s) 83
CfoI GCGC 1 cut(s) 59
Cfr13I GGNCC 2 cut(s) 197, 343
CseI GACGC 1 cut(s) 29
Csp6I GTAC 1 cut(s) 103
CspCI CAANNNNNGTGG 2 cut(s) 222, 257
CviAII CATG 2 cut(s) 156, 316
CviJI RGCY 7 cut(s) 64, 165, 174, 282, 322, 344, 364
CviKI_1 RGCY 7 cut(s) 64, 165, 174, 282, 322, 344, 364
CviQI GTAC 1 cut(s) 103
DpnI GATC 2 cut(s) 129, 338
DpnII GATC 2 cut(s) 127, 336
EaeI YGGCCR 1 cut(s) 280
EagI CGGCCG 1 cut(s) 280
EclXI CGGCCG 1 cut(s) 280
Eco130I CCWWGG 1 cut(s) 175
Eco147I AGGCCT 1 cut(s) 64
Eco47I GGWCC 1 cut(s) 197
Eco52I CGGCCG 1 cut(s) 280
EcoT14I CCWWGG 1 cut(s) 175
EcoT22I ATGCAT 1 cut(s) 317
ErhI CCWWGG 1 cut(s) 175
FaeI CATG 2 cut(s) 159, 319
FaiI YATR 7 cut(s) 157, 193, 195, 238, 273, 317, 393
FatI CATG 2 cut(s) 155, 315
FauNDI CATATG 1 cut(s) 193
Fnu4HI GCNGC 1 cut(s) 283
FokI GGATG 1 cut(s) 216
Fsp4HI GCNGC 1 cut(s) 283
GlaI GCGC 1 cut(s) 58
GluI GCNGC 1 cut(s) 283
HaeIII GGCC 3 cut(s) 64, 282, 344
HgaI GACGC 1 cut(s) 29
HhaI GCGC 1 cut(s) 59
Hin1II CATG 2 cut(s) 159, 319
Hin6I GCGC 1 cut(s) 57
HinP1I GCGC 1 cut(s) 57
HphI GGTGA 2 cut(s) 114, 297
Hpy188I TCNGA 1 cut(s) 36
HpyAV CCTTC 1 cut(s) 312
HpyCH4V TGCA 2 cut(s) 119, 315
HpyF10VI GCNNNNNNNGC 2 cut(s) 171, 180
Hsp92II CATG 2 cut(s) 159, 319
HspAI GCGC 1 cut(s) 57
Kzo9I GATC 2 cut(s) 127, 336
LmnI GCTCC 1 cut(s) 4
LpnPI CCDG 7 cut(s) 78, 78, 125, 138, 144, 201, 213
LweI GCATC 1 cut(s) 128
MalI GATC 2 cut(s) 129, 338
MbiI CCGCTC 1 cut(s) 7
MboI GATC 2 cut(s) 127, 336
MluCI AATT 1 cut(s) 27
MnlI CCTC 3 cut(s) 47, 173, 237
Mph1103I ATGCAT 1 cut(s) 317
MroXI GAANNNNTTC 1 cut(s) 14
MseI TTAA 2 cut(s) 222, 287
MslI CAYNNNNRTG 1 cut(s) 310
MwoI GCNNNNNNNGC 2 cut(s) 171, 180
NdeI CATATG 1 cut(s) 193
NdeII GATC 2 cut(s) 127, 336
NlaIII CATG 2 cut(s) 159, 319
NsiI ATGCAT 1 cut(s) 317
NspI RCATGY 2 cut(s) 159, 319
PaqCI CACCTGC 1 cut(s) 83
PceI AGGCCT 1 cut(s) 64
PdmI GAANNNNTTC 1 cut(s) 14
PkrI GCNGC 1 cut(s) 284
PspPI GGNCC 2 cut(s) 197, 343
RsaI GTAC 1 cut(s) 104
RsaNI GTAC 1 cut(s) 103
RseI CAYNNNNRTG 1 cut(s) 310
SaqAI TTAA 2 cut(s) 222, 287
SatI GCNGC 1 cut(s) 283
Sau3AI GATC 2 cut(s) 127, 336
Sau96I GGNCC 2 cut(s) 197, 343
SetI ASST 4 cut(s) 97, 111, 127, 310
SfaNI GCATC 1 cut(s) 128
SinI GGWCC 1 cut(s) 197
SmiMI CAYNNNNRTG 1 cut(s) 310
Sse9I AATT 1 cut(s) 27
SseBI AGGCCT 1 cut(s) 64
SsiI CCGC 2 cut(s) 7, 283
StuI AGGCCT 1 cut(s) 64
StyI CCWWGG 1 cut(s) 175
TaqI TCGA 1 cut(s) 331
TasI AATT 1 cut(s) 27
TatI WGTACW 1 cut(s) 102
TauI GCSGC 1 cut(s) 285
Tru1I TTAA 2 cut(s) 222, 287
Tru9I TTAA 2 cut(s) 222, 287
TspDTI ATGAA 2 cut(s) 180, 398
VpaK11BI GGWCC 1 cut(s) 197
XceI RCATGY 2 cut(s) 159, 319
XcmI CCANNNNNNNNNTGG 1 cut(s) 85
XmnI GAANNNNTTC 1 cut(s) 14
Zsp2I ATGCAT 1 cut(s) 317
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.