Rh4DG100300

RuBisCO catalyzes two reactions the carboxylation of D- ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate. Both reactions occur simultaneously and in competition at the same active site

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0014712
Physical Location & Seq
Reverse (-)
15245133 .. 15246330
1198 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG100300.1

Sequence Viewer

Length: 627 bp
ATGAGATCAATGATCAAATACCTTTCAGGAAATTGCGCCCACTGTCTTCTAATACCACTCTTAACAGACTGTGCATCACCCTTACAAACACAGAGACTGAAGATGTCTGCTGCTATCTTCAATTCTCCGGTTGCTGCATCTGGTTATGTTGGCTTAGCAACCAACCCTTCAAAAATTTTCCCAGCTAAAGACTCTATCGGATGGACCAAGAAAACCGTATCCAATGGTTCAAGAACTTGCTGCATGAAGACGTGGAACCCGATCAACAACAAGAAGTTTGAGACTCTGTCTTACCTCCCACCACTCTCTGATGATTCAATTGCAAAGGAGATTGACTACATGCTCAAGAAGGGATGGATCCCTTGCCTTGAATTTGATGAGGTGGGTTATGTTCATAGGGAGAATAGCAGGATGCCAGGGTACTATGATGGAAGATACTGGACATTGTGGAAGCTACCCATGTTTGGTTGTACCGACCCTTCTCTGGTGCTCAATGAAATCCAAGAGTGCAAAAAAACGTACCCAAGTGCTTATATACGCTGTTTAGCATTTGACAACCAGAACCAGGGTCAGTGCATGGCCTTTATCATTCAGAAGCCAACTGTCGCGGCCACCACCAGTGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00630 ko00710 ko01100 ko01120 ko01200 map00630 map00710 map01100 map01120 map01200
Pfam Domains
Protein Families
RuBisCO_small

Protein Analysis

208

Amino Acids

23.35

Weight (kDa)

8.87

Isoelectric Point (pI)

44.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RuBisCO_small PF00101 93 - 200 3.9e-38 Ribulose bisphosphate carboxylase, small chain
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: OG0014712)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g08000 FvH4_4g08000
malus_domestica MD04G1188500.v1.1 MD13G1252300.v1.1
prunus_persica Prupe.1G084500_v2.0.a1
pyrus_communis pycom13g22570
rosa_chinensis RchiOBHm_Chr4g0401741
rosa_laevigata RLG00000009138
rosa_multiflora Rmu_sc0001405.1_g000012 Rmu_sc0012591.1_g000003
rosa_roxburghii Rroxscaffold_5G00346210
rosa_rugosa Rorug04G0031400
rosa_samantha Rh4AG108600 Rh4BG102300 Rh4CG116800 Rh4DG100300
rosa_wichuraiana Rw4G008830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 608
AciI CCGC 1 cut(s) 608
AclWI GGATC 2 cut(s) 352, 365
AcoI YGGCCR 1 cut(s) 609
AcsI RAATTY 2 cut(s) 174, 371
AcuI CTGAAG 1 cut(s) 119
AfaI GTAC 3 cut(s) 422, 472, 521
AfiI CCNNNNNNNGG 3 cut(s) 464, 484, 565
AgsI TTSAA 5 cut(s) 121, 171, 231, 318, 371
AjiI CACGTC 1 cut(s) 252
AjnI CCWGG 2 cut(s) 415, 564
AluBI AGCT 2 cut(s) 185, 454
AluI AGCT 2 cut(s) 185, 454
Alw21I GWGCWC 1 cut(s) 492
Alw26I GTCTC 2 cut(s) 88, 275
AlwI GGATC 2 cut(s) 352, 365
AlwNI CAGNNNCTG 1 cut(s) 97
AoxI GGCC 2 cut(s) 579, 609
ApeKI GCWGC 3 cut(s) 110, 134, 240
ApoI RAATTY 2 cut(s) 174, 371
AspLEI GCGC 1 cut(s) 38
AspS9I GGNCC 1 cut(s) 204
AsuHPI GGTGA 1 cut(s) 69
AvaII GGWCC 1 cut(s) 204
BamHI GGATCC 1 cut(s) 357
BarI GAAGNNNNNNTAC 2 cut(s) 463, 495
BbsI GAAGAC 2 cut(s) 38, 254
Bbv12I GWGCWC 1 cut(s) 492
BbvI GCAGC 3 cut(s) 97, 121, 227
BccI CCATC 3 cut(s) 195, 348, 422
BciT130I CCWGG 2 cut(s) 417, 566
BciVI GTATCC 1 cut(s) 229
BclI TGATCA 1 cut(s) 12
BcoDI GTCTC 2 cut(s) 88, 275
BfuI GTATCC 1 cut(s) 229
BisI GCNGC 4 cut(s) 111, 135, 241, 609
BlpI GCTNAGC 1 cut(s) 154
BlsI GCNGC 4 cut(s) 112, 136, 242, 610
Bme1390I CCNGG 2 cut(s) 417, 566
Bme18I GGWCC 1 cut(s) 204
BmgBI CACGTC 1 cut(s) 252
BmgT120I GGNCC 1 cut(s) 204
BmiI GGNNCC 2 cut(s) 257, 359
BmrFI CCNGG 2 cut(s) 417, 566
BmsI GCATC 3 cut(s) 83, 146, 402
BpiI GAAGAC 2 cut(s) 38, 254
Bpu1102I GCTNAGC 1 cut(s) 154
BpuEI CTTGAG 1 cut(s) 329
BsaJI CCNNGG 2 cut(s) 416, 565
BsaWI WCCGGW 1 cut(s) 127
Bsc4I CCNNNNNNNGG 3 cut(s) 464, 484, 565
Bse1I ACTGG 2 cut(s) 443, 618
BseBI CCWGG 2 cut(s) 417, 566
BseDI CCNNGG 2 cut(s) 416, 565
BseGI GGATG 3 cut(s) 206, 359, 417
BseLI CCNNNNNNNGG 3 cut(s) 464, 484, 565
BseNI ACTGG 2 cut(s) 443, 618
BseXI GCAGC 3 cut(s) 97, 121, 227
BseYI CCCAGC 1 cut(s) 181
Bsh1236I CGCG 1 cut(s) 608
BshFI GGCC 2 cut(s) 581, 611
BsiHKAI GWGCWC 1 cut(s) 492
BsiSI CCGG 1 cut(s) 128
BslI CCNNNNNNNGG 3 cut(s) 464, 484, 565
BsmAI GTCTC 2 cut(s) 88, 275
BsnI GGCC 2 cut(s) 581, 611
Bsp1286I GDGCHC 1 cut(s) 492
Bsp143I GATC 4 cut(s) 5, 12, 261, 357
Bsp1720I GCTNAGC 1 cut(s) 154
BspACI CCGC 1 cut(s) 608
BspANI GGCC 2 cut(s) 581, 611
BspFNI CGCG 1 cut(s) 608
BspLI GGNNCC 2 cut(s) 257, 359
BspPI GGATC 2 cut(s) 352, 365
BsrI ACTGG 2 cut(s) 443, 618
BssECI CCNNGG 2 cut(s) 416, 565
BssMI GATC 4 cut(s) 5, 12, 261, 357
Bst2UI CCWGG 2 cut(s) 417, 566
Bst4CI ACNGT 4 cut(s) 44, 71, 217, 604
BstDEI CTNAG 1 cut(s) 154
BstF5I GGATG 3 cut(s) 206, 359, 417
BstFNI CGCG 1 cut(s) 608
BstHHI GCGC 1 cut(s) 38
BstKTI GATC 4 cut(s) 8, 15, 264, 360
BstMAI GTCTC 2 cut(s) 88, 275
BstMBI GATC 4 cut(s) 5, 12, 261, 357
BstNI CCWGG 2 cut(s) 417, 566
BstNSI RCATGY 1 cut(s) 343
BstSCI CCNGG 2 cut(s) 415, 564
BstUI CGCG 1 cut(s) 608
BstV1I GCAGC 3 cut(s) 97, 121, 227
BstV2I GAAGAC 2 cut(s) 38, 254
BstX2I RGATCY 1 cut(s) 357
BstYI RGATCY 1 cut(s) 357
BsuI GTATCC 1 cut(s) 229
BsuRI GGCC 2 cut(s) 581, 611
BtrI CACGTC 1 cut(s) 252
BtsCI GGATG 3 cut(s) 206, 359, 417
BtsIMutI CAGTG 3 cut(s) 40, 578, 625
CaiI CAGNNNCTG 1 cut(s) 97
CfoI GCGC 1 cut(s) 38
Cfr13I GGNCC 1 cut(s) 204
Csp6I GTAC 3 cut(s) 421, 471, 520
CviAII CATG 4 cut(s) 244, 340, 460, 577
CviJI RGCY 6 cut(s) 153, 185, 454, 581, 598, 611
CviKI_1 RGCY 6 cut(s) 153, 185, 454, 581, 598, 611
CviQI GTAC 3 cut(s) 421, 471, 520
DdeI CTNAG 1 cut(s) 154
DpnI GATC 4 cut(s) 7, 14, 263, 359
DpnII GATC 4 cut(s) 5, 12, 261, 357
EaeI YGGCCR 1 cut(s) 609
Eco47I GGWCC 1 cut(s) 204
Eco57I CTGAAG 1 cut(s) 119
EcoRII CCWGG 2 cut(s) 415, 564
FaeI CATG 4 cut(s) 247, 343, 463, 580
FatI CATG 4 cut(s) 243, 339, 459, 576
FbaI TGATCA 1 cut(s) 12
Fnu4HI GCNGC 4 cut(s) 111, 135, 241, 609
FokI GGATG 3 cut(s) 213, 366, 424
Fsp4HI GCNGC 4 cut(s) 111, 135, 241, 609
GlaI GCGC 1 cut(s) 37
GluI GCNGC 4 cut(s) 111, 135, 241, 609
GsaI CCCAGC 1 cut(s) 185
HaeIII GGCC 2 cut(s) 581, 611
HapII CCGG 1 cut(s) 128
HhaI GCGC 1 cut(s) 38
Hin1II CATG 4 cut(s) 247, 343, 463, 580
Hin6I GCGC 1 cut(s) 36
HinP1I GCGC 1 cut(s) 36
HinfI GANTC 3 cut(s) 191, 283, 314
HpaII CCGG 1 cut(s) 128
HphI GGTGA 1 cut(s) 69
Hpy188I TCNGA 3 cut(s) 200, 310, 594
Hpy188III TCNNGA 3 cut(s) 27, 231, 346
HpyAV CCTTC 3 cut(s) 177, 343, 489
HpyCH4III ACNGT 4 cut(s) 44, 71, 217, 604
HpyCH4IV ACGT 2 cut(s) 251, 518
HpyCH4V TGCA 6 cut(s) 74, 137, 243, 323, 510, 576
HpyF3I CTNAG 1 cut(s) 154
HpySE526I ACGT 2 cut(s) 251, 518
Hsp92II CATG 4 cut(s) 247, 343, 463, 580
HspAI GCGC 1 cut(s) 36
Ksp22I TGATCA 1 cut(s) 12
Kzo9I GATC 4 cut(s) 5, 12, 261, 357
Lsp1109I GCAGC 3 cut(s) 97, 121, 227
LweI GCATC 3 cut(s) 83, 146, 402
MaeII ACGT 2 cut(s) 251, 518
MalI GATC 4 cut(s) 7, 14, 263, 359
MboI GATC 4 cut(s) 5, 12, 261, 357
MboII GAAGA 5 cut(s) 38, 109, 112, 259, 444
MfeI CAATTG 1 cut(s) 318
MflI RGATCY 1 cut(s) 357
MhlI GDGCHC 1 cut(s) 492
MluCI AATT 5 cut(s) 31, 121, 174, 318, 371
MlyI GAGTC 2 cut(s) 185, 277
MnlI CCTC 2 cut(s) 305, 373
MseI TTAA 1 cut(s) 62
MspI CCGG 1 cut(s) 128
MspR9I CCNGG 2 cut(s) 417, 566
MunI CAATTG 1 cut(s) 318
MvaI CCWGG 2 cut(s) 417, 566
MvnI CGCG 1 cut(s) 608
NdeII GATC 4 cut(s) 5, 12, 261, 357
NlaIII CATG 4 cut(s) 247, 343, 463, 580
NlaIV GGNNCC 2 cut(s) 257, 359
NspI RCATGY 1 cut(s) 343
PcsI WCGNNNNNNNCGW 1 cut(s) 257
PfeI GAWTC 1 cut(s) 314
PflFI GACNNNGTC 1 cut(s) 286
PkrI GCNGC 4 cut(s) 112, 136, 242, 610
PleI GAGTC 2 cut(s) 185, 277
PpsI GAGTC 2 cut(s) 185, 277
Psp6I CCWGG 2 cut(s) 415, 564
PspFI CCCAGC 1 cut(s) 181
PspGI CCWGG 2 cut(s) 415, 564
PspN4I GGNNCC 2 cut(s) 257, 359
PspPI GGNCC 1 cut(s) 204
PstNI CAGNNNCTG 1 cut(s) 97
PsuI RGATCY 1 cut(s) 357
PsyI GACNNNGTC 1 cut(s) 286
RsaI GTAC 3 cut(s) 422, 472, 521
RsaNI GTAC 3 cut(s) 421, 471, 520
SaqAI TTAA 1 cut(s) 62
SatI GCNGC 4 cut(s) 111, 135, 241, 609
Sau3AI GATC 4 cut(s) 5, 12, 261, 357
Sau96I GGNCC 1 cut(s) 204
SchI GAGTC 2 cut(s) 185, 277
ScrFI CCNGG 2 cut(s) 417, 566
SduI GDGCHC 1 cut(s) 492
SetI ASST 7 cut(s) 24, 187, 254, 297, 384, 456, 521
SfaNI GCATC 3 cut(s) 83, 146, 402
SinI GGWCC 1 cut(s) 204
SmlI CTYRAG 1 cut(s) 344
SmoI CTYRAG 1 cut(s) 344
Sse9I AATT 5 cut(s) 31, 121, 174, 318, 371
SsiI CCGC 1 cut(s) 608
StyD4I CCNGG 2 cut(s) 415, 564
TaaI ACNGT 4 cut(s) 44, 71, 217, 604
TaiI ACGT 2 cut(s) 254, 521
TasI AATT 5 cut(s) 31, 121, 174, 318, 371
TauI GCSGC 1 cut(s) 611
TfiI GAWTC 1 cut(s) 314
Tru1I TTAA 1 cut(s) 62
Tru9I TTAA 1 cut(s) 62
TscAI CASTG 3 cut(s) 47, 578, 625
TseI GCWGC 3 cut(s) 110, 134, 240
TspDTI ATGAA 3 cut(s) 260, 383, 510
TspRI CASTG 3 cut(s) 47, 578, 625
Tth111I GACNNNGTC 1 cut(s) 286
VpaK11BI GGWCC 1 cut(s) 204
XapI RAATTY 2 cut(s) 174, 371
XceI RCATGY 1 cut(s) 343
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.