pycom12g22550

Rubisco accumulation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr12
OG0014193
Physical Location & Seq
Reverse (-)
23396332 .. 23397684
1353 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom12g22550.1

Sequence Viewer

Length: 1353 bp
ATGCTTTCGGTAACAGCAAACTCTCTCAAACCCTTCTCATCTTTCAACTCCACCACCACCACCACCTTCTTATCCTCCACCACCTTCCTCAACCCCCACCCACCACCCCTACACCACCCCAAACCCCTTTCCCCAAAACCCATCTCCGCCACTCTCACTCCTTCCTCCAGCTCCAAACAGCGGCAACAACAAGTCTACCAGCCATTCCGGCCGCCCCCATCTCCAATCCCCTCCAAATTCCGCTCCCTCGACGCCAATGGCCGCCTCGAGATCCTCGCCAACCGTCTCGGCCTCTGGTTCGAATACGCCCCCCTAATCCCCTCCCTAACCCAAGAAGGCTTCACTCCCCCCACCATCGAAGAAATCACCGGCATTTCCAACGTCGAGCAGAACCGTCTGGTGGTGGCGGCGAAGGTGAGGGACTCTTTAATCCAATCCAACACCGACCCAGAAATCGTTTCCGATTTCGACTTGGGGGGTTCCGAATTGCTGTACGAAATTCGGCTCCTGAGTGTCCAGCAGCGAGCTGCTGCTGCCCGTTTCATAATTGAGAACAAGCTTGATGCCAAAGGAACTCAGGATTTGGCCCGTTCGATAAAGGACTTCCCTCGTCGGCGGACCGAAAAGGGTTGGGAGAGCTTTGACTATTCCAGCGCTGGTGATTGTTTAGGGTTTATGTATTTTAGGCAGGCGAGGGAGCACAAGAATCCATCTGAACCTAGAACTGCTGCTTTAGAGCAGGCACTGAAGGTTGCACAGACTGATAAGGCTAAAAAGGTAATTTTGAAAGAGTTGGAGGGAGAGAGTGAGGAGAAGGAGGGGGAGGACGATGTTGCAGTGGGGGTTCGGGTGCCGGTTGTGAGGTTGAAGTTTGGGGAGGTAGCAGAGTCGACTAAAGTTGTGATCTTTCCGGTTTGTAGAGCGGAGGAGAAGAATAAGGATGTTATGGAGGCCCCGTGGGAGTGTAGGAGTGAGGGGGAGCTTGGGGTTATGGTGGCAGAGAAGGGGTGGAAGAGGTGGGTGGTGTTGCCGGGTTGGGAGCCGGTGGTGAGTTTAGAAAAGGGCGGAGTTGTGGTGTCGTTTAGTGATGCGAGGGTTTTGCCTTGGAAGGTGAATAGGTGGTATAAGGAAGAGCCTATTCTGGTGGTGGCTGATAGGAGCAGGAGGGAGGTGGAAGCTGATGACGGGTTTTATTTGGCAGCGGTGGATGGTGAGGGTTTGGGGTTTAGGGTTGTAAGGGGATCGGCATTGAAGGAAACTGGTGTGGAGGAGAGTTTAGGGACTGTGGTGCTTGTAGTGAGGCCACCAAGAGATGAGACAGACGATCAATTGAGCGAAGAGGATTGGGAGTAG

Protein Analysis

451

Amino Acids

50.25

Weight (kDa)

5.32

Isoelectric Point (pI)

56.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Raf1_HTH PF18579 84 - 143 4.2e-24 Rubisco accumulation factor 1 helix turn helix domain
Raf1_N PF18578 156 - 265 9.9e-36 Rubisco accumulation factor 1 alpha helical domain
RuBisCo_chap_C PF18087 284 - 437 3.4e-34 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) 850
AccBSI CCGCTC 2 cut(s) 243, 923
AccI GTMKAC 2 cut(s) 195, 890
AclWI GGATC 2 cut(s) 265, 1249
AcoI YGGCCR 2 cut(s) 209, 259
AcsI RAATTY 2 cut(s) 236, 498
AcuI CTGAAG 1 cut(s) 767
AcyI GRCGYC 1 cut(s) 252
AfaI GTAC 1 cut(s) 494
AfeI AGCGCT 1 cut(s) 655
AfiI CCNNNNNNNGG 2 cut(s) 180, 400
AgsI TTSAA 4 cut(s) 46, 787, 868, 1252
AluBI AGCT 6 cut(s) 171, 527, 559, 639, 982, 1178
AluI AGCT 6 cut(s) 171, 527, 559, 639, 982, 1178
Alw21I GWGCWC 1 cut(s) 702
Alw26I GTCTC 2 cut(s) 290, 1310
AlwI GGATC 2 cut(s) 265, 1249
AlwNI CAGNNNCTG 1 cut(s) 745
Ama87I CYCGRG 1 cut(s) 266
Aor51HI AGCGCT 1 cut(s) 655
AoxI GGCC 6 cut(s) 209, 259, 289, 585, 951, 1301
ApeKI GCWGC 6 cut(s) 520, 527, 530, 533, 728, 1199
ApoI RAATTY 2 cut(s) 236, 498
AspLEI GCGC 1 cut(s) 656
AspS9I GGNCC 3 cut(s) 586, 618, 952
AsuC2I CCSGG 1 cut(s) 1032
AsuHPI GGTGA 6 cut(s) 358, 427, 671, 1060, 1123, 1223
AsuII TTCGAA 1 cut(s) 300
AvaI CYCGRG 1 cut(s) 266
AvaII GGWCC 1 cut(s) 618
BanI GGYRCC 1 cut(s) 850
Bbv12I GWGCWC 1 cut(s) 702
BbvI GCAGC 6 cut(s) 514, 517, 520, 532, 715, 1211
BccI CCATC 5 cut(s) 149, 226, 362, 718, 1202
BcgI CGANNNNNNTGC 2 cut(s) 1081, 1115
BcnI CCSGG 1 cut(s) 1032
BcoDI GTCTC 2 cut(s) 290, 1310
BfaI CTAG 1 cut(s) 720
BfoI RGCGCY 1 cut(s) 657
BglI GCCNNNNNGGC 1 cut(s) 208
Bme1390I CCNGG 1 cut(s) 1032
Bme18I GGWCC 1 cut(s) 618
BmeT110I CYCGRG 1 cut(s) 266
BmgT120I GGNCC 3 cut(s) 586, 618, 952
BmiI GGNNCC 5 cut(s) 481, 506, 852, 954, 1041
BmrFI CCNGG 1 cut(s) 1032
BmsI GCATC 2 cut(s) 553, 1078
BpmI CTGGAG 1 cut(s) 151
Bpu14I TTCGAA 1 cut(s) 300
BpuMI CCSGG 1 cut(s) 1032
BsaHI GRCGYC 1 cut(s) 252
BsaJI CCNNGG 2 cut(s) 956, 1103
BsaWI WCCGGW 1 cut(s) 910
BsaXI ACNNNNNCTCC 6 cut(s) 142, 172, 941, 971, 1059, 1089
Bsc4I CCNNNNNNNGG 2 cut(s) 180, 400
Bse118I RCCGGY 3 cut(s) 368, 853, 1042
Bse1I ACTGG 1 cut(s) 1264
BseDI CCNNGG 2 cut(s) 956, 1103
BseGI GGATG 2 cut(s) 946, 1213
BseLI CCNNNNNNNGG 2 cut(s) 180, 400
BseMII CTCAG 2 cut(s) 500, 590
BseNI ACTGG 1 cut(s) 1264
BseRI GAGGAG 3 cut(s) 824, 941, 1283
BseX3I CGGCCG 1 cut(s) 209
BseXI GCAGC 6 cut(s) 514, 517, 520, 532, 715, 1211
Bsh1285I CGRYCG 1 cut(s) 212
BshFI GGCC 6 cut(s) 211, 261, 291, 587, 953, 1303
BshNI GGYRCC 1 cut(s) 850
BsiEI CGRYCG 1 cut(s) 212
BsiHKAI GWGCWC 1 cut(s) 702
BsiHKCI CYCGRG 1 cut(s) 266
BsiSI CCGG 6 cut(s) 208, 369, 854, 911, 1031, 1043
BslFI GGGAC 2 cut(s) 434, 1294
BslI CCNNNNNNNGG 2 cut(s) 180, 400
BsmAI GTCTC 2 cut(s) 290, 1310
BsmBI CGTCTC 1 cut(s) 290
BsmFI GGGAC 2 cut(s) 434, 1294
BsnI GGCC 6 cut(s) 211, 261, 291, 587, 953, 1303
BsoBI CYCGRG 1 cut(s) 266
Bsp119I TTCGAA 1 cut(s) 300
Bsp1286I GDGCHC 1 cut(s) 702
Bsp143I GATC 4 cut(s) 270, 903, 1241, 1324
BspANI GGCC 6 cut(s) 211, 261, 291, 587, 953, 1303
BspCNI CTCAG 2 cut(s) 501, 589
BspLI GGNNCC 5 cut(s) 481, 506, 852, 954, 1041
BspPI GGATC 2 cut(s) 265, 1249
BspQI GCTCTTC 1 cut(s) 1125
BspT104I TTCGAA 1 cut(s) 300
BspT107I GGYRCC 1 cut(s) 850
BsrBI CCGCTC 2 cut(s) 243, 923
BsrFI RCCGGY 3 cut(s) 368, 853, 1042
BsrI ACTGG 1 cut(s) 1264
BssAI RCCGGY 3 cut(s) 368, 853, 1042
BssECI CCNNGG 2 cut(s) 956, 1103
BssMI GATC 4 cut(s) 270, 903, 1241, 1324
BssNI GRCGYC 1 cut(s) 252
BssT1I CCWWGG 1 cut(s) 1103
Bst4CI ACNGT 3 cut(s) 284, 395, 1285
Bst6I CTCTTC 3 cut(s) 1007, 1125, 1332
BstACI GRCGYC 1 cut(s) 252
BstBI TTCGAA 1 cut(s) 300
BstC8I GCNNGC 3 cut(s) 525, 690, 741
BstDEI CTNAG 2 cut(s) 509, 576
BstDSI CCRYGG 1 cut(s) 956
BstF5I GGATG 2 cut(s) 946, 1213
BstH2I RGCGCY 1 cut(s) 657
BstHHI GCGC 1 cut(s) 656
BstKTI GATC 4 cut(s) 273, 906, 1244, 1327
BstMAI GTCTC 2 cut(s) 290, 1310
BstMBI GATC 4 cut(s) 270, 903, 1241, 1324
BstMCI CGRYCG 1 cut(s) 212
BstMWI GCNNNNNNNGC 2 cut(s) 208, 533
BstSCI CCNGG 1 cut(s) 1030
BstV1I GCAGC 6 cut(s) 514, 517, 520, 532, 715, 1211
BstX2I RGATCY 1 cut(s) 270
BstYI RGATCY 1 cut(s) 270
BstZI CGGCCG 1 cut(s) 209
BsuRI GGCC 6 cut(s) 211, 261, 291, 587, 953, 1303
BtgI CCRYGG 1 cut(s) 956
BtsCI GGATG 2 cut(s) 946, 1213
BtsI GCAGTG 1 cut(s) 843
BtsIMutI CAGTG 2 cut(s) 743, 843
Cac8I GCNNGC 3 cut(s) 525, 690, 741
CaiI CAGNNNCTG 1 cut(s) 745
CfoI GCGC 1 cut(s) 656
Cfr10I RCCGGY 3 cut(s) 368, 853, 1042
Cfr13I GGNCC 3 cut(s) 586, 618, 952
CpoI CGGWCCG 1 cut(s) 618
CseI GACGC 1 cut(s) 260
Csp6I GTAC 1 cut(s) 493
CspI CGGWCCG 1 cut(s) 618
CviQI GTAC 1 cut(s) 493
DdeI CTNAG 2 cut(s) 509, 576
DpnI GATC 4 cut(s) 272, 905, 1243, 1326
DpnII GATC 4 cut(s) 270, 903, 1241, 1324
EaeI YGGCCR 2 cut(s) 209, 259
EagI CGGCCG 1 cut(s) 209
Eam1104I CTCTTC 3 cut(s) 1007, 1125, 1332
EarI CTCTTC 3 cut(s) 1007, 1125, 1332
EciI GGCGGA 3 cut(s) 136, 631, 1080
EclXI CGGCCG 1 cut(s) 209
Eco130I CCWWGG 1 cut(s) 1103
Eco47I GGWCC 1 cut(s) 618
Eco47III AGCGCT 1 cut(s) 655
Eco52I CGGCCG 1 cut(s) 209
Eco57I CTGAAG 1 cut(s) 767
Eco88I CYCGRG 1 cut(s) 266
EcoO109I RGGNCCY 1 cut(s) 952
EcoT14I CCWWGG 1 cut(s) 1103
ErhI CCWWGG 1 cut(s) 1103
Esp3I CGTCTC 1 cut(s) 290
FaiI YATR 5 cut(s) 545, 677, 947, 992, 1125
FaqI GGGAC 2 cut(s) 434, 1294
FblI GTMKAC 2 cut(s) 195, 890
FokI GGATG 2 cut(s) 953, 1220
FspBI CTAG 1 cut(s) 720
GlaI GCGC 1 cut(s) 655
GsuI CTGGAG 1 cut(s) 151
HaeII RGCGCY 1 cut(s) 657
HaeIII GGCC 6 cut(s) 211, 261, 291, 587, 953, 1303
HapII CCGG 6 cut(s) 208, 369, 854, 911, 1031, 1043
HgaI GACGC 1 cut(s) 260
HhaI GCGC 1 cut(s) 656
Hin1I GRCGYC 1 cut(s) 252
Hin6I GCGC 1 cut(s) 654
HinP1I GCGC 1 cut(s) 654
HincII GTYRAC 1 cut(s) 891
HindII GTYRAC 1 cut(s) 891
HindIII AAGCTT 1 cut(s) 557
HinfI GANTC 3 cut(s) 422, 706, 887
HpaII CCGG 6 cut(s) 208, 369, 854, 911, 1031, 1043
HphI GGTGA 6 cut(s) 358, 427, 671, 1060, 1123, 1223
Hpy166II GTNNAC 2 cut(s) 196, 891
Hpy188I TCNGA 3 cut(s) 463, 484, 715
Hpy188III TCNNGA 3 cut(s) 268, 508, 578
Hpy8I GTNNAC 2 cut(s) 196, 891
Hpy99I CGWCG 3 cut(s) 254, 386, 615
HpyCH4III ACNGT 3 cut(s) 284, 395, 1285
HpyCH4IV ACGT 1 cut(s) 381
HpyCH4V TGCA 2 cut(s) 755, 836
HpyF10VI GCNNNNNNNGC 2 cut(s) 208, 533
HpyF3I CTNAG 2 cut(s) 509, 576
HpySE526I ACGT 1 cut(s) 381
Hsp92I GRCGYC 1 cut(s) 252
HspAI GCGC 1 cut(s) 654
Kzo9I GATC 4 cut(s) 270, 903, 1241, 1324
LguI GCTCTTC 1 cut(s) 1125
LmnI GCTCC 7 cut(s) 176, 248, 510, 697, 979, 1039, 1158
Lsp1109I GCAGC 6 cut(s) 514, 517, 520, 532, 715, 1211
LweI GCATC 2 cut(s) 553, 1078
MaeI CTAG 1 cut(s) 720
MaeII ACGT 1 cut(s) 381
MaeIII GTNAC 1 cut(s) 10
MalI GATC 4 cut(s) 272, 905, 1243, 1326
MbiI CCGCTC 2 cut(s) 243, 923
MboI GATC 4 cut(s) 270, 903, 1241, 1324
MboII GAAGA 5 cut(s) 371, 943, 1024, 1142, 1349
MfeI CAATTG 1 cut(s) 1328
MflI RGATCY 1 cut(s) 270
MhlI GDGCHC 1 cut(s) 702
MluCI AATT 6 cut(s) 236, 485, 498, 546, 780, 1328
MlyI GAGTC 2 cut(s) 416, 896
MmeI TCCRAC 3 cut(s) 402, 462, 774
MseI TTAA 1 cut(s) 428
MspA1I CMGCKG 2 cut(s) 181, 1202
MspI CCGG 6 cut(s) 208, 369, 854, 911, 1031, 1043
MspR9I CCNGG 1 cut(s) 1032
MunI CAATTG 1 cut(s) 1328
MwoI GCNNNNNNNGC 2 cut(s) 208, 533
NciI CCSGG 1 cut(s) 1032
NdeII GATC 4 cut(s) 270, 903, 1241, 1324
NlaIV GGNNCC 5 cut(s) 481, 506, 852, 954, 1041
NmeAIII GCCGAG 1 cut(s) 267
NspV TTCGAA 1 cut(s) 300
PaeR7I CTCGAG 1 cut(s) 266
PciSI GCTCTTC 1 cut(s) 1125
PfeI GAWTC 1 cut(s) 706
PleI GAGTC 2 cut(s) 416, 895
PpsI GAGTC 2 cut(s) 416, 895
PspN4I GGNNCC 5 cut(s) 481, 506, 852, 954, 1041
PspPI GGNCC 3 cut(s) 586, 618, 952
PstNI CAGNNNCTG 1 cut(s) 745
PsuI RGATCY 1 cut(s) 270
RsaI GTAC 1 cut(s) 494
RsaNI GTAC 1 cut(s) 493
Rsr2I CGGWCCG 1 cut(s) 618
RsrII CGGWCCG 1 cut(s) 618
SalI GTCGAC 1 cut(s) 889
SapI GCTCTTC 1 cut(s) 1125
SaqAI TTAA 1 cut(s) 428
Sau3AI GATC 4 cut(s) 270, 903, 1241, 1324
Sau96I GGNCC 3 cut(s) 586, 618, 952
SchI GAGTC 2 cut(s) 416, 896
ScrFI CCNGG 1 cut(s) 1032
SduI GDGCHC 1 cut(s) 702
SfaNI GCATC 2 cut(s) 553, 1078
Sfr274I CTCGAG 1 cut(s) 266
SfuI TTCGAA 1 cut(s) 300
SinI GGWCC 1 cut(s) 618
SlaI CTCGAG 1 cut(s) 266
SmlI CTYRAG 1 cut(s) 266
SmoI CTYRAG 1 cut(s) 266
Sse9I AATT 6 cut(s) 236, 485, 498, 546, 780, 1328
SspMI CTAG 1 cut(s) 720
StyD4I CCNGG 1 cut(s) 1030
StyI CCWWGG 1 cut(s) 1103
TaaI ACNGT 3 cut(s) 284, 395, 1285
TaiI ACGT 1 cut(s) 384
TaqI TCGA 8 cut(s) 249, 267, 300, 357, 384, 468, 593, 890
TaqII GACCGA 1 cut(s) 635
TasI AATT 6 cut(s) 236, 485, 498, 546, 780, 1328
TauI GCSGC 4 cut(s) 184, 214, 264, 410
TfiI GAWTC 1 cut(s) 706
Tru1I TTAA 1 cut(s) 428
Tru9I TTAA 1 cut(s) 428
TscAI CASTG 2 cut(s) 750, 843
TseI GCWGC 6 cut(s) 520, 527, 530, 533, 728, 1199
TspDTI ATGAA 1 cut(s) 532
TspRI CASTG 2 cut(s) 750, 843
VpaK11BI GGWCC 1 cut(s) 618
XapI RAATTY 2 cut(s) 236, 498
XhoI CTCGAG 1 cut(s) 266
XmiI GTMKAC 2 cut(s) 195, 890
XspI CTAG 1 cut(s) 720
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.