Rroxscaffold_6G00394920

Stachyose

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0002202
Physical Location & Seq
Forward (+)
15793721 .. 15794158
438 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00394920.1

Sequence Viewer

Length: 438 bp
ATGGAAACCCAATGGGTGCTCTTAGATGTCCCGGAGATCAAGTCCTATGTTATAATCATACCCATCATTGAAGCCAACTTCAGGTCTGCTCTTCATCCTGGCAGTGATGACCATGTCATGATCTGTACCGAGAGTGGTTCTAGTCAAGTAAAAGCGTCGAATTTCGATGCCATTGCTTATGTTCATGCTTCTGACAATCCCTACAACTTGATGAAAGAAGCCTACAGTGCTGTTAGAGTCCATCTCAATAGTTTTAGGCTCTTGGAAGAGAAGACGGTCCCAAATCTAGTTAACAAATTCGGTTGGTGCACTTGGGATGCATTCTACTTAAATGTAGAACCTGTTGGTGTCTGGCATGGTCTGAATGAATTTATTGAAGGCGGTGTTGAAGGAATTGATGGATTTCAAAACTTTTTAATTAGTGCGGAATTAGATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003824 GO:0006950 GO:0006979 GO:0008150 GO:0008378 GO:0009628 GO:0016740 GO:0016757 GO:0016758 GO:0047268 GO:0050896 GO:0080167
KEGG Pathways
Metabolic & Signaling
ko00052 map00052
Pfam Domains
Protein Families
Raffinose_syn

Protein Analysis

145

Amino Acids

16.31

Weight (kDa)

4.6

Isoelectric Point (pI)

37.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Raffinose_syn PF05691 2 - 129 1.5e-52 Raffinose synthase or seed imbibition protein Sip1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 53
AciI CCGC 2 cut(s) 381, 425
AcsI RAATTY 3 cut(s) 160, 296, 368
AcuI CTGAAG 1 cut(s) 64
AfaI GTAC 1 cut(s) 127
AfiI CCNNNNNNNGG 1 cut(s) 81
AgsI TTSAA 4 cut(s) 71, 377, 389, 407
AjnI CCWGG 1 cut(s) 97
Alw21I GWGCWC 2 cut(s) 21, 311
Alw44I GTGCAC 1 cut(s) 307
ApaLI GTGCAC 1 cut(s) 307
ApoI RAATTY 3 cut(s) 160, 296, 368
AspS9I GGNCC 1 cut(s) 277
AsuC2I CCSGG 1 cut(s) 32
AvaII GGWCC 1 cut(s) 277
BaeGI GKGCMC 1 cut(s) 311
BbsI GAAGAC 1 cut(s) 278
Bbv12I GWGCWC 2 cut(s) 21, 311
BccI CCATC 3 cut(s) 71, 249, 392
BcgI CGANNNNNNTGC 2 cut(s) 155, 189
BciT130I CCWGG 1 cut(s) 99
BcnI CCSGG 1 cut(s) 32
BfaI CTAG 2 cut(s) 141, 287
BfmI CTRYAG 1 cut(s) 223
Bme1390I CCNGG 2 cut(s) 32, 99
Bme18I GGWCC 1 cut(s) 277
BmgT120I GGNCC 1 cut(s) 277
BmiI GGNNCC 1 cut(s) 279
BmrFI CCNGG 2 cut(s) 32, 99
BmsI GCATC 2 cut(s) 157, 307
BpiI GAAGAC 1 cut(s) 278
BplI GAGNNNNNCTC 2 cut(s) 228, 260
BpuMI CCSGG 1 cut(s) 32
BsaXI ACNNNNNCTCC 2 cut(s) 26, 56
Bsc4I CCNNNNNNNGG 1 cut(s) 81
Bse3DI GCAATG 1 cut(s) 171
BseBI CCWGG 1 cut(s) 99
BseGI GGATG 2 cut(s) 94, 322
BseLI CCNNNNNNNGG 1 cut(s) 81
BseMI GCAATG 1 cut(s) 171
BseSI GKGCMC 1 cut(s) 311
BsiHKAI GWGCWC 2 cut(s) 21, 311
BsiSI CCGG 1 cut(s) 32
BslFI GGGAC 2 cut(s) 14, 263
BslI CCNNNNNNNGG 1 cut(s) 81
BsmFI GGGAC 2 cut(s) 14, 263
BsmI GAATGC 1 cut(s) 320
Bsp1286I GDGCHC 2 cut(s) 21, 311
Bsp143I GATC 2 cut(s) 36, 120
BspACI CCGC 2 cut(s) 381, 425
BspHI TCATGA 1 cut(s) 117
BspLI GGNNCC 1 cut(s) 279
BspQI GCTCTTC 1 cut(s) 96
BsrDI GCAATG 1 cut(s) 171
BssMI GATC 2 cut(s) 36, 120
Bst2UI CCWGG 1 cut(s) 99
Bst4CI ACNGT 2 cut(s) 227, 277
Bst6I CTCTTC 2 cut(s) 96, 261
BstDEI CTNAG 1 cut(s) 22
BstF5I GGATG 2 cut(s) 94, 322
BstKTI GATC 2 cut(s) 39, 123
BstMBI GATC 2 cut(s) 36, 120
BstMWI GCNNNNNNNGC 1 cut(s) 227
BstNI CCWGG 1 cut(s) 99
BstSCI CCNGG 2 cut(s) 30, 97
BstSFI CTRYAG 1 cut(s) 223
BstSLI GKGCMC 1 cut(s) 311
BstV2I GAAGAC 1 cut(s) 278
BtsCI GGATG 2 cut(s) 94, 322
BtsI GCAGTG 1 cut(s) 109
BtsIMutI CAGTG 2 cut(s) 109, 232
CciI TCATGA 1 cut(s) 117
Cfr13I GGNCC 1 cut(s) 277
CseI GACGC 1 cut(s) 144
Csp6I GTAC 1 cut(s) 126
CviAII CATG 4 cut(s) 113, 118, 185, 356
CviJI RGCY 3 cut(s) 74, 221, 259
CviKI_1 RGCY 3 cut(s) 74, 221, 259
CviQI GTAC 1 cut(s) 126
DdeI CTNAG 1 cut(s) 22
DpnI GATC 2 cut(s) 38, 122
DpnII GATC 2 cut(s) 36, 120
Eam1104I CTCTTC 2 cut(s) 96, 261
EarI CTCTTC 2 cut(s) 96, 261
Eco47I GGWCC 1 cut(s) 277
Eco57I CTGAAG 1 cut(s) 64
EcoRII CCWGG 1 cut(s) 97
EcoT22I ATGCAT 1 cut(s) 322
FaeI CATG 4 cut(s) 116, 121, 188, 359
FaiI YATR 8 cut(s) 48, 53, 59, 114, 119, 180, 186, 357
FaqI GGGAC 2 cut(s) 14, 263
FatI CATG 4 cut(s) 112, 117, 184, 355
FokI GGATG 2 cut(s) 81, 329
FspBI CTAG 2 cut(s) 141, 287
HapII CCGG 1 cut(s) 32
HgaI GACGC 1 cut(s) 144
Hin1II CATG 4 cut(s) 116, 121, 188, 359
HincII GTYRAC 1 cut(s) 292
HindII GTYRAC 1 cut(s) 292
HinfI GANTC 1 cut(s) 237
HpaI GTTAAC 1 cut(s) 292
HpaII CCGG 1 cut(s) 32
Hpy166II GTNNAC 2 cut(s) 292, 309
Hpy188I TCNGA 2 cut(s) 193, 363
Hpy188III TCNNGA 1 cut(s) 118
Hpy8I GTNNAC 2 cut(s) 292, 309
Hpy99I CGWCG 1 cut(s) 160
HpyAV CCTTC 2 cut(s) 371, 383
HpyCH4III ACNGT 2 cut(s) 227, 277
HpyCH4V TGCA 2 cut(s) 309, 320
HpyF10VI GCNNNNNNNGC 1 cut(s) 227
HpyF3I CTNAG 1 cut(s) 22
Hsp92II CATG 4 cut(s) 116, 121, 188, 359
KspAI GTTAAC 1 cut(s) 292
Kzo9I GATC 2 cut(s) 36, 120
LguI GCTCTTC 1 cut(s) 96
LpnPI CCDG 6 cut(s) 45, 67, 84, 111, 337, 354
LweI GCATC 2 cut(s) 157, 307
MaeI CTAG 2 cut(s) 141, 287
MalI GATC 2 cut(s) 38, 122
MboI GATC 2 cut(s) 36, 120
MboII GAAGA 3 cut(s) 83, 278, 283
MhlI GDGCHC 2 cut(s) 21, 311
MluCI AATT 6 cut(s) 160, 296, 368, 393, 417, 428
MlyI GAGTC 1 cut(s) 246
Mph1103I ATGCAT 1 cut(s) 322
MseI TTAA 4 cut(s) 291, 329, 416, 436
MspI CCGG 1 cut(s) 32
MspR9I CCNGG 2 cut(s) 32, 99
Mva1269I GAATGC 1 cut(s) 320
MvaI CCWGG 1 cut(s) 99
MwoI GCNNNNNNNGC 1 cut(s) 227
NciI CCSGG 1 cut(s) 32
NdeII GATC 2 cut(s) 36, 120
NlaIII CATG 4 cut(s) 116, 121, 188, 359
NlaIV GGNNCC 1 cut(s) 279
NsiI ATGCAT 1 cut(s) 322
PagI TCATGA 1 cut(s) 117
PciSI GCTCTTC 1 cut(s) 96
PctI GAATGC 1 cut(s) 320
PflFI GACNNNGTC 1 cut(s) 113
PfoI TCCNGGA 1 cut(s) 30
PleI GAGTC 1 cut(s) 245
PpsI GAGTC 1 cut(s) 245
PsiI TTATAA 1 cut(s) 53
Psp6I CCWGG 1 cut(s) 97
PspGI CCWGG 1 cut(s) 97
PspN4I GGNNCC 1 cut(s) 279
PspPI GGNCC 1 cut(s) 277
PsyI GACNNNGTC 1 cut(s) 113
RsaI GTAC 1 cut(s) 127
RsaNI GTAC 1 cut(s) 126
SapI GCTCTTC 1 cut(s) 96
SaqAI TTAA 4 cut(s) 291, 329, 416, 436
Sau3AI GATC 2 cut(s) 36, 120
Sau96I GGNCC 1 cut(s) 277
SchI GAGTC 1 cut(s) 246
ScrFI CCNGG 2 cut(s) 32, 99
SduI GDGCHC 2 cut(s) 21, 311
SetI ASST 2 cut(s) 86, 343
SfaNI GCATC 2 cut(s) 157, 307
SfcI CTRYAG 1 cut(s) 223
SinI GGWCC 1 cut(s) 277
Sse9I AATT 6 cut(s) 160, 296, 368, 393, 417, 428
SsiI CCGC 2 cut(s) 381, 425
SspMI CTAG 2 cut(s) 141, 287
StyD4I CCNGG 2 cut(s) 30, 97
TaaI ACNGT 2 cut(s) 227, 277
TaqI TCGA 2 cut(s) 158, 165
TasI AATT 6 cut(s) 160, 296, 368, 393, 417, 428
Tru1I TTAA 4 cut(s) 291, 329, 416, 436
Tru9I TTAA 4 cut(s) 291, 329, 416, 436
TscAI CASTG 2 cut(s) 109, 232
TspDTI ATGAA 4 cut(s) 83, 173, 227, 381
TspRI CASTG 2 cut(s) 109, 232
Tth111I GACNNNGTC 1 cut(s) 113
VneI GTGCAC 1 cut(s) 307
VpaK11BI GGWCC 1 cut(s) 277
XapI RAATTY 3 cut(s) 160, 296, 368
XspI CTAG 2 cut(s) 141, 287
Zsp2I ATGCAT 1 cut(s) 322
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.