Rh3AG024000

Rubisco accumulation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0014193
Physical Location & Seq
Forward (+)
1624573 .. 1625669
1097 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG024000.1

Sequence Viewer

Length: 903 bp
ATGGCCGTCTCGAAATCCTCGCCAACCGTCTCGGCTTATGGGATTTCCTCGGTTGAGCAGAACCGACTAGTCGTGGCAGCTAAAGTGAGGGACTCTCTGGTCCATTCCAAGACGGACCCAGAAATCGTGGCGGAGTTTGACACCGGAGGGTCGGAGTTGTTGTATGAAATAAGGCTGCTCAGTGTTCAGCAGCGGGCGGCCGCGGCGAGGTTCGTTGTGGAGAAGAAGCTTGATGCAAAAGGAGCTGAGGACCTCGCACGTGCCACTAAGGACTTCCCAAGGAGGCGCGGGGATAAGGGTTGGGAGAGCTTTGATTATACACACCCTGGAGATTGTTTGGCGTTTATGTACTATAGGCAAGCTAGGGAGCATAAGAATCCTTCTGAGCCTAGGACTTCGGCTTTGGAGGAGGCATTGAAGGTTGTGGAGAGTGAGAAGGCGAGGAATGTGATTCTTAAGGAGTTGGGAGGGGAGAGTGGGGAGAGTGAAGAGGAAGGGGATGTTGTGGCGGGGGTGAAGGTTCCGGTGGTGAGGATTAAGTTTGGGGAGGTGGCGGAGTCGAGTAGGGTGGTGATATTGCCGGTTTGTAAGGCAGAGGAGAAGGATAAGGTGGGGGGAGTGGTGGTGTCGTTTAGTGATGCTAGGGTGTTGCCATGGAAGGCGAATAGGTGGTATAAGGAGGAGCCTATATTGGTGGTGGCTGATAGGAGTAAGAAGGATGTGGAAGCTGATGATGGGTTTTATTTGGCAGCCATGGATGGGGGTGATTTGGGGTTTAAGGTTGAGAGGGGATCGGCATTGAAGGAAGCTGGTGTGACGGAGAGTTTGGGAACTGTGGTGTTGATAGTGAGGCCACCAAAAGATGAGACAGAAAATGAATTGGCTGACGAAGATTGGGAGTGA

Protein Analysis

300

Amino Acids

32.99

Weight (kDa)

5.05

Isoelectric Point (pI)

44.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Raf1_N PF18578 46 - 155 3.9e-38 Rubisco accumulation factor 1 alpha helical domain
RuBisCo_chap_C PF18087 206 - 287 8.7e-14 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)
AasI GACNNNNNNGTC 1 cut(s) 98
AccII CGCG 2 cut(s) 203, 288
AciI CCGC 8 cut(s) 131, 193, 197, 201, 203, 288, 509, 554
AclWI GGATC 1 cut(s) 799
AcoI YGGCCR 2 cut(s) 3, 198
AcvI CACGTG 1 cut(s) 260
AfaI GTAC 1 cut(s) 350
AfiI CCNNNNNNNGG 2 cut(s) 207, 759
AflII CTTAAG 1 cut(s) 455
AgsI TTSAA 2 cut(s) 418, 802
AhlI ACTAGT 1 cut(s) 67
AjnI CCWGG 1 cut(s) 325
AluBI AGCT 7 cut(s) 80, 229, 245, 309, 362, 728, 809
AluI AGCT 7 cut(s) 80, 229, 245, 309, 362, 728, 809
Alw26I GTCTC 3 cut(s) 13, 34, 860
AlwI GGATC 1 cut(s) 799
AoxI GGCC 3 cut(s) 3, 198, 851
ApeKI GCWGC 4 cut(s) 77, 175, 190, 749
ArsI GACNNNNNNTTYG 4 cut(s) 385, 417, 808, 840
AspA2I CCTAGG 1 cut(s) 389
AspLEI GCGC 1 cut(s) 288
AspS9I GGNCC 3 cut(s) 100, 115, 250
AsuHPI GGTGA 4 cut(s) 526, 541, 583, 776
AvaII GGWCC 3 cut(s) 100, 115, 250
AvrII CCTAGG 1 cut(s) 389
BbrPI CACGTG 1 cut(s) 260
BbvCI CCTCAGC 1 cut(s) 246
BbvI GCAGC 4 cut(s) 89, 162, 202, 761
BccI CCATC 2 cut(s) 728, 752
BciT130I CCWGG 1 cut(s) 327
BcoDI GTCTC 3 cut(s) 13, 34, 860
BcuI ACTAGT 1 cut(s) 67
BfaI CTAG 4 cut(s) 68, 363, 390, 642
BfmI CTRYAG 1 cut(s) 352
BfrI CTTAAG 1 cut(s) 455
BisI GCNGC 7 cut(s) 78, 176, 191, 198, 201, 204, 750
BlnI CCTAGG 1 cut(s) 389
BlsI GCNGC 7 cut(s) 79, 177, 192, 199, 202, 205, 751
Bme1390I CCNGG 1 cut(s) 327
Bme18I GGWCC 3 cut(s) 100, 115, 250
BmgT120I GGNCC 3 cut(s) 100, 115, 250
BmiI GGNNCC 3 cut(s) 117, 522, 684
BmrFI CCNGG 1 cut(s) 327
BmsI GCATC 2 cut(s) 223, 628
BplI GAGNNNNNCTC 2 cut(s) 79, 111
BpmI CTGGAG 1 cut(s) 348
Bpu10I CCTNAGC 1 cut(s) 246
BsaAI YACGTR 1 cut(s) 260
BsaJI CCNNGG 7 cut(s) 48, 201, 278, 325, 389, 653, 753
BsaWI WCCGGW 2 cut(s) 143, 523
BsaXI ACNNNNNCTCC 4 cut(s) 146, 176, 609, 639
Bsc4I CCNNNNNNNGG 2 cut(s) 207, 759
Bse118I RCCGGY 1 cut(s) 580
BseBI CCWGG 1 cut(s) 327
BseDI CCNNGG 7 cut(s) 48, 201, 278, 325, 389, 653, 753
BseGI GGATG 3 cut(s) 505, 724, 763
BseLI CCNNNNNNNGG 2 cut(s) 207, 759
BseMII CTCAG 3 cut(s) 193, 237, 375
BseRI GAGGAG 3 cut(s) 422, 611, 695
BseX3I CGGCCG 1 cut(s) 198
BseXI GCAGC 4 cut(s) 89, 162, 202, 761
Bsh1236I CGCG 2 cut(s) 203, 288
Bsh1285I CGRYCG 1 cut(s) 201
BshFI GGCC 3 cut(s) 5, 200, 853
BsiEI CGRYCG 1 cut(s) 201
BsiSI CCGG 3 cut(s) 144, 524, 581
BslFI GGGAC 1 cut(s) 104
BslI CCNNNNNNNGG 2 cut(s) 207, 759
BsmAI GTCTC 3 cut(s) 13, 34, 860
BsmBI CGTCTC 2 cut(s) 13, 34
BsmFI GGGAC 1 cut(s) 104
BsnI GGCC 3 cut(s) 5, 200, 853
Bsp143I GATC 1 cut(s) 791
Bsp19I CCATGG 2 cut(s) 653, 753
BspACI CCGC 8 cut(s) 131, 193, 197, 201, 203, 288, 509, 554
BspANI GGCC 3 cut(s) 5, 200, 853
BspCNI CTCAG 3 cut(s) 192, 238, 376
BspFNI CGCG 2 cut(s) 203, 288
BspLI GGNNCC 3 cut(s) 117, 522, 684
BspPI GGATC 1 cut(s) 799
BspTI CTTAAG 1 cut(s) 455
BsrFI RCCGGY 1 cut(s) 580
BssAI RCCGGY 1 cut(s) 580
BssECI CCNNGG 7 cut(s) 48, 201, 278, 325, 389, 653, 753
BssMI GATC 1 cut(s) 791
BssT1I CCWWGG 4 cut(s) 278, 389, 653, 753
Bst2UI CCWGG 1 cut(s) 327
Bst4CI ACNGT 2 cut(s) 28, 835
Bst6I CTCTTC 1 cut(s) 483
BstAFI CTTAAG 1 cut(s) 455
BstBAI YACGTR 1 cut(s) 260
BstC8I GCNNGC 2 cut(s) 195, 360
BstDEI CTNAG 4 cut(s) 179, 246, 267, 384
BstDSI CCRYGG 3 cut(s) 201, 653, 753
BstF5I GGATG 3 cut(s) 505, 724, 763
BstFNI CGCG 2 cut(s) 203, 288
BstHHI GCGC 1 cut(s) 288
BstKTI GATC 1 cut(s) 794
BstMAI GTCTC 3 cut(s) 13, 34, 860
BstMBI GATC 1 cut(s) 791
BstMCI CGRYCG 1 cut(s) 201
BstMWI GCNNNNNNNGC 2 cut(s) 203, 242
BstNI CCWGG 1 cut(s) 327
BstSCI CCNGG 1 cut(s) 325
BstSFI CTRYAG 1 cut(s) 352
BstUI CGCG 2 cut(s) 203, 288
BstV1I GCAGC 4 cut(s) 89, 162, 202, 761
BstZI CGGCCG 1 cut(s) 198
BsuRI GGCC 3 cut(s) 5, 200, 853
BtgI CCRYGG 3 cut(s) 201, 653, 753
BtsCI GGATG 3 cut(s) 505, 724, 763
BtsIMutI CAGTG 1 cut(s) 187
Cac8I GCNNGC 2 cut(s) 195, 360
CciNI GCGGCCGC 1 cut(s) 198
CfoI GCGC 1 cut(s) 288
Cfr10I RCCGGY 1 cut(s) 580
Cfr13I GGNCC 3 cut(s) 100, 115, 250
Cfr42I CCGCGG 1 cut(s) 204
Csp6I GTAC 1 cut(s) 349
CviAII CATG 2 cut(s) 654, 754
CviQI GTAC 1 cut(s) 349
DdeI CTNAG 4 cut(s) 179, 246, 267, 384
DpnI GATC 1 cut(s) 793
DpnII GATC 1 cut(s) 791
DrdI GACNNNNNNGTC 1 cut(s) 98
DseDI GACNNNNNNGTC 1 cut(s) 98
EaeI YGGCCR 2 cut(s) 3, 198
EagI CGGCCG 1 cut(s) 198
Eam1104I CTCTTC 1 cut(s) 483
EarI CTCTTC 1 cut(s) 483
EciI GGCGGA 2 cut(s) 146, 569
EclXI CGGCCG 1 cut(s) 198
Eco130I CCWWGG 4 cut(s) 278, 389, 653, 753
Eco47I GGWCC 3 cut(s) 100, 115, 250
Eco52I CGGCCG 1 cut(s) 198
Eco72I CACGTG 1 cut(s) 260
EcoO109I RGGNCCY 1 cut(s) 250
EcoRII CCWGG 1 cut(s) 325
EcoT14I CCWWGG 4 cut(s) 278, 389, 653, 753
ErhI CCWWGG 4 cut(s) 278, 389, 653, 753
Esp3I CGTCTC 2 cut(s) 13, 34
FaeI CATG 2 cut(s) 657, 757
FaqI GGGAC 1 cut(s) 104
FatI CATG 2 cut(s) 653, 753
FauI CCCGC 3 cut(s) 186, 281, 502
Fnu4HI GCNGC 7 cut(s) 78, 176, 191, 198, 201, 204, 750
FokI GGATG 3 cut(s) 512, 731, 770
Fsp4HI GCNGC 7 cut(s) 78, 176, 191, 198, 201, 204, 750
FspBI CTAG 4 cut(s) 68, 363, 390, 642
GlaI GCGC 1 cut(s) 287
GluI GCNGC 7 cut(s) 78, 176, 191, 198, 201, 204, 750
GsuI CTGGAG 1 cut(s) 348
HaeIII GGCC 3 cut(s) 5, 200, 853
HapII CCGG 3 cut(s) 144, 524, 581
HhaI GCGC 1 cut(s) 288
Hin1II CATG 2 cut(s) 657, 757
Hin6I GCGC 1 cut(s) 286
HinP1I GCGC 1 cut(s) 286
HindIII AAGCTT 1 cut(s) 227
HinfI GANTC 4 cut(s) 92, 376, 451, 557
HpaII CCGG 3 cut(s) 144, 524, 581
HphI GGTGA 4 cut(s) 526, 541, 583, 776
Hpy188I TCNGA 2 cut(s) 154, 385
Hpy188III TCNNGA 1 cut(s) 10
HpyAV CCTTC 9 cut(s) 390, 412, 430, 488, 511, 595, 652, 709, 796
HpyCH4III ACNGT 2 cut(s) 28, 835
HpyCH4IV ACGT 1 cut(s) 259
HpyCH4V TGCA 1 cut(s) 236
HpyF10VI GCNNNNNNNGC 2 cut(s) 203, 242
HpyF3I CTNAG 4 cut(s) 179, 246, 267, 384
HpySE526I ACGT 1 cut(s) 259
Hsp92II CATG 2 cut(s) 657, 757
HspAI GCGC 1 cut(s) 286
KspI CCGCGG 1 cut(s) 204
Kzo9I GATC 1 cut(s) 791
LmnI GCTCC 3 cut(s) 242, 367, 682
LpnPI CCDG 8 cut(s) 83, 132, 157, 312, 339, 537, 594, 795
Lsp1109I GCAGC 4 cut(s) 89, 162, 202, 761
LweI GCATC 2 cut(s) 223, 628
MaeI CTAG 4 cut(s) 68, 363, 390, 642
MaeII ACGT 1 cut(s) 259
MaeIII GTNAC 1 cut(s) 814
MalI GATC 1 cut(s) 793
MboI GATC 1 cut(s) 791
MboII GAAGA 3 cut(s) 235, 500, 902
MluCI AATT 1 cut(s) 878
MlyI GAGTC 2 cut(s) 86, 566
MmeI TCCRAC 1 cut(s) 132
MseI TTAA 3 cut(s) 456, 537, 777
MspA1I CMGCKG 2 cut(s) 193, 203
MspCI CTTAAG 1 cut(s) 455
MspI CCGG 3 cut(s) 144, 524, 581
MspR9I CCNGG 1 cut(s) 327
MvaI CCWGG 1 cut(s) 327
MvnI CGCG 2 cut(s) 203, 288
MwoI GCNNNNNNNGC 2 cut(s) 203, 242
NcoI CCATGG 2 cut(s) 653, 753
NdeII GATC 1 cut(s) 791
NlaIII CATG 2 cut(s) 657, 757
NlaIV GGNNCC 3 cut(s) 117, 522, 684
NmeAIII GCCGAG 1 cut(s) 11
NmuCI GTSAC 1 cut(s) 814
NotI GCGGCCGC 1 cut(s) 198
PfeI GAWTC 2 cut(s) 376, 451
PkrI GCNGC 7 cut(s) 79, 177, 192, 199, 202, 205, 751
PleI GAGTC 2 cut(s) 86, 565
PmaCI CACGTG 1 cut(s) 260
PmlI CACGTG 1 cut(s) 260
PpsI GAGTC 2 cut(s) 86, 565
Ppu21I YACGTR 1 cut(s) 260
PpuMI RGGWCCY 1 cut(s) 250
Psp5II RGGWCCY 1 cut(s) 250
Psp6I CCWGG 1 cut(s) 325
PspCI CACGTG 1 cut(s) 260
PspGI CCWGG 1 cut(s) 325
PspN4I GGNNCC 3 cut(s) 117, 522, 684
PspPI GGNCC 3 cut(s) 100, 115, 250
PspPPI RGGWCCY 1 cut(s) 250
RsaI GTAC 1 cut(s) 350
RsaNI GTAC 1 cut(s) 349
SacII CCGCGG 1 cut(s) 204
SaqAI TTAA 3 cut(s) 456, 537, 777
SatI GCNGC 7 cut(s) 78, 176, 191, 198, 201, 204, 750
Sau3AI GATC 1 cut(s) 791
Sau96I GGNCC 3 cut(s) 100, 115, 250
SchI GAGTC 2 cut(s) 86, 566
ScrFI CCNGG 1 cut(s) 327
SfaNI GCATC 2 cut(s) 223, 628
SfcI CTRYAG 1 cut(s) 352
Sfr303I CCGCGG 1 cut(s) 204
SgrBI CCGCGG 1 cut(s) 204
SinI GGWCC 3 cut(s) 100, 115, 250
SmlI CTYRAG 1 cut(s) 455
SmoI CTYRAG 1 cut(s) 455
SpeI ACTAGT 1 cut(s) 67
Sse9I AATT 1 cut(s) 878
SsiI CCGC 8 cut(s) 131, 193, 197, 201, 203, 288, 509, 554
SspMI CTAG 4 cut(s) 68, 363, 390, 642
StyD4I CCNGG 1 cut(s) 325
StyI CCWWGG 4 cut(s) 278, 389, 653, 753
TaaI ACNGT 2 cut(s) 28, 835
TaiI ACGT 1 cut(s) 262
TaqI TCGA 2 cut(s) 11, 560
TasI AATT 1 cut(s) 878
TatI WGTACW 1 cut(s) 348
TauI GCSGC 3 cut(s) 200, 203, 206
TfiI GAWTC 2 cut(s) 376, 451
Tru1I TTAA 3 cut(s) 456, 537, 777
Tru9I TTAA 3 cut(s) 456, 537, 777
TscAI CASTG 1 cut(s) 187
TseFI GTSAC 1 cut(s) 814
TseI GCWGC 4 cut(s) 77, 175, 190, 749
Tsp45I GTSAC 1 cut(s) 814
TspDTI ATGAA 2 cut(s) 180, 891
TspGWI ACGGA 2 cut(s) 128, 833
TspRI CASTG 1 cut(s) 187
Vha464I CTTAAG 1 cut(s) 455
VpaK11BI GGWCC 3 cut(s) 100, 115, 250
XmaJI CCTAGG 1 cut(s) 389
XspI CTAG 4 cut(s) 68, 363, 390, 642
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.