Rroxscaffold_2G00124600

REF SRPP-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0002647
Physical Location & Seq
Forward (+)
58951412 .. 58952056
645 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00124600.1

Sequence Viewer

Length: 645 bp
ATGGCTCAAGAGGACTTGACCACGCAGCAAAAACAGATGGCGGAGGAGGTGGAAGAGCAGCAGCGGCTCAAGTACCTGCAATTTGTTCAAGTGGCTGCACTTCACGCCGCGGTTTGCTTCTCGAATGCTTATGGTTATGCCAAGGAGAAATCCGGCCCTCTGAGGCCCCGCGTTGAGTCAGCGGAGGGAGCTGTGAAGACTGTTGTTGGACCTGTGTATGACAAGTACCAGGCTCTCCCCGCCAACCTCCTCGCTTTCGTTGATGGCAAGGTCGACGAATCTGTGACCAAGCTGGCATCATCCCAAGCAATGTCTGCTGCTTTGAAAGCCCCAGAGACGGCTCGAGCTGCTGCATCGGAGTTTCAGCAAAGGAGCACAAGCATGGCTAAGTCGGTATACTCCAAGTACGAACCGAAAGCTGAGCAATGTGCTGTTTGTGCATGGAGAAAGCTGAATGAGCTACCTGTGGTACCGAAGGTGGCTGAGATTGTTGTACCAACTGCTGCATATTGTTCCGAAAAGTACAACCACAGTGTCCGTTGCACTGCGGATAAGGGGTACAGGGTGGCCTCCTATTTGCCTTTGGTTCCAATAGAGAAACTTGTAAAGGTTGTTGGAGGCAATGTGCCAGAAGCCGTCCAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
REF

Protein Analysis

214

Amino Acids

23.33

Weight (kDa)

8.49

Isoelectric Point (pI)

40.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REF PF05755 18 - 205 9.9e-72 Rubber elongation factor protein (REF)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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) 84
Acc65I GGTACC 1 cut(s) 469
AccB1I GGYRCC 1 cut(s) 469
AccI GTMKAC 2 cut(s) 273, 396
AccII CGCG 2 cut(s) 110, 171
AciI CCGC 8 cut(s) 41, 64, 108, 110, 169, 182, 240, 548
AfaI GTAC 7 cut(s) 74, 227, 407, 471, 495, 524, 560
AfiI CCNNNNNNNGG 1 cut(s) 337
AgsI TTSAA 2 cut(s) 89, 325
AjnI CCWGG 1 cut(s) 228
AluBI AGCT 6 cut(s) 191, 292, 347, 419, 451, 460
AluI AGCT 6 cut(s) 191, 292, 347, 419, 451, 460
Alw21I GWGCWC 1 cut(s) 377
Alw26I GTCTC 1 cut(s) 329
Ama87I CYCGRG 1 cut(s) 342
AoxI GGCC 3 cut(s) 154, 164, 567
ApeKI GCWGC 8 cut(s) 25, 58, 61, 95, 317, 347, 350, 503
Asp718I GGTACC 1 cut(s) 469
AspS9I GGNCC 3 cut(s) 155, 165, 209
AvaI CYCGRG 1 cut(s) 342
AvaII GGWCC 1 cut(s) 209
BanI GGYRCC 1 cut(s) 469
BbsI GAAGAC 1 cut(s) 203
Bbv12I GWGCWC 1 cut(s) 377
BbvI GCAGC 8 cut(s) 37, 70, 73, 82, 304, 334, 337, 490
BccI CCATC 2 cut(s) 31, 257
BceAI ACGGC 2 cut(s) 354, 620
BciT130I CCWGG 1 cut(s) 230
BcoDI GTCTC 1 cut(s) 329
BfuAI ACCTGC 1 cut(s) 84
BlpI GCTNAGC 1 cut(s) 420
Bme1390I CCNGG 1 cut(s) 230
Bme18I GGWCC 1 cut(s) 209
BmeT110I CYCGRG 1 cut(s) 342
BmgT120I GGNCC 3 cut(s) 155, 165, 209
BmiI GGNNCC 3 cut(s) 167, 471, 588
BmrFI CCNGG 1 cut(s) 230
BmsI GCATC 2 cut(s) 305, 362
BpiI GAAGAC 1 cut(s) 203
Bpu1102I GCTNAGC 1 cut(s) 420
BpuEI CTTGAG 1 cut(s) 53
BsaJI CCNNGG 2 cut(s) 108, 141
BsaXI ACNNNNNCTCC 2 cut(s) 609, 639
Bsc4I CCNNNNNNNGG 1 cut(s) 337
Bse1I ACTGG 1 cut(s) 640
Bse3DI GCAATG 3 cut(s) 315, 431, 628
BseBI CCWGG 1 cut(s) 230
BseDI CCNNGG 2 cut(s) 108, 141
BseGI GGATG 1 cut(s) 299
BseLI CCNNNNNNNGG 1 cut(s) 337
BseMI GCAATG 3 cut(s) 315, 431, 628
BseMII CTCAG 3 cut(s) 152, 411, 474
BseNI ACTGG 1 cut(s) 640
BseRI GAGGAG 2 cut(s) 59, 239
BseXI GCAGC 8 cut(s) 37, 70, 73, 82, 304, 334, 337, 490
BsgI GTGCAG 1 cut(s) 81
Bsh1236I CGCG 2 cut(s) 110, 171
BshFI GGCC 3 cut(s) 156, 166, 569
BshNI GGYRCC 1 cut(s) 469
BsiHKAI GWGCWC 1 cut(s) 377
BsiHKCI CYCGRG 1 cut(s) 342
BsiSI CCGG 1 cut(s) 153
BslI CCNNNNNNNGG 1 cut(s) 337
BsmAI GTCTC 1 cut(s) 329
BsmBI CGTCTC 1 cut(s) 329
BsmI GAATGC 1 cut(s) 130
BsnI GGCC 3 cut(s) 156, 166, 569
BsoBI CYCGRG 1 cut(s) 342
Bsp1286I GDGCHC 1 cut(s) 377
Bsp1720I GCTNAGC 1 cut(s) 420
BspACI CCGC 8 cut(s) 41, 64, 108, 110, 169, 182, 240, 548
BspANI GGCC 3 cut(s) 156, 166, 569
BspCNI CTCAG 3 cut(s) 153, 412, 475
BspFNI CGCG 2 cut(s) 110, 171
BspLI GGNNCC 3 cut(s) 167, 471, 588
BspMI ACCTGC 1 cut(s) 84
BspQI GCTCTTC 1 cut(s) 48
BspT107I GGYRCC 1 cut(s) 469
BsrDI GCAATG 3 cut(s) 315, 431, 628
BsrI ACTGG 1 cut(s) 640
BssECI CCNNGG 2 cut(s) 108, 141
BssNAI GTATAC 1 cut(s) 397
BssT1I CCWWGG 1 cut(s) 141
Bst1107I GTATAC 1 cut(s) 397
Bst2UI CCWGG 1 cut(s) 230
Bst4CI ACNGT 2 cut(s) 202, 533
Bst6I CTCTTC 1 cut(s) 48
BstAPI GCANNNNNTGC 1 cut(s) 314
BstC8I GCNNGC 1 cut(s) 294
BstDEI CTNAG 4 cut(s) 161, 387, 420, 483
BstDSI CCRYGG 1 cut(s) 108
BstF5I GGATG 1 cut(s) 299
BstFNI CGCG 2 cut(s) 110, 171
BstMAI GTCTC 1 cut(s) 329
BstMWI GCNNNNNNNGC 9 cut(s) 64, 104, 188, 239, 314, 326, 347, 437, 457
BstNI CCWGG 1 cut(s) 230
BstSCI CCNGG 1 cut(s) 228
BstUI CGCG 2 cut(s) 110, 171
BstV1I GCAGC 8 cut(s) 37, 70, 73, 82, 304, 334, 337, 490
BstV2I GAAGAC 1 cut(s) 203
BstZ17I GTATAC 1 cut(s) 397
BsuRI GGCC 3 cut(s) 156, 166, 569
BtgI CCRYGG 1 cut(s) 108
BtsCI GGATG 1 cut(s) 299
BtsI GCAGTG 1 cut(s) 543
BtsIMutI CAGTG 2 cut(s) 538, 543
BveI ACCTGC 1 cut(s) 84
Cac8I GCNNGC 1 cut(s) 294
Cfr13I GGNCC 3 cut(s) 155, 165, 209
Cfr42I CCGCGG 1 cut(s) 111
Csp6I GTAC 7 cut(s) 73, 226, 406, 470, 494, 523, 559
CviAII CATG 2 cut(s) 382, 441
CviQI GTAC 7 cut(s) 73, 226, 406, 470, 494, 523, 559
DdeI CTNAG 4 cut(s) 161, 387, 420, 483
Eam1104I CTCTTC 1 cut(s) 48
EarI CTCTTC 1 cut(s) 48
EciI GGCGGA 1 cut(s) 56
Eco130I CCWWGG 1 cut(s) 141
Eco47I GGWCC 1 cut(s) 209
Eco88I CYCGRG 1 cut(s) 342
EcoO109I RGGNCCY 1 cut(s) 165
EcoRII CCWGG 1 cut(s) 228
EcoT14I CCWWGG 1 cut(s) 141
ErhI CCWWGG 1 cut(s) 141
Esp3I CGTCTC 1 cut(s) 329
FaeI CATG 2 cut(s) 385, 444
FaiI YATR 7 cut(s) 132, 138, 219, 383, 397, 442, 508
FatI CATG 2 cut(s) 381, 440
FauI CCCGC 2 cut(s) 176, 247
FblI GTMKAC 2 cut(s) 273, 396
FokI GGATG 1 cut(s) 286
HaeIII GGCC 3 cut(s) 156, 166, 569
HapII CCGG 1 cut(s) 153
Hin1II CATG 2 cut(s) 385, 444
HincII GTYRAC 1 cut(s) 274
HindII GTYRAC 1 cut(s) 274
HinfI GANTC 2 cut(s) 176, 278
HpaII CCGG 1 cut(s) 153
Hpy166II GTNNAC 2 cut(s) 274, 397
Hpy188I TCNGA 3 cut(s) 162, 358, 517
Hpy188III TCNNGA 2 cut(s) 8, 121
Hpy8I GTNNAC 2 cut(s) 274, 397
Hpy99I CGWCG 1 cut(s) 278
HpyAV CCTTC 1 cut(s) 469
HpyCH4III ACNGT 2 cut(s) 202, 533
HpyCH4V TGCA 6 cut(s) 79, 98, 353, 440, 506, 543
HpyF10VI GCNNNNNNNGC 9 cut(s) 64, 104, 188, 239, 314, 326, 347, 437, 457
HpyF3I CTNAG 4 cut(s) 161, 387, 420, 483
Hsp92II CATG 2 cut(s) 385, 444
KpnI GGTACC 1 cut(s) 473
KspI CCGCGG 1 cut(s) 111
LguI GCTCTTC 1 cut(s) 48
LmnI GCTCC 2 cut(s) 188, 372
LpnPI CCDG 9 cut(s) 89, 166, 215, 225, 242, 278, 345, 477, 547
Lsp1109I GCAGC 8 cut(s) 37, 70, 73, 82, 304, 334, 337, 490
LweI GCATC 2 cut(s) 305, 362
MaeIII GTNAC 1 cut(s) 283
MboII GAAGA 2 cut(s) 65, 208
MhlI GDGCHC 1 cut(s) 377
MluCI AATT 1 cut(s) 80
MlyI GAGTC 1 cut(s) 185
MmeI TCCRAC 2 cut(s) 187, 595
MslI CAYNNNNRTG 1 cut(s) 380
MspA1I CMGCKG 3 cut(s) 64, 110, 182
MspI CCGG 1 cut(s) 153
MspR9I CCNGG 1 cut(s) 230
Mva1269I GAATGC 1 cut(s) 130
MvaI CCWGG 1 cut(s) 230
MvnI CGCG 2 cut(s) 110, 171
MwoI GCNNNNNNNGC 9 cut(s) 64, 104, 188, 239, 314, 326, 347, 437, 457
NlaIII CATG 2 cut(s) 385, 444
NlaIV GGNNCC 3 cut(s) 167, 471, 588
NmuCI GTSAC 1 cut(s) 283
PaeR7I CTCGAG 1 cut(s) 342
PciSI GCTCTTC 1 cut(s) 48
PctI GAATGC 1 cut(s) 130
PfeI GAWTC 1 cut(s) 278
PleI GAGTC 1 cut(s) 184
PpsI GAGTC 1 cut(s) 184
Psp6I CCWGG 1 cut(s) 228
PspGI CCWGG 1 cut(s) 228
PspN4I GGNNCC 3 cut(s) 167, 471, 588
PspPI GGNCC 3 cut(s) 155, 165, 209
PspXI VCTCGAGB 1 cut(s) 342
RsaI GTAC 7 cut(s) 74, 227, 407, 471, 495, 524, 560
RsaNI GTAC 7 cut(s) 73, 226, 406, 470, 494, 523, 559
RseI CAYNNNNRTG 1 cut(s) 380
SacII CCGCGG 1 cut(s) 111
SalI GTCGAC 1 cut(s) 272
SapI GCTCTTC 1 cut(s) 48
Sau96I GGNCC 3 cut(s) 155, 165, 209
SchI GAGTC 1 cut(s) 185
ScrFI CCNGG 1 cut(s) 230
SduI GDGCHC 1 cut(s) 377
SfaNI GCATC 2 cut(s) 305, 362
Sfr274I CTCGAG 1 cut(s) 342
Sfr303I CCGCGG 1 cut(s) 111
SgrBI CCGCGG 1 cut(s) 111
SinI GGWCC 1 cut(s) 209
SlaI CTCGAG 1 cut(s) 342
SmiMI CAYNNNNRTG 1 cut(s) 380
SmlI CTYRAG 3 cut(s) 6, 68, 342
SmoI CTYRAG 3 cut(s) 6, 68, 342
Sse9I AATT 1 cut(s) 80
SsiI CCGC 8 cut(s) 41, 64, 108, 110, 169, 182, 240, 548
StyD4I CCNGG 1 cut(s) 228
StyI CCWWGG 1 cut(s) 141
TaaI ACNGT 2 cut(s) 202, 533
TaqI TCGA 3 cut(s) 122, 273, 343
TasI AATT 1 cut(s) 80
TatI WGTACW 1 cut(s) 522
TauI GCSGC 2 cut(s) 67, 110
TfiI GAWTC 1 cut(s) 278
TscAI CASTG 2 cut(s) 538, 550
TseFI GTSAC 1 cut(s) 283
TseI GCWGC 8 cut(s) 25, 58, 61, 95, 317, 347, 350, 503
Tsp45I GTSAC 1 cut(s) 283
TspGWI ACGGA 1 cut(s) 527
TspRI CASTG 2 cut(s) 538, 550
VpaK11BI GGWCC 1 cut(s) 209
XhoI CTCGAG 1 cut(s) 342
XmiI GTMKAC 2 cut(s) 273, 396
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.