RLG00000025764

Rubisco accumulation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0014193
Physical Location & Seq
Reverse (-)
48130243 .. 48131601
1359 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025764

Sequence Viewer

Length: 1347 bp
ATGCTTTCCTTAACATCAAACACCCTCAAACCCTTCTTCTCTCCCTTCACCTCCACCACCACCCTAAACCCTCACCCACCTCATCTCCTCTACCCAAAACCTTCCCTTAAACCCATCTCAGCCTCCATCCAACACCTCCCATCTTCCACCCCAAAACCAAAACCACCCCAATCAAACCAACAAGTCTACCAACCTTTCCGGCCACCCCCTTCTCCTGTCCCCGAGCAATACCGCTCCTTGGACGCCAATGGCCGTCTCGAAATCCTCGCCAACCGTCTCGGCTTATGGTACGAGTACGCCCCATTGATCCCTTCTCTACTTCAACAGGGCTTCACCCCTCCCACCATTGAAGAAATCACAGGGATTTCCTCCGTTGAACAGAACCGACTAGTCGTGGCAGCTAAAGTGAGGGACTCTCTGATCCATTCCAAGACGGACCCAGAAATCGTGGCGGAGTTTGACACCGGAGGGTCGGAGTTGTTGTATGAAATAAGGCTGCTCAGTGTTCAACAGCGGGCGGCGGCGGCGAGGTTCATTGTGGAGAAGAAGCTTGATGCAAAAGGAGCTGAGGACCTCGCACGTGCCACTAAGGACTTCCCAAGGAGGCGCGGGGATAAGGGTTGGGACAGCTTTGATTATACACACCCTGGAGATTGTTTGGCGTTTATGTACTATAGGCAAGCTAGGGAGCATAAGAATCCTTCTGAGCTTAGGACTTCGGCTTTGGAGGAGGCATTGAAGGTTGTGGAGAGTGAGAAGGCGAGGAATGTGATTCTTAAGGAGTTGGGAGGGGAGAGTGGGGAGAGTGAGGAGGAGGAAGGGGATGTTGTGGCGGGGGTGAAGGTTCCGGTGGTGAGGATAAAGTTTGGGGAGGTGGCAGAGTCAAGTAGGGTGGTGATATTGCCGGTTTGTAAGACGGAGGAGAAGGATAAGGAGGTAATGGAGGCACCGTGGGAGTGTGAGAGTGAGGGGGAGTTTGGTGTTGTGGTGGCGGAGAAGGGGTGGAAGAGGTGGGTGGTGCTGCCGGGGTGGGAGCCGGTTGTGGGGTTAGGAAAGGGTGGAGTGGTGGTGTCGTTTAGCGATGCGAGGGTGTTGCCATGGAAGGTGAATAGGTGGTATAAGGAGGAGCCTATATTGGTGGTGGCTGATAGGAGTAAGAAGGATGTGGCAGCTGATGATGGGTTTTATTTGGCAGCCATGGATGGGGGTGATTTGGGGTTTAAGGTTGAGAGGGGATCGGCATTGAAGGAAGCTGGTGTGACGGAGAGTTTGGGGACTGTGGTGTTGATAGTGAGGCCACCAAAAGATGAGACAGAAAATGAATTGGCTGAGGAAGATTGGGAGTGA

Protein Analysis

449

Amino Acids

49.76

Weight (kDa)

5.2

Isoelectric Point (pI)

54.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Raf1_HTH PF18579 81 - 140 6.9e-24 Rubisco accumulation factor 1 helix turn helix domain
Raf1_N PF18578 153 - 262 2e-37 Rubisco accumulation factor 1 alpha helical domain
RuBisCo_chap_C PF18087 282 - 435 4.3e-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
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

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) 946
AccBSI CCGCTC 1 cut(s) 234
AccI GTMKAC 1 cut(s) 186
AccII CGCG 1 cut(s) 609
AciI CCGC 9 cut(s) 232, 452, 514, 518, 521, 524, 609, 833, 992
AclWI GGATC 3 cut(s) 301, 415, 1243
AcoI YGGCCR 2 cut(s) 200, 250
AcvI CACGTG 1 cut(s) 581
AcyI GRCGYC 1 cut(s) 243
AfaI GTAC 3 cut(s) 290, 296, 671
AfiI CCNNNNNNNGG 3 cut(s) 238, 1043, 1203
AflII CTTAAG 1 cut(s) 776
AgsI TTSAA 6 cut(s) 323, 350, 377, 509, 739, 1246
AhlI ACTAGT 1 cut(s) 388
AjnI CCWGG 1 cut(s) 646
AluBI AGCT 8 cut(s) 401, 550, 566, 630, 683, 709, 1172, 1253
AluI AGCT 8 cut(s) 401, 550, 566, 630, 683, 709, 1172, 1253
Alw26I GTCTC 3 cut(s) 260, 281, 1304
AlwI GGATC 3 cut(s) 301, 415, 1243
Ama87I CYCGRG 1 cut(s) 221
AoxI GGCC 3 cut(s) 200, 250, 1295
ApeKI GCWGC 5 cut(s) 398, 496, 1021, 1169, 1193
ArsI GACNNNNNNTTYG 4 cut(s) 706, 738, 1252, 1284
AspLEI GCGC 1 cut(s) 609
AspS9I GGNCC 2 cut(s) 436, 571
AsuC2I CCSGG 1 cut(s) 1026
AsuHPI GGTGA 8 cut(s) 40, 65, 325, 850, 865, 907, 1117, 1220
AvaI CYCGRG 1 cut(s) 221
AvaII GGWCC 2 cut(s) 436, 571
BanI GGYRCC 1 cut(s) 946
BbrPI CACGTG 1 cut(s) 581
BbvCI CCTCAGC 2 cut(s) 567, 1329
BbvI GCAGC 5 cut(s) 410, 483, 1008, 1181, 1205
BccI CCATC 5 cut(s) 122, 134, 148, 1172, 1196
BceAI ACGGC 1 cut(s) 237
BcgI CGANNNNNNTGC 2 cut(s) 1075, 1109
BciT130I CCWGG 1 cut(s) 648
BcnI CCSGG 1 cut(s) 1026
BcoDI GTCTC 3 cut(s) 260, 281, 1304
BcuI ACTAGT 1 cut(s) 388
BfaI CTAG 2 cut(s) 389, 684
BfmI CTRYAG 1 cut(s) 673
BfrI CTTAAG 1 cut(s) 776
BisI GCNGC 8 cut(s) 399, 497, 519, 522, 525, 1022, 1170, 1194
BlsI GCNGC 8 cut(s) 400, 498, 520, 523, 526, 1023, 1171, 1195
Bme1390I CCNGG 2 cut(s) 648, 1026
Bme18I GGWCC 2 cut(s) 436, 571
BmeT110I CYCGRG 1 cut(s) 221
BmgT120I GGNCC 2 cut(s) 436, 571
BmiI GGNNCC 5 cut(s) 438, 846, 948, 1035, 1128
BmrFI CCNGG 2 cut(s) 648, 1026
BmsI GCATC 2 cut(s) 544, 1072
BplI GAGNNNNNCTC 2 cut(s) 400, 432
BpmI CTGGAG 1 cut(s) 669
Bpu10I CCTNAGC 3 cut(s) 567, 710, 1329
BpuMI CCSGG 1 cut(s) 1026
BsaAI YACGTR 1 cut(s) 581
BsaHI GRCGYC 1 cut(s) 243
BsaJI CCNNGG 7 cut(s) 237, 599, 646, 950, 1025, 1097, 1197
BsaWI WCCGGW 2 cut(s) 464, 847
Bsc4I CCNNNNNNNGG 3 cut(s) 238, 1043, 1203
Bse118I RCCGGY 2 cut(s) 904, 1036
BseBI CCWGG 1 cut(s) 648
BseDI CCNNGG 7 cut(s) 237, 599, 646, 950, 1025, 1097, 1197
BseGI GGATG 4 cut(s) 126, 829, 1168, 1207
BseLI CCNNNNNNNGG 3 cut(s) 238, 1043, 1203
BseMII CTCAG 5 cut(s) 132, 514, 558, 696, 1320
BseRI GAGGAG 6 cut(s) 77, 743, 824, 827, 935, 1139
BseXI GCAGC 5 cut(s) 410, 483, 1008, 1181, 1205
Bsh1236I CGCG 1 cut(s) 609
BshFI GGCC 3 cut(s) 202, 252, 1297
BshNI GGYRCC 1 cut(s) 946
BsiHKCI CYCGRG 1 cut(s) 221
BsiSI CCGG 6 cut(s) 199, 465, 848, 905, 1025, 1037
BslFI GGGAC 4 cut(s) 203, 425, 638, 1288
BslI CCNNNNNNNGG 3 cut(s) 238, 1043, 1203
BsmAI GTCTC 3 cut(s) 260, 281, 1304
BsmBI CGTCTC 2 cut(s) 260, 281
BsmFI GGGAC 4 cut(s) 203, 425, 638, 1288
BsnI GGCC 3 cut(s) 202, 252, 1297
BsoBI CYCGRG 1 cut(s) 221
Bsp143I GATC 3 cut(s) 306, 420, 1235
Bsp19I CCATGG 2 cut(s) 1097, 1197
BspACI CCGC 9 cut(s) 232, 452, 514, 518, 521, 524, 609, 833, 992
BspANI GGCC 3 cut(s) 202, 252, 1297
BspCNI CTCAG 5 cut(s) 131, 513, 559, 697, 1321
BspFNI CGCG 1 cut(s) 609
BspLI GGNNCC 5 cut(s) 438, 846, 948, 1035, 1128
BspPI GGATC 3 cut(s) 301, 415, 1243
BspT107I GGYRCC 1 cut(s) 946
BspTI CTTAAG 1 cut(s) 776
BsrBI CCGCTC 1 cut(s) 234
BsrFI RCCGGY 2 cut(s) 904, 1036
BssAI RCCGGY 2 cut(s) 904, 1036
BssECI CCNNGG 7 cut(s) 237, 599, 646, 950, 1025, 1097, 1197
BssMI GATC 3 cut(s) 306, 420, 1235
BssNI GRCGYC 1 cut(s) 243
BssT1I CCWWGG 4 cut(s) 237, 599, 1097, 1197
Bst2UI CCWGG 1 cut(s) 648
Bst4CI ACNGT 3 cut(s) 275, 951, 1279
Bst6I CTCTTC 1 cut(s) 1001
BstACI GRCGYC 1 cut(s) 243
BstAFI CTTAAG 1 cut(s) 776
BstBAI YACGTR 1 cut(s) 581
BstC8I GCNNGC 2 cut(s) 516, 681
BstDEI CTNAG 7 cut(s) 118, 500, 567, 588, 705, 710, 1329
BstDSI CCRYGG 3 cut(s) 950, 1097, 1197
BstF5I GGATG 4 cut(s) 126, 829, 1168, 1207
BstFNI CGCG 1 cut(s) 609
BstHHI GCGC 1 cut(s) 609
BstKTI GATC 3 cut(s) 309, 423, 1238
BstMAI GTCTC 3 cut(s) 260, 281, 1304
BstMBI GATC 3 cut(s) 306, 420, 1235
BstMWI GCNNNNNNNGC 2 cut(s) 524, 563
BstNI CCWGG 1 cut(s) 648
BstSCI CCNGG 2 cut(s) 646, 1024
BstSFI CTRYAG 1 cut(s) 673
BstUI CGCG 1 cut(s) 609
BstV1I GCAGC 5 cut(s) 410, 483, 1008, 1181, 1205
BsuRI GGCC 3 cut(s) 202, 252, 1297
BtgI CCRYGG 3 cut(s) 950, 1097, 1197
BtgZI GCGATG 1 cut(s) 1095
BtsCI GGATG 4 cut(s) 126, 829, 1168, 1207
BtsIMutI CAGTG 1 cut(s) 508
Cac8I GCNNGC 2 cut(s) 516, 681
CfoI GCGC 1 cut(s) 609
Cfr10I RCCGGY 2 cut(s) 904, 1036
Cfr13I GGNCC 2 cut(s) 436, 571
CseI GACGC 1 cut(s) 251
Csp6I GTAC 3 cut(s) 289, 295, 670
CspCI CAANNNNNGTGG 2 cut(s) 873, 908
CviAII CATG 2 cut(s) 1098, 1198
CviQI GTAC 3 cut(s) 289, 295, 670
DdeI CTNAG 7 cut(s) 118, 500, 567, 588, 705, 710, 1329
DpnI GATC 3 cut(s) 308, 422, 1237
DpnII GATC 3 cut(s) 306, 420, 1235
EaeI YGGCCR 2 cut(s) 200, 250
Eam1104I CTCTTC 1 cut(s) 1001
EarI CTCTTC 1 cut(s) 1001
EciI GGCGGA 2 cut(s) 467, 1007
Eco130I CCWWGG 4 cut(s) 237, 599, 1097, 1197
Eco47I GGWCC 2 cut(s) 436, 571
Eco72I CACGTG 1 cut(s) 581
Eco88I CYCGRG 1 cut(s) 221
EcoO109I RGGNCCY 1 cut(s) 571
EcoRII CCWGG 1 cut(s) 646
EcoT14I CCWWGG 4 cut(s) 237, 599, 1097, 1197
ErhI CCWWGG 4 cut(s) 237, 599, 1097, 1197
Esp3I CGTCTC 2 cut(s) 260, 281
FaeI CATG 2 cut(s) 1101, 1201
FaqI GGGAC 4 cut(s) 203, 425, 638, 1288
FatI CATG 2 cut(s) 1097, 1197
FauI CCCGC 3 cut(s) 507, 602, 826
FblI GTMKAC 1 cut(s) 186
Fnu4HI GCNGC 8 cut(s) 399, 497, 519, 522, 525, 1022, 1170, 1194
FokI GGATG 4 cut(s) 113, 836, 1175, 1214
Fsp4HI GCNGC 8 cut(s) 399, 497, 519, 522, 525, 1022, 1170, 1194
FspBI CTAG 2 cut(s) 389, 684
GlaI GCGC 1 cut(s) 608
GluI GCNGC 8 cut(s) 399, 497, 519, 522, 525, 1022, 1170, 1194
GsuI CTGGAG 1 cut(s) 669
HaeIII GGCC 3 cut(s) 202, 252, 1297
HapII CCGG 6 cut(s) 199, 465, 848, 905, 1025, 1037
HgaI GACGC 1 cut(s) 251
HhaI GCGC 1 cut(s) 609
Hin1I GRCGYC 1 cut(s) 243
Hin1II CATG 2 cut(s) 1101, 1201
Hin6I GCGC 1 cut(s) 607
HinP1I GCGC 1 cut(s) 607
HindIII AAGCTT 1 cut(s) 548
HinfI GANTC 4 cut(s) 413, 697, 772, 881
HpaII CCGG 6 cut(s) 199, 465, 848, 905, 1025, 1037
HphI GGTGA 8 cut(s) 40, 65, 325, 850, 865, 907, 1117, 1220
Hpy166II GTNNAC 1 cut(s) 187
Hpy188I TCNGA 3 cut(s) 420, 475, 706
Hpy188III TCNNGA 1 cut(s) 257
Hpy8I GTNNAC 1 cut(s) 187
HpyCH4III ACNGT 3 cut(s) 275, 951, 1279
HpyCH4IV ACGT 1 cut(s) 580
HpyCH4V TGCA 1 cut(s) 557
HpyF10VI GCNNNNNNNGC 2 cut(s) 524, 563
HpyF3I CTNAG 7 cut(s) 118, 500, 567, 588, 705, 710, 1329
HpySE526I ACGT 1 cut(s) 580
Hsp92I GRCGYC 1 cut(s) 243
Hsp92II CATG 2 cut(s) 1101, 1201
HspAI GCGC 1 cut(s) 607
Kzo9I GATC 3 cut(s) 306, 420, 1235
LmnI GCTCC 5 cut(s) 239, 563, 688, 1033, 1126
Lsp1109I GCAGC 5 cut(s) 410, 483, 1008, 1181, 1205
LweI GCATC 2 cut(s) 544, 1072
MaeI CTAG 2 cut(s) 389, 684
MaeII ACGT 1 cut(s) 580
MaeIII GTNAC 1 cut(s) 1258
MalI GATC 3 cut(s) 308, 422, 1237
MbiI CCGCTC 1 cut(s) 234
MboI GATC 3 cut(s) 306, 420, 1235
MboII GAAGA 6 cut(s) 28, 135, 362, 556, 1018, 1346
MluCI AATT 1 cut(s) 1322
MlyI GAGTC 2 cut(s) 407, 890
MmeI TCCRAC 2 cut(s) 154, 453
MseI TTAA 4 cut(s) 11, 108, 777, 1221
MspA1I CMGCKG 2 cut(s) 514, 1172
MspCI CTTAAG 1 cut(s) 776
MspI CCGG 6 cut(s) 199, 465, 848, 905, 1025, 1037
MspR9I CCNGG 2 cut(s) 648, 1026
MvaI CCWGG 1 cut(s) 648
MvnI CGCG 1 cut(s) 609
MwoI GCNNNNNNNGC 2 cut(s) 524, 563
NciI CCSGG 1 cut(s) 1026
NcoI CCATGG 2 cut(s) 1097, 1197
NdeII GATC 3 cut(s) 306, 420, 1235
NlaIII CATG 2 cut(s) 1101, 1201
NlaIV GGNNCC 5 cut(s) 438, 846, 948, 1035, 1128
NmeAIII GCCGAG 1 cut(s) 258
NmuCI GTSAC 1 cut(s) 1258
PfeI GAWTC 2 cut(s) 697, 772
PkrI GCNGC 8 cut(s) 400, 498, 520, 523, 526, 1023, 1171, 1195
PleI GAGTC 2 cut(s) 407, 889
PmaCI CACGTG 1 cut(s) 581
PmlI CACGTG 1 cut(s) 581
PpsI GAGTC 2 cut(s) 407, 889
Ppu21I YACGTR 1 cut(s) 581
PpuMI RGGWCCY 1 cut(s) 571
Psp5II RGGWCCY 1 cut(s) 571
Psp6I CCWGG 1 cut(s) 646
PspCI CACGTG 1 cut(s) 581
PspGI CCWGG 1 cut(s) 646
PspN4I GGNNCC 5 cut(s) 438, 846, 948, 1035, 1128
PspPI GGNCC 2 cut(s) 436, 571
PspPPI RGGWCCY 1 cut(s) 571
PvuII CAGCTG 1 cut(s) 1172
RsaI GTAC 3 cut(s) 290, 296, 671
RsaNI GTAC 3 cut(s) 289, 295, 670
SaqAI TTAA 4 cut(s) 11, 108, 777, 1221
SatI GCNGC 8 cut(s) 399, 497, 519, 522, 525, 1022, 1170, 1194
Sau3AI GATC 3 cut(s) 306, 420, 1235
Sau96I GGNCC 2 cut(s) 436, 571
SchI GAGTC 2 cut(s) 407, 890
ScrFI CCNGG 2 cut(s) 648, 1026
SfaNI GCATC 2 cut(s) 544, 1072
SfcI CTRYAG 1 cut(s) 673
SinI GGWCC 2 cut(s) 436, 571
SmlI CTYRAG 1 cut(s) 776
SmoI CTYRAG 1 cut(s) 776
SpeI ACTAGT 1 cut(s) 388
Sse9I AATT 1 cut(s) 1322
SsiI CCGC 9 cut(s) 232, 452, 514, 518, 521, 524, 609, 833, 992
SspMI CTAG 2 cut(s) 389, 684
StyD4I CCNGG 2 cut(s) 646, 1024
StyI CCWWGG 4 cut(s) 237, 599, 1097, 1197
TaaI ACNGT 3 cut(s) 275, 951, 1279
TaiI ACGT 1 cut(s) 583
TaqI TCGA 1 cut(s) 258
TasI AATT 1 cut(s) 1322
TatI WGTACW 1 cut(s) 669
TauI GCSGC 3 cut(s) 521, 524, 527
TfiI GAWTC 2 cut(s) 697, 772
Tru1I TTAA 4 cut(s) 11, 108, 777, 1221
Tru9I TTAA 4 cut(s) 11, 108, 777, 1221
TscAI CASTG 1 cut(s) 508
TseFI GTSAC 1 cut(s) 1258
TseI GCWGC 5 cut(s) 398, 496, 1021, 1169, 1193
Tsp45I GTSAC 1 cut(s) 1258
TspDTI ATGAA 3 cut(s) 501, 523, 1335
TspGWI ACGGA 4 cut(s) 361, 449, 932, 1277
TspRI CASTG 1 cut(s) 508
Vha464I CTTAAG 1 cut(s) 776
VpaK11BI GGWCC 2 cut(s) 436, 571
XmiI GTMKAC 1 cut(s) 186
XspI CTAG 2 cut(s) 389, 684
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.