AT3G04550

Rubisco accumulation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0014193
Physical Location & Seq
Forward (+)
1225919 .. 1227436
1518 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G04550.1

Sequence Viewer

Length: 1350 bp
ATGTTCTCTCTCAAATCCTTAATCTCCTCACCTTTCACACAATCCACCACTCATGGATTATTCACCAACCCGATTACCCGACCCGTTAATCCATTACCACGTACCGTTTCCTTCACCGTTACCGCTTCCATGATACCCAAAAGATCCTCAGCTAACATGATTCCCAAAAACCCTCCGGCGAGGCAACAGCTCTACCAACCGTTCCGACCACCGTCATCTCCCATTCCAACCCAATTCCGTTCACTCGACTCCGCCGGTAAAATCGAAATCCTCGCCGGTCGAATGGCTCTCTGGTTCGAATACGCACCTCTTATCTCTTCTCTTTACACCGATGGTTTCACTCCTCCAACCATCGAAGAACTCACCGGAATCTCAAGCATCGAACAGAACCGTTTAATCGTCGGTGCGCAAGTTCGTGACTCAATTCTTCAATCTATCCATGAACCGGAGCTCATTTCTGCGTTCGACACCGGTGGTGCAGAGCTTCTATACGAAATTCGTCTCCTTAGCACCACGCAGCGTGTTGCAGCCGCCACATTCATCATTGATCGTAATATTGATTCGAAAGGAGCACAGGATTTGGCACGAGCCATCAAGGATTATCCTAACCGTCGTGGAGACGTTGGATGGTTGGATTTTGATTACAACTTACCAGGAGATTGTCTTTCATTCTTGTATTACAGGCAGAGCAGAGAGAATAAGAATCCATCGGATCAGAGAACCTCGATGCTTCTACAAGCATTGGGGGTTGCAGAATCAGAAAAGGCTAAGAACAGGTTGAACACAGAGCTATACGGGGACAAGGAAGCAGAGAAGGAGAAGGAGAAGAAGAAGAAGGAAGAGGAAGTCAAAGCTATTCGGATTCCAGTGGTGAGGCTTAAGTTTGGAGAAGTAGCAGAAGCGACCTCGGTGGTAGTTTTACCGGTTTGTAAAGCAGAGGAAGGGGAAAAGAAGATTCTTGAAGCTCCAATGGAGATCATAGCCGGAGGGGATTTTAAGGTGGTTGAGGCGGAGAAAGGATGGAAGAGATGGGTAGTGCTTCCGTCGTGGAACCCAGTGGCAGCCATTGGGAAAGGCGGTGTGGCGGTTTCTTTCAGGGATGATAGAAAAGTGCTGCCTTGGGATGGAAAGGAGGAGCCTTTACTGGTAGTGGCCGATAGGGTGAGGAATGTTGTGGAGGCTGATGACGGGTATTATCTCGTGGTGGCTGAGAACGGACTTAAGCTAGAGAAAGGATCAGATTTGAAGGCGAGAGAGGTGAAGGAGAGTTTAGGGATGGTTGTTTTGGTGGTGAGGCCGCCAAGAGAAGATGATGATGATTGGCAGACAAGTCATCAGAACTGGGACTGA

Protein Analysis

449

Amino Acids

50.2

Weight (kDa)

5.78

Isoelectric Point (pI)

46.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Raf1_HTH PF18579 85 - 142 1.4e-21 Rubisco accumulation factor 1 helix turn helix domain
Raf1_N PF18578 155 - 264 1e-32 Rubisco accumulation factor 1 alpha helical domain
RuBisCo_chap_C PF18087 288 - 435 5.5e-33 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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Publication-ready
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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)
Acc16I TGCGCA 1 cut(s) 408
AciI CCGC 7 cut(s) 123, 252, 531, 1010, 1077, 1085, 1298
AclWI GGATC 3 cut(s) 138, 720, 1243
AcoI YGGCCR 1 cut(s) 1152
AcsI RAATTY 1 cut(s) 495
AfaI GTAC 1 cut(s) 103
AfiI CCNNNNNNNGG 2 cut(s) 445, 1124
AflII CTTAAG 2 cut(s) 878, 1220
AgeI ACCGGT 2 cut(s) 470, 922
AgsI TTSAA 4 cut(s) 431, 781, 962, 1246
AjnI CCWGG 1 cut(s) 652
AluBI AGCT 8 cut(s) 152, 190, 451, 484, 790, 854, 965, 1225
AluI AGCT 8 cut(s) 152, 190, 451, 484, 790, 854, 965, 1225
Alw21I GWGCWC 2 cut(s) 453, 574
Alw26I GTCTC 2 cut(s) 506, 612
AlwI GGATC 3 cut(s) 138, 720, 1243
AoxI GGCC 2 cut(s) 1152, 1295
ApeKI GCWGC 4 cut(s) 517, 527, 1061, 1114
ApoI RAATTY 1 cut(s) 495
AsiGI ACCGGT 2 cut(s) 470, 922
AspLEI GCGC 1 cut(s) 409
AsuHPI GGTGA 8 cut(s) 21, 55, 106, 355, 883, 1174, 1270, 1303
AsuII TTCGAA 2 cut(s) 297, 563
BanII GRGCYC 1 cut(s) 453
BauI CACGAG 2 cut(s) 585, 1199
Bbv12I GWGCWC 2 cut(s) 453, 574
BbvCI CCTCAGC 1 cut(s) 148
BbvI GCAGC 4 cut(s) 529, 539, 1073, 1101
BccI CCATC 9 cut(s) 326, 359, 599, 621, 715, 1014, 1023, 1118, 1270
BciT130I CCWGG 1 cut(s) 654
BcoDI GTCTC 2 cut(s) 506, 612
BfaI CTAG 1 cut(s) 1226
BfrI CTTAAG 2 cut(s) 878, 1220
BisI GCNGC 6 cut(s) 518, 528, 531, 1062, 1115, 1298
BlsI GCNGC 6 cut(s) 519, 529, 532, 1063, 1116, 1299
Bme1390I CCNGG 1 cut(s) 654
BmiI GGNNCC 2 cut(s) 1052, 1137
BmrFI CCNGG 1 cut(s) 654
BmrI ACTGGG 1 cut(s) 1049
BmsI GCATC 2 cut(s) 387, 717
BmuI ACTGGG 1 cut(s) 1049
BoxI GACNNNNGTC 1 cut(s) 211
Bpu10I CCTNAGC 2 cut(s) 148, 506
Bpu14I TTCGAA 2 cut(s) 297, 563
BpuEI CTTGAG 1 cut(s) 358
BsaAI YACGTR 1 cut(s) 101
BsaJI CCNNGG 2 cut(s) 906, 1118
BsaWI WCCGGW 4 cut(s) 365, 445, 470, 922
Bsc4I CCNNNNNNNGG 2 cut(s) 445, 1124
Bse118I RCCGGY 4 cut(s) 254, 275, 470, 922
Bse1I ACTGG 4 cut(s) 866, 1055, 1149, 1346
BseBI CCWGG 1 cut(s) 654
BseDI CCNNGG 2 cut(s) 906, 1118
BseGI GGATG 5 cut(s) 632, 1025, 1105, 1129, 1281
BseLI CCNNNNNNNGG 2 cut(s) 445, 1124
BseMII CTCAG 2 cut(s) 162, 1200
BseNI ACTGG 4 cut(s) 866, 1055, 1149, 1346
BseRI GAGGAG 3 cut(s) 16, 333, 1148
BseXI GCAGC 4 cut(s) 529, 539, 1073, 1101
BsgI GTGCAG 1 cut(s) 498
Bsh1285I CGRYCG 1 cut(s) 280
BshFI GGCC 2 cut(s) 1154, 1297
BshTI ACCGGT 2 cut(s) 470, 922
BsiEI CGRYCG 1 cut(s) 280
BsiHKAI GWGCWC 2 cut(s) 453, 574
BsiSI CCGG 8 cut(s) 176, 255, 276, 366, 446, 471, 923, 984
BslFI GGGAC 1 cut(s) 812
BslI CCNNNNNNNGG 2 cut(s) 445, 1124
BsmAI GTCTC 2 cut(s) 506, 612
BsmBI CGTCTC 2 cut(s) 506, 612
BsmFI GGGAC 1 cut(s) 812
BsnI GGCC 2 cut(s) 1154, 1297
Bsp119I TTCGAA 2 cut(s) 297, 563
Bsp1286I GDGCHC 2 cut(s) 453, 574
Bsp143I GATC 5 cut(s) 143, 547, 712, 975, 1235
BspACI CCGC 7 cut(s) 123, 252, 531, 1010, 1077, 1085, 1298
BspANI GGCC 2 cut(s) 1154, 1297
BspCNI CTCAG 2 cut(s) 161, 1201
BspLI GGNNCC 2 cut(s) 1052, 1137
BspPI GGATC 3 cut(s) 138, 720, 1243
BspT104I TTCGAA 2 cut(s) 297, 563
BspTI CTTAAG 2 cut(s) 878, 1220
BsrFI RCCGGY 4 cut(s) 254, 275, 470, 922
BsrI ACTGG 4 cut(s) 866, 1055, 1149, 1346
BssAI RCCGGY 4 cut(s) 254, 275, 470, 922
BssECI CCNNGG 2 cut(s) 906, 1118
BssMI GATC 5 cut(s) 143, 547, 712, 975, 1235
BssSI CACGAG 2 cut(s) 585, 1199
BssT1I CCWWGG 1 cut(s) 1118
Bst2BI CACGAG 2 cut(s) 585, 1199
Bst2UI CCWGG 1 cut(s) 654
Bst4CI ACNGT 6 cut(s) 106, 118, 201, 213, 392, 611
Bst6I CTCTTC 3 cut(s) 322, 834, 1019
BstAFI CTTAAG 2 cut(s) 878, 1220
BstBAI YACGTR 1 cut(s) 101
BstBI TTCGAA 2 cut(s) 297, 563
BstDEI CTNAG 4 cut(s) 148, 506, 768, 1209
BstF5I GGATG 5 cut(s) 632, 1025, 1105, 1129, 1281
BstHHI GCGC 1 cut(s) 409
BstKTI GATC 5 cut(s) 146, 550, 715, 978, 1238
BstMAI GTCTC 2 cut(s) 506, 612
BstMBI GATC 5 cut(s) 143, 547, 712, 975, 1235
BstMCI CGRYCG 1 cut(s) 280
BstNI CCWGG 1 cut(s) 654
BstPAI GACNNNNGTC 1 cut(s) 211
BstSCI CCNGG 1 cut(s) 652
BstV1I GCAGC 4 cut(s) 529, 539, 1073, 1101
BstX2I RGATCY 1 cut(s) 143
BstYI RGATCY 1 cut(s) 143
BsuRI GGCC 2 cut(s) 1154, 1297
BtsCI GGATG 5 cut(s) 632, 1025, 1105, 1129, 1281
BtsIMutI CAGTG 2 cut(s) 873, 1062
CfoI GCGC 1 cut(s) 409
Cfr10I RCCGGY 4 cut(s) 254, 275, 470, 922
Csp6I GTAC 1 cut(s) 102
CspAI ACCGGT 2 cut(s) 470, 922
CviAII CATG 4 cut(s) 53, 130, 157, 440
CviQI GTAC 1 cut(s) 102
DdeI CTNAG 4 cut(s) 148, 506, 768, 1209
DpnI GATC 5 cut(s) 145, 549, 714, 977, 1237
DpnII GATC 5 cut(s) 143, 547, 712, 975, 1235
EaeI YGGCCR 1 cut(s) 1152
Eam1104I CTCTTC 3 cut(s) 322, 834, 1019
EarI CTCTTC 3 cut(s) 322, 834, 1019
EciI GGCGGA 2 cut(s) 241, 1025
Ecl136II GAGCTC 1 cut(s) 451
Eco130I CCWWGG 1 cut(s) 1118
Eco24I GRGCYC 1 cut(s) 453
Eco53kI GAGCTC 1 cut(s) 451
EcoICRI GAGCTC 1 cut(s) 451
EcoRII CCWGG 1 cut(s) 652
EcoT14I CCWWGG 1 cut(s) 1118
EcoT38I GRGCYC 1 cut(s) 453
ErhI CCWWGG 1 cut(s) 1118
Esp3I CGTCTC 2 cut(s) 506, 612
FaeI CATG 4 cut(s) 56, 133, 160, 443
FaiI YATR 7 cut(s) 54, 131, 158, 441, 490, 793, 980
FaqI GGGAC 1 cut(s) 812
FatI CATG 4 cut(s) 52, 129, 156, 439
Fnu4HI GCNGC 6 cut(s) 518, 528, 531, 1062, 1115, 1298
FokI GGATG 5 cut(s) 639, 1032, 1112, 1136, 1288
FriOI GRGCYC 1 cut(s) 453
Fsp4HI GCNGC 6 cut(s) 518, 528, 531, 1062, 1115, 1298
FspBI CTAG 1 cut(s) 1226
FspI TGCGCA 1 cut(s) 408
GlaI GCGC 1 cut(s) 408
GluI GCNGC 6 cut(s) 518, 528, 531, 1062, 1115, 1298
HaeIII GGCC 2 cut(s) 1154, 1297
HapII CCGG 8 cut(s) 176, 255, 276, 366, 446, 471, 923, 984
HhaI GCGC 1 cut(s) 409
Hin1II CATG 4 cut(s) 56, 133, 160, 443
Hin6I GCGC 1 cut(s) 407
HinP1I GCGC 1 cut(s) 407
HinfI GANTC 9 cut(s) 160, 248, 369, 419, 560, 703, 755, 862, 955
HpaII CCGG 8 cut(s) 176, 255, 276, 366, 446, 471, 923, 984
HphI GGTGA 8 cut(s) 21, 55, 106, 355, 883, 1174, 1270, 1303
Hpy166II GTNNAC 1 cut(s) 242
Hpy188I TCNGA 7 cut(s) 206, 712, 717, 760, 861, 1240, 1338
Hpy188III TCNNGA 2 cut(s) 416, 959
Hpy8I GTNNAC 1 cut(s) 242
Hpy99I CGWCG 3 cut(s) 404, 615, 1048
HpyAV CCTTC 7 cut(s) 121, 808, 814, 829, 935, 1240, 1255
HpyCH4III ACNGT 6 cut(s) 106, 118, 201, 213, 392, 611
HpyCH4IV ACGT 2 cut(s) 100, 621
HpyCH4V TGCA 3 cut(s) 479, 527, 752
HpyF3I CTNAG 4 cut(s) 148, 506, 768, 1209
HpySE526I ACGT 2 cut(s) 100, 621
Hsp92II CATG 4 cut(s) 56, 133, 160, 443
HspAI GCGC 1 cut(s) 407
Kzo9I GATC 5 cut(s) 143, 547, 712, 975, 1235
LmnI GCTCC 4 cut(s) 448, 569, 970, 1135
Lsp1109I GCAGC 4 cut(s) 529, 539, 1073, 1101
LweI GCATC 2 cut(s) 387, 717
MaeI CTAG 1 cut(s) 1226
MaeII ACGT 2 cut(s) 100, 621
MaeIII GTNAC 2 cut(s) 118, 416
MalI GATC 5 cut(s) 145, 549, 714, 977, 1237
MboI GATC 5 cut(s) 143, 547, 712, 975, 1235
MflI RGATCY 1 cut(s) 143
MhlI GDGCHC 2 cut(s) 453, 574
MluCI AATT 3 cut(s) 233, 423, 495
MlyI GAGTC 2 cut(s) 242, 413
MmeI TCCRAC 5 cut(s) 229, 251, 371, 604, 612
MseI TTAA 6 cut(s) 20, 87, 395, 879, 996, 1221
MspCI CTTAAG 2 cut(s) 878, 1220
MspI CCGG 8 cut(s) 176, 255, 276, 366, 446, 471, 923, 984
MspR9I CCNGG 1 cut(s) 654
MvaI CCWGG 1 cut(s) 654
NdeII GATC 5 cut(s) 143, 547, 712, 975, 1235
NlaIII CATG 4 cut(s) 56, 133, 160, 443
NlaIV GGNNCC 2 cut(s) 1052, 1137
NmuCI GTSAC 1 cut(s) 416
NsbI TGCGCA 1 cut(s) 408
NspV TTCGAA 2 cut(s) 297, 563
PfeI GAWTC 7 cut(s) 160, 369, 560, 703, 755, 862, 955
PinAI ACCGGT 2 cut(s) 470, 922
PkrI GCNGC 6 cut(s) 519, 529, 532, 1063, 1116, 1299
PleI GAGTC 2 cut(s) 242, 413
PpsI GAGTC 2 cut(s) 242, 413
Ppu21I YACGTR 1 cut(s) 101
PshAI GACNNNNGTC 1 cut(s) 211
Psp124BI GAGCTC 1 cut(s) 453
Psp6I CCWGG 1 cut(s) 652
PspGI CCWGG 1 cut(s) 652
PspN4I GGNNCC 2 cut(s) 1052, 1137
PsuI RGATCY 1 cut(s) 143
RsaI GTAC 1 cut(s) 103
RsaNI GTAC 1 cut(s) 102
SacI GAGCTC 1 cut(s) 453
SaqAI TTAA 6 cut(s) 20, 87, 395, 879, 996, 1221
SatI GCNGC 6 cut(s) 518, 528, 531, 1062, 1115, 1298
Sau3AI GATC 5 cut(s) 143, 547, 712, 975, 1235
SchI GAGTC 2 cut(s) 242, 413
ScrFI CCNGG 1 cut(s) 654
SduI GDGCHC 2 cut(s) 453, 574
SfaNI GCATC 2 cut(s) 387, 717
SfuI TTCGAA 2 cut(s) 297, 563
SgrAI CRCCGGYG 1 cut(s) 470
SmlI CTYRAG 3 cut(s) 373, 878, 1220
SmoI CTYRAG 3 cut(s) 373, 878, 1220
Sse9I AATT 3 cut(s) 233, 423, 495
SsiI CCGC 7 cut(s) 123, 252, 531, 1010, 1077, 1085, 1298
SspI AATATT 1 cut(s) 556
SspMI CTAG 1 cut(s) 1226
SstI GAGCTC 1 cut(s) 453
StyD4I CCNGG 1 cut(s) 652
StyI CCWWGG 1 cut(s) 1118
TaaI ACNGT 6 cut(s) 106, 118, 201, 213, 392, 611
TaiI ACGT 2 cut(s) 103, 624
TaqI TCGA 9 cut(s) 246, 264, 280, 297, 354, 381, 465, 563, 725
TasI AATT 3 cut(s) 233, 423, 495
TauI GCSGC 2 cut(s) 533, 1300
TfiI GAWTC 7 cut(s) 160, 369, 560, 703, 755, 862, 955
Tru1I TTAA 6 cut(s) 20, 87, 395, 879, 996, 1221
Tru9I TTAA 6 cut(s) 20, 87, 395, 879, 996, 1221
TscAI CASTG 2 cut(s) 873, 1062
TseFI GTSAC 1 cut(s) 416
TseI GCWGC 4 cut(s) 517, 527, 1061, 1114
Tsp45I GTSAC 1 cut(s) 416
TspDTI ATGAA 3 cut(s) 456, 529, 657
TspGWI ACGGA 3 cut(s) 227, 1032, 1230
TspRI CASTG 2 cut(s) 873, 1062
Vha464I CTTAAG 2 cut(s) 878, 1220
XapI RAATTY 1 cut(s) 495
XspI CTAG 1 cut(s) 1226
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.