RchiOBHm_Chr6g0293681

Rubber elongation factor protein (REF)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0012392
Physical Location & Seq
Forward (+)
56253949 .. 56255297
1349 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ26352

Sequence Viewer

Length: 717 bp
ATGGCAGACCCGGAATCTTCACGCCCAATCGATACGGTGAATTGCGATGAGAAGAAGCTCAAGTATCTGGAATTTGTTGAAGTCGCGGCGATTTATGCCGTCCTCTGCTTCTCGAGCCTCTACGAGTACGCGAAGGAAAACGCCGGTCCTCTGAAACCGGGGGTTCAGACCGTGGAAGGCACCGTCAAAACGGTAATCGGACCGGTCTACGAGAAGTTCCAGGACCTTCCTTTCCAGCTCCTCAAATTCGTCGATCACAAGGTCGACGAGTCGCTGAGCGAGTTGCACCGTCACGTGCCGTTCCTGGTAAAGCAGGCGTCGAACACGGCTCTGTCGGTGGCGACGGAAGTTAAGCGAGCCGGGTTGGTGGACGCGGCGCGTAACATCACGGCGAGCGCGTACTCGAAATACGAGCCGATGGCGGAGGAGGTGTACTACAAGTACGAGCCGGTGGCGGAGCAGTACGCCGTCTCGGCTTGGCGGTCGCTGAATCGGCTGCCGCTGGTTCCTCAGGTGGCTCAGATTATGGTCCCCACGGCTGCCTATTGGTCTGAGAAGTACAATCAGGCGGTTTGTTTCACGGCGGAGAGAGGGTTCCCCGTGGCGGCTCACCTGCCGTTGATTCCGACGGAGAGGATTGCGAAGGCGTTTGAGGAAGCCGAGCATGTCTCTCCCGCCGGTTCGACGAATGCCGGAGCCGTCGAACTGGAACACTGA

Protein Analysis

238

Amino Acids

26.41

Weight (kDa)

5.33

Isoelectric Point (pI)

39.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REF PF05755 16 - 218 3.2e-86 Rubber elongation factor protein (REF)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0012392)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G47780
fragaria_vesca FvH4_2g25450
malus_domestica MD03G1285600.v1.1 MD11G1305000.v1.1
prunus_persica Prupe.8G258700_v2.0.a1 Prupe.8G258700_v2.0.a1
pyrus_communis pycom11g26680
rosa_chinensis RchiOBHm_Chr6g0293681
rosa_laevigata RLG00000011933
rosa_multiflora Rmu_co8092110.1_g000001 Rmu_sc0008436.1_g000002 Rmu_sc0028689.1_g000001
rosa_roxburghii Rroxscaffold_7G00173990
rosa_rugosa Rorug06G0237400
rosa_samantha Rh6AG350000 Rh6BG357500 Rh6CG364300 Rh6DG351200
rosa_wichuraiana Rw6G030470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 621
Acc36I ACCTGC 1 cut(s) 621
AccB1I GGYRCC 1 cut(s) 179
AccI GTMKAC 2 cut(s) 207, 264
AccII CGCG 5 cut(s) 86, 131, 374, 379, 398
AcsI RAATTY 2 cut(s) 71, 245
AcvI CACGTG 1 cut(s) 295
AcyI GRCGYC 1 cut(s) 317
AfaI GTAC 6 cut(s) 128, 401, 434, 443, 464, 560
AfiI CCNNNNNNNGG 1 cut(s) 604
AgeI ACCGGT 1 cut(s) 202
AgsI TTSAA 1 cut(s) 80
AjnI CCWGG 2 cut(s) 219, 303
AloI GAACNNNNNNTCC 2 cut(s) 578, 610
AluBI AGCT 2 cut(s) 58, 238
AluI AGCT 2 cut(s) 58, 238
Alw26I GTCTC 2 cut(s) 475, 673
Ama87I CYCGRG 1 cut(s) 112
ApeKI GCWGC 2 cut(s) 496, 539
ApoI RAATTY 2 cut(s) 71, 245
AsiGI ACCGGT 1 cut(s) 202
AspLEI GCGC 2 cut(s) 379, 398
AspS9I GGNCC 4 cut(s) 146, 200, 223, 529
AsuC2I CCSGG 3 cut(s) 11, 159, 361
AsuHPI GGTGA 2 cut(s) 49, 602
AvaI CYCGRG 1 cut(s) 112
AvaII GGWCC 4 cut(s) 146, 200, 223, 529
AxyI CCTNAGG 1 cut(s) 510
BanI GGYRCC 1 cut(s) 179
BbrPI CACGTG 1 cut(s) 295
BbvI GCAGC 2 cut(s) 483, 526
BccI CCATC 1 cut(s) 412
BceAI ACGGC 9 cut(s) 83, 283, 342, 405, 452, 552, 597, 601, 683
BciT130I CCWGG 2 cut(s) 221, 305
BcnI CCSGG 3 cut(s) 11, 159, 361
BcoDI GTCTC 2 cut(s) 475, 673
BfuAI ACCTGC 1 cut(s) 621
BglI GCCNNNNNGGC 1 cut(s) 473
BisI GCNGC 6 cut(s) 87, 375, 497, 500, 540, 606
BlpI GCTNAGC 1 cut(s) 275
BlsI GCNGC 6 cut(s) 88, 376, 498, 501, 541, 607
Bme1390I CCNGG 5 cut(s) 11, 159, 221, 305, 361
Bme18I GGWCC 4 cut(s) 146, 200, 223, 529
BmeT110I CYCGRG 1 cut(s) 112
BmgT120I GGNCC 4 cut(s) 146, 200, 223, 529
BmiI GGNNCC 5 cut(s) 181, 507, 531, 596, 697
BmrFI CCNGG 5 cut(s) 11, 159, 221, 305, 361
BplI GAGNNNNNCTC 2 cut(s) 653, 685
Bpu1102I GCTNAGC 1 cut(s) 275
BpuEI CTTGAG 1 cut(s) 44
BpuMI CCSGG 3 cut(s) 11, 159, 361
Bsa29I ATCGAT 1 cut(s) 30
BsaAI YACGTR 1 cut(s) 295
BsaHI GRCGYC 1 cut(s) 317
BsaJI CCNNGG 4 cut(s) 158, 171, 534, 600
BsaWI WCCGGW 1 cut(s) 202
BsaXI ACNNNNNCTCC 4 cut(s) 416, 446, 578, 608
Bsc4I CCNNNNNNNGG 1 cut(s) 604
Bse118I RCCGGY 4 cut(s) 143, 202, 448, 677
Bse1I ACTGG 1 cut(s) 711
Bse21I CCTNAGG 1 cut(s) 510
BseBI CCWGG 2 cut(s) 221, 305
BseCI ATCGAT 1 cut(s) 30
BseDI CCNNGG 4 cut(s) 158, 171, 534, 600
BseLI CCNNNNNNNGG 1 cut(s) 604
BseMII CTCAG 4 cut(s) 266, 524, 533, 543
BseNI ACTGG 1 cut(s) 711
BseRI GAGGAG 2 cut(s) 230, 440
BseXI GCAGC 2 cut(s) 483, 526
Bsh1236I CGCG 5 cut(s) 86, 131, 374, 379, 398
Bsh1285I CGRYCG 1 cut(s) 485
BshNI GGYRCC 1 cut(s) 179
BshTI ACCGGT 1 cut(s) 202
BshVI ATCGAT 1 cut(s) 30
BsiEI CGRYCG 1 cut(s) 485
BsiHKCI CYCGRG 1 cut(s) 112
BsiSI CCGG 8 cut(s) 11, 144, 158, 203, 360, 449, 678, 693
BslFI GGGAC 1 cut(s) 515
BslI CCNNNNNNNGG 1 cut(s) 604
BsmAI GTCTC 2 cut(s) 475, 673
BsmBI CGTCTC 1 cut(s) 475
BsmFI GGGAC 1 cut(s) 515
BsmI GAATGC 1 cut(s) 694
BsoBI CYCGRG 1 cut(s) 112
Bsp143I GATC 1 cut(s) 253
Bsp1720I GCTNAGC 1 cut(s) 275
BspCNI CTCAG 4 cut(s) 267, 523, 532, 544
BspDI ATCGAT 1 cut(s) 30
BspFNI CGCG 5 cut(s) 86, 131, 374, 379, 398
BspLI GGNNCC 5 cut(s) 181, 507, 531, 596, 697
BspMI ACCTGC 1 cut(s) 621
BspT107I GGYRCC 1 cut(s) 179
BsrFI RCCGGY 4 cut(s) 143, 202, 448, 677
BsrI ACTGG 1 cut(s) 711
BssAI RCCGGY 4 cut(s) 143, 202, 448, 677
BssECI CCNNGG 4 cut(s) 158, 171, 534, 600
BssMI GATC 1 cut(s) 253
BssNI GRCGYC 1 cut(s) 317
Bst2UI CCWGG 2 cut(s) 221, 305
Bst4CI ACNGT 5 cut(s) 37, 172, 184, 193, 290
BstACI GRCGYC 1 cut(s) 317
BstBAI YACGTR 1 cut(s) 295
BstC8I GCNNGC 3 cut(s) 315, 357, 394
BstDEI CTNAG 4 cut(s) 275, 510, 519, 552
BstDSI CCRYGG 3 cut(s) 171, 534, 600
BstFNI CGCG 5 cut(s) 86, 131, 374, 379, 398
BstHHI GCGC 2 cut(s) 379, 398
BstKTI GATC 1 cut(s) 256
BstMAI GTCTC 2 cut(s) 475, 673
BstMBI GATC 1 cut(s) 253
BstMCI CGRYCG 1 cut(s) 485
BstMWI GCNNNNNNNGC 4 cut(s) 95, 114, 473, 493
BstNI CCWGG 2 cut(s) 221, 305
BstNSI RCATGY 1 cut(s) 668
BstSCI CCNGG 5 cut(s) 9, 157, 219, 303, 359
BstUI CGCG 5 cut(s) 86, 131, 374, 379, 398
BstV1I GCAGC 2 cut(s) 483, 526
Bsu15I ATCGAT 1 cut(s) 30
Bsu36I CCTNAGG 1 cut(s) 510
BsuTUI ATCGAT 1 cut(s) 30
BtgI CCRYGG 3 cut(s) 171, 534, 600
BtgZI GCGATG 1 cut(s) 60
BtsIMutI CAGTG 1 cut(s) 712
BveI ACCTGC 1 cut(s) 621
Cac8I GCNNGC 3 cut(s) 315, 357, 394
CfoI GCGC 2 cut(s) 379, 398
Cfr10I RCCGGY 4 cut(s) 143, 202, 448, 677
Cfr13I GGNCC 4 cut(s) 146, 200, 223, 529
ClaI ATCGAT 1 cut(s) 30
CpoI CGGWCCG 1 cut(s) 200
CseI GACGC 2 cut(s) 306, 380
Csp6I GTAC 6 cut(s) 127, 400, 433, 442, 463, 559
CspAI ACCGGT 1 cut(s) 202
CspI CGGWCCG 1 cut(s) 200
CviAII CATG 1 cut(s) 665
CviQI GTAC 6 cut(s) 127, 400, 433, 442, 463, 559
DdeI CTNAG 4 cut(s) 275, 510, 519, 552
DpnI GATC 1 cut(s) 255
DpnII GATC 1 cut(s) 253
EciI GGCGGA 3 cut(s) 437, 470, 599
Eco47I GGWCC 4 cut(s) 146, 200, 223, 529
Eco72I CACGTG 1 cut(s) 295
Eco81I CCTNAGG 1 cut(s) 510
Eco88I CYCGRG 1 cut(s) 112
EcoO109I RGGNCCY 1 cut(s) 223
EcoRII CCWGG 2 cut(s) 219, 303
Esp3I CGTCTC 1 cut(s) 475
FaeI CATG 1 cut(s) 668
FaiI YATR 3 cut(s) 96, 527, 666
FaqI GGGAC 1 cut(s) 515
FatI CATG 1 cut(s) 664
FauI CCCGC 1 cut(s) 682
FblI GTMKAC 2 cut(s) 207, 264
Fnu4HI GCNGC 6 cut(s) 87, 375, 497, 500, 540, 606
Fsp4HI GCNGC 6 cut(s) 87, 375, 497, 500, 540, 606
GlaI GCGC 2 cut(s) 378, 397
GluI GCNGC 6 cut(s) 87, 375, 497, 500, 540, 606
HapII CCGG 8 cut(s) 11, 144, 158, 203, 360, 449, 678, 693
HgaI GACGC 2 cut(s) 306, 380
HhaI GCGC 2 cut(s) 379, 398
Hin1I GRCGYC 1 cut(s) 317
Hin1II CATG 1 cut(s) 668
Hin6I GCGC 2 cut(s) 377, 396
HinP1I GCGC 2 cut(s) 377, 396
HincII GTYRAC 1 cut(s) 265
HindII GTYRAC 1 cut(s) 265
HinfI GANTC 4 cut(s) 14, 269, 490, 622
HpaII CCGG 8 cut(s) 11, 144, 158, 203, 360, 449, 678, 693
HphI GGTGA 2 cut(s) 49, 602
Hpy166II GTNNAC 4 cut(s) 208, 265, 370, 433
Hpy188I TCNGA 6 cut(s) 153, 168, 200, 522, 553, 627
Hpy188III TCNNGA 2 cut(s) 68, 112
Hpy8I GTNNAC 4 cut(s) 208, 265, 370, 433
Hpy99I CGWCG 7 cut(s) 254, 269, 322, 346, 631, 688, 704
HpyAV CCTTC 4 cut(s) 127, 170, 236, 637
HpyCH4III ACNGT 5 cut(s) 37, 172, 184, 193, 290
HpyCH4IV ACGT 1 cut(s) 294
HpyCH4V TGCA 1 cut(s) 286
HpyF10VI GCNNNNNNNGC 4 cut(s) 95, 114, 473, 493
HpyF3I CTNAG 4 cut(s) 275, 510, 519, 552
HpySE526I ACGT 1 cut(s) 294
Hsp92I GRCGYC 1 cut(s) 317
Hsp92II CATG 1 cut(s) 668
HspAI GCGC 2 cut(s) 377, 396
Kzo9I GATC 1 cut(s) 253
LmnI GCTCC 3 cut(s) 243, 457, 695
Lsp1109I GCAGC 2 cut(s) 483, 526
MaeII ACGT 1 cut(s) 294
MaeIII GTNAC 2 cut(s) 290, 380
MalI GATC 1 cut(s) 255
MboI GATC 1 cut(s) 253
MboII GAAGA 2 cut(s) 9, 64
MluCI AATT 3 cut(s) 40, 71, 245
MlyI GAGTC 1 cut(s) 278
MmeI TCCRAC 1 cut(s) 650
MseI TTAA 1 cut(s) 351
MspA1I CMGCKG 1 cut(s) 502
MspI CCGG 8 cut(s) 11, 144, 158, 203, 360, 449, 678, 693
MspR9I CCNGG 5 cut(s) 11, 159, 221, 305, 361
Mva1269I GAATGC 1 cut(s) 694
MvaI CCWGG 2 cut(s) 221, 305
MvnI CGCG 5 cut(s) 86, 131, 374, 379, 398
MwoI GCNNNNNNNGC 4 cut(s) 95, 114, 473, 493
NciI CCSGG 3 cut(s) 11, 159, 361
NdeII GATC 1 cut(s) 253
NlaIII CATG 1 cut(s) 668
NlaIV GGNNCC 5 cut(s) 181, 507, 531, 596, 697
NmeAIII GCCGAG 2 cut(s) 452, 685
NmuCI GTSAC 1 cut(s) 290
NspI RCATGY 1 cut(s) 668
PaeR7I CTCGAG 1 cut(s) 112
PaqCI CACCTGC 1 cut(s) 621
PcsI WCGNNNNNNNCGW 1 cut(s) 395
PctI GAATGC 1 cut(s) 694
PfeI GAWTC 3 cut(s) 14, 490, 622
PfoI TCCNGGA 1 cut(s) 219
PinAI ACCGGT 1 cut(s) 202
PkrI GCNGC 6 cut(s) 88, 376, 498, 501, 541, 607
PleI GAGTC 1 cut(s) 277
PmaCI CACGTG 1 cut(s) 295
PmlI CACGTG 1 cut(s) 295
PpsI GAGTC 1 cut(s) 277
Ppu21I YACGTR 1 cut(s) 295
PpuMI RGGWCCY 1 cut(s) 223
Psp5II RGGWCCY 1 cut(s) 223
Psp6I CCWGG 2 cut(s) 219, 303
PspCI CACGTG 1 cut(s) 295
PspGI CCWGG 2 cut(s) 219, 303
PspN4I GGNNCC 5 cut(s) 181, 507, 531, 596, 697
PspPI GGNCC 4 cut(s) 146, 200, 223, 529
PspPPI RGGWCCY 1 cut(s) 223
RsaI GTAC 6 cut(s) 128, 401, 434, 443, 464, 560
RsaNI GTAC 6 cut(s) 127, 400, 433, 442, 463, 559
Rsr2I CGGWCCG 1 cut(s) 200
RsrII CGGWCCG 1 cut(s) 200
SalI GTCGAC 1 cut(s) 263
SaqAI TTAA 1 cut(s) 351
SatI GCNGC 6 cut(s) 87, 375, 497, 500, 540, 606
Sau3AI GATC 1 cut(s) 253
Sau96I GGNCC 4 cut(s) 146, 200, 223, 529
SchI GAGTC 1 cut(s) 278
ScrFI CCNGG 5 cut(s) 11, 159, 221, 305, 361
SetI ASST 8 cut(s) 60, 228, 240, 264, 297, 432, 516, 615
Sfr274I CTCGAG 1 cut(s) 112
SinI GGWCC 4 cut(s) 146, 200, 223, 529
SlaI CTCGAG 1 cut(s) 112
SmlI CTYRAG 2 cut(s) 59, 112
SmoI CTYRAG 2 cut(s) 59, 112
Sse9I AATT 3 cut(s) 40, 71, 245
StyD4I CCNGG 5 cut(s) 9, 157, 219, 303, 359
TaaI ACNGT 5 cut(s) 37, 172, 184, 193, 290
TaiI ACGT 1 cut(s) 297
TaqI TCGA 8 cut(s) 30, 113, 252, 264, 320, 404, 683, 702
TasI AATT 3 cut(s) 40, 71, 245
TatI WGTACW 2 cut(s) 432, 558
TauI GCSGC 4 cut(s) 89, 377, 502, 608
TfiI GAWTC 3 cut(s) 14, 490, 622
Tru1I TTAA 1 cut(s) 351
Tru9I TTAA 1 cut(s) 351
TseFI GTSAC 1 cut(s) 290
TseI GCWGC 2 cut(s) 496, 539
Tsp45I GTSAC 1 cut(s) 290
TspGWI ACGGA 2 cut(s) 359, 644
VpaK11BI GGWCC 4 cut(s) 146, 200, 223, 529
XapI RAATTY 2 cut(s) 71, 245
XceI RCATGY 1 cut(s) 668
XhoI CTCGAG 1 cut(s) 112
XmiI GTMKAC 2 cut(s) 207, 264
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.