MD04G1188500.v1.1

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
malus_domestica
Chr04
OG0014712
Physical Location & Seq
Reverse (-)
27917673 .. 27920143
2471 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1188500.v1.1.491

Sequence Viewer

Length: 540 bp
ATGTCTGCTTTGATCTTTAATGCTCCGGTTGGTGCATCCGGTTATGCTGGCTTGAAAGTCAACCCTTGGAAACTTTTTCCGGTGAATGATTCTATTGGATGGGCCAAGAAAACCGTCTCCAATGGATCAAGAACTCTCTGCATGAAGGTATGGAATCCAATCAACAACAAGAAGTTCGAGACCCTCTCGTACCTACCACCACTCTCTGACGATTCTATTGCGAAGGAGATTGACTACATGCTCAAGAAGGGATGGATCCCTTGCCTCGAATTCGATGAGGTTGGGTATGTTTACAGGGAGAATAGCCAGATGCCAGGGTATTATGATGGGAGATACTGGACATTGTGGAAGCTGCCCATGTTTGGTTGTACTGATCCGTCGCTCGTTCTCAATGAAATCCAGCAGTGCAAAACAGAATACCCTAATGCTTATATTCGCTGCGTGGCATTCGACAACGTCAACCAGGGTCAGTGCATGGCCTTTATCATTCAGAAGCCAACAGCTACCGCAGCCGCCACCGCCGCCGCCGCCAATGCTTAA
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

180

Amino Acids

20.02

Weight (kDa)

8.15

Isoelectric Point (pI)

37.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RuBisCO_small PF00101 59 - 166 2.1e-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)
AciI CCGC 6 cut(s) 507, 513, 519, 522, 525, 528
AclWI GGATC 4 cut(s) 133, 250, 263, 368
AcsI RAATTY 1 cut(s) 269
AfaI GTAC 2 cut(s) 191, 370
AfiI CCNNNNNNNGG 1 cut(s) 362
AgsI TTSAA 1 cut(s) 55
AjnI CCWGG 2 cut(s) 313, 462
AluBI AGCT 2 cut(s) 352, 503
AluI AGCT 2 cut(s) 352, 503
Alw26I GTCTC 2 cut(s) 121, 173
AlwI GGATC 4 cut(s) 133, 250, 263, 368
AoxI GGCC 2 cut(s) 102, 477
ApeKI GCWGC 3 cut(s) 352, 438, 509
ApoI RAATTY 1 cut(s) 269
AspS9I GGNCC 1 cut(s) 102
AsuHPI GGTGA 1 cut(s) 94
BamHI GGATCC 1 cut(s) 255
BbvI GCAGC 3 cut(s) 339, 425, 521
BccI CCATC 3 cut(s) 93, 246, 320
BcgI CGANNNNNNTGC 2 cut(s) 200, 234
BciT130I CCWGG 2 cut(s) 315, 464
BcoDI GTCTC 2 cut(s) 121, 173
BisI GCNGC 7 cut(s) 353, 439, 510, 513, 522, 525, 528
BlsI GCNGC 7 cut(s) 354, 440, 511, 514, 523, 526, 529
Bme1390I CCNGG 2 cut(s) 315, 464
BmgT120I GGNCC 1 cut(s) 102
BmiI GGNNCC 1 cut(s) 257
BmrFI CCNGG 2 cut(s) 315, 464
BmsI GCATC 2 cut(s) 44, 300
BplI GAGNNNNNCTC 2 cut(s) 170, 202
BpuEI CTTGAG 1 cut(s) 227
BsaI GGTCTC 1 cut(s) 173
BsaJI CCNNGG 3 cut(s) 65, 314, 463
BsaWI WCCGGW 3 cut(s) 25, 38, 79
Bsc4I CCNNNNNNNGG 1 cut(s) 362
Bse1I ACTGG 1 cut(s) 341
BseBI CCWGG 2 cut(s) 315, 464
BseDI CCNNGG 3 cut(s) 65, 314, 463
BseGI GGATG 3 cut(s) 35, 104, 257
BseLI CCNNNNNNNGG 1 cut(s) 362
BseNI ACTGG 1 cut(s) 341
BseXI GCAGC 3 cut(s) 339, 425, 521
BshFI GGCC 2 cut(s) 104, 479
BsiSI CCGG 3 cut(s) 26, 39, 80
BslI CCNNNNNNNGG 1 cut(s) 362
BsmAI GTCTC 2 cut(s) 121, 173
BsmBI CGTCTC 1 cut(s) 121
BsmI GAATGC 1 cut(s) 446
BsnI GGCC 2 cut(s) 104, 479
Bso31I GGTCTC 1 cut(s) 173
Bsp143I GATC 4 cut(s) 12, 125, 255, 373
BspACI CCGC 6 cut(s) 507, 513, 519, 522, 525, 528
BspANI GGCC 2 cut(s) 104, 479
BspLI GGNNCC 1 cut(s) 257
BspPI GGATC 4 cut(s) 133, 250, 263, 368
BspTNI GGTCTC 1 cut(s) 173
BsrI ACTGG 1 cut(s) 341
BssECI CCNNGG 3 cut(s) 65, 314, 463
BssMI GATC 4 cut(s) 12, 125, 255, 373
BssT1I CCWWGG 1 cut(s) 65
Bst2UI CCWGG 2 cut(s) 315, 464
Bst4CI ACNGT 1 cut(s) 115
BstC8I GCNNGC 1 cut(s) 49
BstF5I GGATG 3 cut(s) 35, 104, 257
BstKTI GATC 4 cut(s) 15, 128, 258, 376
BstMAI GTCTC 2 cut(s) 121, 173
BstMBI GATC 4 cut(s) 12, 125, 255, 373
BstMWI GCNNNNNNNGC 5 cut(s) 509, 518, 521, 527, 533
BstNI CCWGG 2 cut(s) 315, 464
BstNSI RCATGY 1 cut(s) 241
BstSCI CCNGG 2 cut(s) 313, 462
BstV1I GCAGC 3 cut(s) 339, 425, 521
BstX2I RGATCY 1 cut(s) 255
BstYI RGATCY 1 cut(s) 255
BsuRI GGCC 2 cut(s) 104, 479
BtsCI GGATG 3 cut(s) 35, 104, 257
BtsI GCAGTG 1 cut(s) 410
BtsIMutI CAGTG 2 cut(s) 410, 476
Cac8I GCNNGC 1 cut(s) 49
Cfr13I GGNCC 1 cut(s) 102
Csp6I GTAC 2 cut(s) 190, 369
CviAII CATG 4 cut(s) 142, 238, 358, 475
CviJI RGCY 8 cut(s) 51, 104, 306, 352, 479, 496, 503, 512
CviKI_1 RGCY 8 cut(s) 51, 104, 306, 352, 479, 496, 503, 512
CviQI GTAC 2 cut(s) 190, 369
DpnI GATC 4 cut(s) 14, 127, 257, 375
DpnII GATC 4 cut(s) 12, 125, 255, 373
Eco130I CCWWGG 1 cut(s) 65
Eco31I GGTCTC 1 cut(s) 173
EcoRI GAATTC 1 cut(s) 269
EcoRII CCWGG 2 cut(s) 313, 462
EcoT14I CCWWGG 1 cut(s) 65
ErhI CCWWGG 1 cut(s) 65
Esp3I CGTCTC 1 cut(s) 121
FaeI CATG 4 cut(s) 145, 241, 361, 478
FaiI YATR 9 cut(s) 45, 143, 151, 239, 288, 324, 359, 432, 476
FatI CATG 4 cut(s) 141, 237, 357, 474
Fnu4HI GCNGC 7 cut(s) 353, 439, 510, 513, 522, 525, 528
FokI GGATG 3 cut(s) 22, 111, 264
Fsp4HI GCNGC 7 cut(s) 353, 439, 510, 513, 522, 525, 528
GluI GCNGC 7 cut(s) 353, 439, 510, 513, 522, 525, 528
HaeIII GGCC 2 cut(s) 104, 479
HapII CCGG 3 cut(s) 26, 39, 80
Hin1II CATG 4 cut(s) 145, 241, 361, 478
HincII GTYRAC 2 cut(s) 61, 460
HindII GTYRAC 2 cut(s) 61, 460
HinfI GANTC 3 cut(s) 89, 154, 212
HpaII CCGG 3 cut(s) 26, 39, 80
HphI GGTGA 1 cut(s) 94
Hpy166II GTNNAC 3 cut(s) 61, 292, 460
Hpy188I TCNGA 2 cut(s) 208, 492
Hpy188III TCNNGA 3 cut(s) 129, 178, 244
Hpy8I GTNNAC 3 cut(s) 61, 292, 460
Hpy99I CGWCG 1 cut(s) 382
HpyAV CCTTC 3 cut(s) 139, 217, 241
HpyCH4III ACNGT 1 cut(s) 115
HpyCH4IV ACGT 1 cut(s) 456
HpyCH4V TGCA 4 cut(s) 35, 141, 408, 474
HpyF10VI GCNNNNNNNGC 5 cut(s) 509, 518, 521, 527, 533
HpySE526I ACGT 1 cut(s) 456
Hsp92II CATG 4 cut(s) 145, 241, 361, 478
Kzo9I GATC 4 cut(s) 12, 125, 255, 373
LmnI GCTCC 1 cut(s) 28
Lsp1109I GCAGC 3 cut(s) 339, 425, 521
LweI GCATC 2 cut(s) 44, 300
MaeII ACGT 1 cut(s) 456
MalI GATC 4 cut(s) 14, 127, 257, 375
MboI GATC 4 cut(s) 12, 125, 255, 373
MflI RGATCY 1 cut(s) 255
MluCI AATT 1 cut(s) 269
MnlI CCTC 3 cut(s) 194, 271, 275
MseI TTAA 2 cut(s) 18, 538
MspI CCGG 3 cut(s) 26, 39, 80
MspR9I CCNGG 2 cut(s) 315, 464
Mva1269I GAATGC 1 cut(s) 446
MvaI CCWGG 2 cut(s) 315, 464
MwoI GCNNNNNNNGC 5 cut(s) 509, 518, 521, 527, 533
NdeII GATC 4 cut(s) 12, 125, 255, 373
NlaIII CATG 4 cut(s) 145, 241, 361, 478
NlaIV GGNNCC 1 cut(s) 257
NspI RCATGY 1 cut(s) 241
PctI GAATGC 1 cut(s) 446
PfeI GAWTC 3 cut(s) 89, 154, 212
PflFI GACNNNGTC 1 cut(s) 455
PkrI GCNGC 7 cut(s) 354, 440, 511, 514, 523, 526, 529
Psp6I CCWGG 2 cut(s) 313, 462
PspGI CCWGG 2 cut(s) 313, 462
PspN4I GGNNCC 1 cut(s) 257
PspPI GGNCC 1 cut(s) 102
PsuI RGATCY 1 cut(s) 255
PsyI GACNNNGTC 1 cut(s) 455
RsaI GTAC 2 cut(s) 191, 370
RsaNI GTAC 2 cut(s) 190, 369
SaqAI TTAA 2 cut(s) 18, 538
SatI GCNGC 7 cut(s) 353, 439, 510, 513, 522, 525, 528
Sau3AI GATC 4 cut(s) 12, 125, 255, 373
Sau96I GGNCC 1 cut(s) 102
ScrFI CCNGG 2 cut(s) 315, 464
SetI ASST 6 cut(s) 150, 195, 282, 354, 459, 505
SfaNI GCATC 2 cut(s) 44, 300
SmlI CTYRAG 1 cut(s) 242
SmoI CTYRAG 1 cut(s) 242
Sse9I AATT 1 cut(s) 269
SsiI CCGC 6 cut(s) 507, 513, 519, 522, 525, 528
StyD4I CCNGG 2 cut(s) 313, 462
StyI CCWWGG 1 cut(s) 65
TaaI ACNGT 1 cut(s) 115
TaiI ACGT 1 cut(s) 459
TaqI TCGA 4 cut(s) 177, 267, 273, 450
TasI AATT 1 cut(s) 269
TatI WGTACW 1 cut(s) 368
TauI GCSGC 4 cut(s) 515, 524, 527, 530
TfiI GAWTC 3 cut(s) 89, 154, 212
Tru1I TTAA 2 cut(s) 18, 538
Tru9I TTAA 2 cut(s) 18, 538
TscAI CASTG 2 cut(s) 410, 476
TseI GCWGC 3 cut(s) 352, 438, 509
TspDTI ATGAA 2 cut(s) 158, 408
TspGWI ACGGA 1 cut(s) 366
TspRI CASTG 2 cut(s) 410, 476
Tth111I GACNNNGTC 1 cut(s) 455
XapI RAATTY 1 cut(s) 269
XceI RCATGY 1 cut(s) 241
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.