Rw3G001910

Rubisco accumulation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0014193
Physical Location & Seq
Forward (+)
1699049 .. 1700898
1850 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G001910.1

Sequence Viewer

Length: 1341 bp
ATGCTTTCCTTAACATCAAACACCCTCAAACCCTTCTTCTCTCCCTTCACCTCCACCTCCACCACCACCCTAAACCCTCACCCACCTCATCTCCTCTACCCAAAACCTTCCCTTAAACCCATCTCAGCCTCCATCCAAAACTTCCCCTCTTCCACCCCAAAACCAAAACCAAACCAACAAGTCTACCAACCTTTCCGGCCACCCCCTTCTCCCATCCCGGAGAAATACCGCTCCTTGGACGCCAATGGCCGTCTCGAAATCCTCGCCAACCGTCTCGGCTTATGGTACGAGCTCGCCCCATTGATCCCTTCTCTACTTCAACAGGGCTTCACCCCTCCCACCATTGAAGAAATCACAGGGATGTCCTCGGTTGAGCAGAACCGACTAGTCGTGGCAGCTAAAGTGAGGGACTCTCTGATCCATTCCAAGACGGACCCAGAAATCGTGGCGGAGTTTGACACCGGAGGGTCGGAGTTGCTGTATGAAATAAGGCTGCTCAGTGTTCAGCAGCGGGCGGCGGCGGCGAGGTTCATATTGGAGAAGAAGCTTGATGCAAAAGGAGCTGAGGACCTCGCACGTGCCACTAAGGACTTCCCAAGGAGGCGCGGGGATAAGGGTTGGGAGAGCTTTGATTATACACACCCTGGAGATTGTTTGGCGTTTATGTACTATAGGCAAGCTAGGGAGCATAAGAATCCTTCTGAGCCTAGGACTTCGGCTTTGGAGGAGGCATTGAAGGTTGTGGACAGTGAGAAGGCGAGGAATGTGATTCTTAAGGAGTTGGGAGGGGAGAGTGGAGAGAGTGAAGAGGAAGGGGATGTTGTGGCGGGGGTGAAGGTTCCGGTGGTGAGGCTACAGTTTGGGGAGGTGGCAGAGTCGAGTAGGGTGGTGATATTGCCGGTTTGTAAGGCGGAGGAGAAGGATAAGGAGGTAATGGAGGCGCCGTGGGAGTGTGAGAGTGAGGGGGAGTTTGGTGTGGTGGTGGCGGAGAAGGGGTGGAAGAGGTGGGTGGTGCTGCCGGGGTGGGAGCCGGTTGTGGGGTTAGGAAAGGGGGGAGTGGTGGTGTCGTTTAGCGATGCTAGGGTGTTGCCATGGAAGGTGAATAGGTGGTATAAGGAGGAGCCTATATTGGTGGTGGCTGATAGGAGTAAGAAGGATGTGGAAGCTGATGATGGGTTTTATTTGGCAGCCATGGATGGGGGTGATTTGGGGTTTAAGGTTGAGAGGGGATCGGCATTGAAGGAAGCTGGTGTGACGGAGAGTTTGGGGACTGTGGTGTTGATAGTGAGGCCACCAAAAGATGAGACAGAAAATGAATTGGCTGACGAAGATTGGGAGTGA

Protein Analysis

446

Amino Acids

49.51

Weight (kDa)

5.16

Isoelectric Point (pI)

50.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Raf1_HTH PF18579 80 - 139 1.1e-22 Rubisco accumulation factor 1 helix turn helix domain
Raf1_N PF18578 152 - 261 1.8e-37 Rubisco accumulation factor 1 alpha helical domain
RuBisCo_chap_C PF18087 280 - 433 1e-35 Rubisco Assembly chaperone C-terminal domain
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: OG0014193)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04550 AT5G28500 AT5G28500
fragaria_vesca FvH4_6g02280
malus_domestica MD04G1228600.v1.1 MD12G1245900.v1.1
prunus_persica Prupe.6G348600_v2.0.a1
pyrus_communis pycom12g22550
rosa_chinensis RchiOBHm_Chr3g0450031
rosa_laevigata RLG00000025764
rosa_multiflora Rmu_sc0002646.1_g000021
rosa_roxburghii Rroxscaffold_6G00427820
rosa_samantha Rh3AG024000 Rh3BG024600 Rh3CG023600 Rh3DG024600
rosa_wichuraiana Rw3G001910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 940
AccBSI CCGCTC 1 cut(s) 231
AccI GTMKAC 1 cut(s) 183
AccII CGCG 1 cut(s) 606
AclWI GGATC 3 cut(s) 298, 412, 1237
AcoI YGGCCR 2 cut(s) 197, 247
AcvI CACGTG 1 cut(s) 578
AcyI GRCGYC 2 cut(s) 240, 941
AfaI GTAC 2 cut(s) 287, 668
AfiI CCNNNNNNNGG 3 cut(s) 235, 1037, 1197
AflII CTTAAG 1 cut(s) 773
AgsI TTSAA 4 cut(s) 320, 347, 736, 1240
AhlI ACTAGT 1 cut(s) 385
AjnI CCWGG 1 cut(s) 643
AluBI AGCT 8 cut(s) 292, 398, 547, 563, 627, 680, 1166, 1247
AluI AGCT 8 cut(s) 292, 398, 547, 563, 627, 680, 1166, 1247
Alw21I GWGCWC 1 cut(s) 294
Alw26I GTCTC 3 cut(s) 257, 278, 1298
AlwI GGATC 3 cut(s) 298, 412, 1237
AoxI GGCC 3 cut(s) 197, 247, 1289
ApeKI GCWGC 5 cut(s) 395, 493, 508, 1015, 1187
ArsI GACNNNNNNTTYG 4 cut(s) 703, 735, 1246, 1278
AspA2I CCTAGG 1 cut(s) 707
AspLEI GCGC 2 cut(s) 606, 943
AspS9I GGNCC 2 cut(s) 433, 568
AsuC2I CCSGG 2 cut(s) 218, 1020
AsuHPI GGTGA 8 cut(s) 40, 71, 322, 844, 859, 901, 1111, 1214
AvaII GGWCC 2 cut(s) 433, 568
AvrII CCTAGG 1 cut(s) 707
BanI GGYRCC 1 cut(s) 940
BanII GRGCYC 1 cut(s) 294
BbrPI CACGTG 1 cut(s) 578
Bbv12I GWGCWC 1 cut(s) 294
BbvCI CCTCAGC 1 cut(s) 564
BbvI GCAGC 5 cut(s) 407, 480, 520, 1002, 1199
BccI CCATC 5 cut(s) 128, 140, 221, 1166, 1190
BceAI ACGGC 2 cut(s) 234, 928
BciT130I CCWGG 1 cut(s) 645
BcnI CCSGG 2 cut(s) 218, 1020
BcoDI GTCTC 3 cut(s) 257, 278, 1298
BcuI ACTAGT 1 cut(s) 385
BfaI CTAG 4 cut(s) 386, 681, 708, 1080
BfmI CTRYAG 2 cut(s) 670, 854
BfoI RGCGCY 1 cut(s) 944
BfrI CTTAAG 1 cut(s) 773
BisI GCNGC 8 cut(s) 396, 494, 509, 516, 519, 522, 1016, 1188
BlnI CCTAGG 1 cut(s) 707
BlsI GCNGC 8 cut(s) 397, 495, 510, 517, 520, 523, 1017, 1189
Bme1390I CCNGG 3 cut(s) 218, 645, 1020
Bme18I GGWCC 2 cut(s) 433, 568
BmgT120I GGNCC 2 cut(s) 433, 568
BmiI GGNNCC 5 cut(s) 435, 840, 942, 1029, 1122
BmrFI CCNGG 3 cut(s) 218, 645, 1020
BmsI GCATC 2 cut(s) 541, 1066
BplI GAGNNNNNCTC 2 cut(s) 397, 429
BpmI CTGGAG 1 cut(s) 666
Bpu10I CCTNAGC 1 cut(s) 564
BpuMI CCSGG 2 cut(s) 218, 1020
BsaAI YACGTR 1 cut(s) 578
BsaHI GRCGYC 2 cut(s) 240, 941
BsaJI CCNNGG 9 cut(s) 234, 366, 596, 643, 707, 944, 1019, 1091, 1191
BsaWI WCCGGW 2 cut(s) 461, 841
Bsc4I CCNNNNNNNGG 3 cut(s) 235, 1037, 1197
Bse118I RCCGGY 2 cut(s) 898, 1030
BseBI CCWGG 1 cut(s) 645
BseDI CCNNGG 9 cut(s) 234, 366, 596, 643, 707, 944, 1019, 1091, 1191
BseGI GGATG 6 cut(s) 132, 213, 366, 823, 1162, 1201
BseLI CCNNNNNNNGG 3 cut(s) 235, 1037, 1197
BseMII CTCAG 4 cut(s) 138, 511, 555, 693
BseRI GAGGAG 4 cut(s) 83, 740, 929, 1133
BseXI GCAGC 5 cut(s) 407, 480, 520, 1002, 1199
Bsh1236I CGCG 1 cut(s) 606
BshFI GGCC 3 cut(s) 199, 249, 1291
BshNI GGYRCC 1 cut(s) 940
BsiHKAI GWGCWC 1 cut(s) 294
BsiSI CCGG 7 cut(s) 196, 218, 462, 842, 899, 1019, 1031
BslFI GGGAC 2 cut(s) 422, 1282
BslI CCNNNNNNNGG 3 cut(s) 235, 1037, 1197
BsmAI GTCTC 3 cut(s) 257, 278, 1298
BsmBI CGTCTC 2 cut(s) 257, 278
BsmFI GGGAC 2 cut(s) 422, 1282
BsnI GGCC 3 cut(s) 199, 249, 1291
Bsp1286I GDGCHC 1 cut(s) 294
Bsp143I GATC 3 cut(s) 303, 417, 1229
Bsp19I CCATGG 2 cut(s) 1091, 1191
BspANI GGCC 3 cut(s) 199, 249, 1291
BspCNI CTCAG 4 cut(s) 137, 510, 556, 694
BspFNI CGCG 1 cut(s) 606
BspLI GGNNCC 5 cut(s) 435, 840, 942, 1029, 1122
BspPI GGATC 3 cut(s) 298, 412, 1237
BspT107I GGYRCC 1 cut(s) 940
BspTI CTTAAG 1 cut(s) 773
BsrBI CCGCTC 1 cut(s) 231
BsrFI RCCGGY 2 cut(s) 898, 1030
BssAI RCCGGY 2 cut(s) 898, 1030
BssECI CCNNGG 9 cut(s) 234, 366, 596, 643, 707, 944, 1019, 1091, 1191
BssMI GATC 3 cut(s) 303, 417, 1229
BssNI GRCGYC 2 cut(s) 240, 941
BssT1I CCWWGG 5 cut(s) 234, 596, 707, 1091, 1191
Bst2UI CCWGG 1 cut(s) 645
Bst4CI ACNGT 4 cut(s) 272, 749, 858, 1273
Bst6I CTCTTC 3 cut(s) 154, 801, 995
BstACI GRCGYC 2 cut(s) 240, 941
BstAFI CTTAAG 1 cut(s) 773
BstBAI YACGTR 1 cut(s) 578
BstC8I GCNNGC 3 cut(s) 294, 513, 678
BstDEI CTNAG 5 cut(s) 124, 497, 564, 585, 702
BstDSI CCRYGG 3 cut(s) 944, 1091, 1191
BstF5I GGATG 6 cut(s) 132, 213, 366, 823, 1162, 1201
BstFNI CGCG 1 cut(s) 606
BstH2I RGCGCY 1 cut(s) 944
BstHHI GCGC 2 cut(s) 606, 943
BstKTI GATC 3 cut(s) 306, 420, 1232
BstMAI GTCTC 3 cut(s) 257, 278, 1298
BstMBI GATC 3 cut(s) 303, 417, 1229
BstMWI GCNNNNNNNGC 2 cut(s) 521, 560
BstNI CCWGG 1 cut(s) 645
BstSCI CCNGG 3 cut(s) 216, 643, 1018
BstSFI CTRYAG 2 cut(s) 670, 854
BstUI CGCG 1 cut(s) 606
BstV1I GCAGC 5 cut(s) 407, 480, 520, 1002, 1199
BsuRI GGCC 3 cut(s) 199, 249, 1291
BtgI CCRYGG 3 cut(s) 944, 1091, 1191
BtgZI GCGATG 1 cut(s) 1089
BtsCI GGATG 6 cut(s) 132, 213, 366, 823, 1162, 1201
BtsIMutI CAGTG 2 cut(s) 505, 754
Cac8I GCNNGC 3 cut(s) 294, 513, 678
CfoI GCGC 2 cut(s) 606, 943
Cfr10I RCCGGY 2 cut(s) 898, 1030
Cfr13I GGNCC 2 cut(s) 433, 568
CseI GACGC 1 cut(s) 248
Csp6I GTAC 2 cut(s) 286, 667
CviAII CATG 2 cut(s) 1092, 1192
CviQI GTAC 2 cut(s) 286, 667
DdeI CTNAG 5 cut(s) 124, 497, 564, 585, 702
DinI GGCGCC 1 cut(s) 942
DpnI GATC 3 cut(s) 305, 419, 1231
DpnII GATC 3 cut(s) 303, 417, 1229
EaeI YGGCCR 2 cut(s) 197, 247
Eam1104I CTCTTC 3 cut(s) 154, 801, 995
EarI CTCTTC 3 cut(s) 154, 801, 995
EciI GGCGGA 3 cut(s) 464, 926, 1001
Ecl136II GAGCTC 1 cut(s) 292
Eco130I CCWWGG 5 cut(s) 234, 596, 707, 1091, 1191
Eco24I GRGCYC 1 cut(s) 294
Eco47I GGWCC 2 cut(s) 433, 568
Eco53kI GAGCTC 1 cut(s) 292
Eco72I CACGTG 1 cut(s) 578
EcoICRI GAGCTC 1 cut(s) 292
EcoO109I RGGNCCY 1 cut(s) 568
EcoRII CCWGG 1 cut(s) 643
EcoT14I CCWWGG 5 cut(s) 234, 596, 707, 1091, 1191
EcoT38I GRGCYC 1 cut(s) 294
EgeI GGCGCC 1 cut(s) 942
EheI GGCGCC 1 cut(s) 942
ErhI CCWWGG 5 cut(s) 234, 596, 707, 1091, 1191
Esp3I CGTCTC 2 cut(s) 257, 278
FaeI CATG 2 cut(s) 1095, 1195
FaqI GGGAC 2 cut(s) 422, 1282
FatI CATG 2 cut(s) 1091, 1191
FauI CCCGC 3 cut(s) 504, 599, 820
FblI GTMKAC 1 cut(s) 183
Fnu4HI GCNGC 8 cut(s) 396, 494, 509, 516, 519, 522, 1016, 1188
FokI GGATG 6 cut(s) 119, 200, 373, 830, 1169, 1208
FriOI GRGCYC 1 cut(s) 294
Fsp4HI GCNGC 8 cut(s) 396, 494, 509, 516, 519, 522, 1016, 1188
FspBI CTAG 4 cut(s) 386, 681, 708, 1080
GlaI GCGC 2 cut(s) 605, 942
GluI GCNGC 8 cut(s) 396, 494, 509, 516, 519, 522, 1016, 1188
GsuI CTGGAG 1 cut(s) 666
HaeII RGCGCY 1 cut(s) 944
HaeIII GGCC 3 cut(s) 199, 249, 1291
HapII CCGG 7 cut(s) 196, 218, 462, 842, 899, 1019, 1031
HgaI GACGC 1 cut(s) 248
HhaI GCGC 2 cut(s) 606, 943
Hin1I GRCGYC 2 cut(s) 240, 941
Hin1II CATG 2 cut(s) 1095, 1195
Hin6I GCGC 2 cut(s) 604, 941
HinP1I GCGC 2 cut(s) 604, 941
HindIII AAGCTT 1 cut(s) 545
HinfI GANTC 4 cut(s) 410, 694, 769, 875
HpaII CCGG 7 cut(s) 196, 218, 462, 842, 899, 1019, 1031
HphI GGTGA 8 cut(s) 40, 71, 322, 844, 859, 901, 1111, 1214
Hpy166II GTNNAC 2 cut(s) 184, 745
Hpy188I TCNGA 3 cut(s) 417, 472, 703
Hpy188III TCNNGA 1 cut(s) 254
Hpy8I GTNNAC 2 cut(s) 184, 745
HpyCH4III ACNGT 4 cut(s) 272, 749, 858, 1273
HpyCH4IV ACGT 1 cut(s) 577
HpyCH4V TGCA 1 cut(s) 554
HpyF10VI GCNNNNNNNGC 2 cut(s) 521, 560
HpyF3I CTNAG 5 cut(s) 124, 497, 564, 585, 702
HpySE526I ACGT 1 cut(s) 577
Hsp92I GRCGYC 2 cut(s) 240, 941
Hsp92II CATG 2 cut(s) 1095, 1195
HspAI GCGC 2 cut(s) 604, 941
KasI GGCGCC 1 cut(s) 940
Kzo9I GATC 3 cut(s) 303, 417, 1229
LmnI GCTCC 5 cut(s) 236, 560, 685, 1027, 1120
Lsp1109I GCAGC 5 cut(s) 407, 480, 520, 1002, 1199
LweI GCATC 2 cut(s) 541, 1066
MaeI CTAG 4 cut(s) 386, 681, 708, 1080
MaeII ACGT 1 cut(s) 577
MaeIII GTNAC 1 cut(s) 1252
MalI GATC 3 cut(s) 305, 419, 1231
MbiI CCGCTC 1 cut(s) 231
MboI GATC 3 cut(s) 303, 417, 1229
MboII GAAGA 7 cut(s) 28, 141, 359, 553, 818, 1012, 1340
MhlI GDGCHC 1 cut(s) 294
MluCI AATT 1 cut(s) 1316
Mly113I GGCGCC 1 cut(s) 941
MlyI GAGTC 2 cut(s) 404, 884
MmeI TCCRAC 1 cut(s) 450
MseI TTAA 4 cut(s) 11, 114, 774, 1215
MslI CAYNNNNRTG 1 cut(s) 359
MspA1I CMGCKG 1 cut(s) 511
MspCI CTTAAG 1 cut(s) 773
MspI CCGG 7 cut(s) 196, 218, 462, 842, 899, 1019, 1031
MspR9I CCNGG 3 cut(s) 218, 645, 1020
MvaI CCWGG 1 cut(s) 645
MvnI CGCG 1 cut(s) 606
MwoI GCNNNNNNNGC 2 cut(s) 521, 560
NarI GGCGCC 1 cut(s) 941
NciI CCSGG 2 cut(s) 218, 1020
NcoI CCATGG 2 cut(s) 1091, 1191
NdeII GATC 3 cut(s) 303, 417, 1229
NlaIII CATG 2 cut(s) 1095, 1195
NlaIV GGNNCC 5 cut(s) 435, 840, 942, 1029, 1122
NmeAIII GCCGAG 1 cut(s) 255
NmuCI GTSAC 1 cut(s) 1252
PfeI GAWTC 2 cut(s) 694, 769
PfoI TCCNGGA 1 cut(s) 216
PkrI GCNGC 8 cut(s) 397, 495, 510, 517, 520, 523, 1017, 1189
PleI GAGTC 2 cut(s) 404, 883
PluTI GGCGCC 1 cut(s) 944
PmaCI CACGTG 1 cut(s) 578
PmlI CACGTG 1 cut(s) 578
PpsI GAGTC 2 cut(s) 404, 883
Ppu21I YACGTR 1 cut(s) 578
PpuMI RGGWCCY 1 cut(s) 568
Psp124BI GAGCTC 1 cut(s) 294
Psp5II RGGWCCY 1 cut(s) 568
Psp6I CCWGG 1 cut(s) 643
PspCI CACGTG 1 cut(s) 578
PspGI CCWGG 1 cut(s) 643
PspN4I GGNNCC 5 cut(s) 435, 840, 942, 1029, 1122
PspPI GGNCC 2 cut(s) 433, 568
PspPPI RGGWCCY 1 cut(s) 568
RsaI GTAC 2 cut(s) 287, 668
RsaNI GTAC 2 cut(s) 286, 667
RseI CAYNNNNRTG 1 cut(s) 359
SacI GAGCTC 1 cut(s) 294
SaqAI TTAA 4 cut(s) 11, 114, 774, 1215
SatI GCNGC 8 cut(s) 396, 494, 509, 516, 519, 522, 1016, 1188
Sau3AI GATC 3 cut(s) 303, 417, 1229
Sau96I GGNCC 2 cut(s) 433, 568
SchI GAGTC 2 cut(s) 404, 884
ScrFI CCNGG 3 cut(s) 218, 645, 1020
SduI GDGCHC 1 cut(s) 294
SfaNI GCATC 2 cut(s) 541, 1066
SfcI CTRYAG 2 cut(s) 670, 854
SfoI GGCGCC 1 cut(s) 942
SinI GGWCC 2 cut(s) 433, 568
SmiMI CAYNNNNRTG 1 cut(s) 359
SmlI CTYRAG 1 cut(s) 773
SmoI CTYRAG 1 cut(s) 773
SpeI ACTAGT 1 cut(s) 385
Sse9I AATT 1 cut(s) 1316
SspDI GGCGCC 1 cut(s) 940
SspMI CTAG 4 cut(s) 386, 681, 708, 1080
SstI GAGCTC 1 cut(s) 294
StyD4I CCNGG 3 cut(s) 216, 643, 1018
StyI CCWWGG 5 cut(s) 234, 596, 707, 1091, 1191
TaaI ACNGT 4 cut(s) 272, 749, 858, 1273
TaiI ACGT 1 cut(s) 580
TaqI TCGA 2 cut(s) 255, 878
TasI AATT 1 cut(s) 1316
TatI WGTACW 1 cut(s) 666
TauI GCSGC 3 cut(s) 518, 521, 524
TfiI GAWTC 2 cut(s) 694, 769
Tru1I TTAA 4 cut(s) 11, 114, 774, 1215
Tru9I TTAA 4 cut(s) 11, 114, 774, 1215
TscAI CASTG 2 cut(s) 505, 754
TseFI GTSAC 1 cut(s) 1252
TseI GCWGC 5 cut(s) 395, 493, 508, 1015, 1187
Tsp45I GTSAC 1 cut(s) 1252
TspDTI ATGAA 3 cut(s) 498, 520, 1329
TspGWI ACGGA 2 cut(s) 446, 1271
TspRI CASTG 2 cut(s) 505, 754
Vha464I CTTAAG 1 cut(s) 773
VpaK11BI GGWCC 2 cut(s) 433, 568
XmaJI CCTAGG 1 cut(s) 707
XmiI GTMKAC 1 cut(s) 183
XspI CTAG 4 cut(s) 386, 681, 708, 1080
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.