Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0002444

Physical Location & Seq

Genomic Coordinates Reverse (-)

3013244 .. 3014897

Gene Structure 1654 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1042700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGGCTTCCTCTATGGTTTCGTCCGCCGCTGTTAGCTCCGTCCGCCGCACCAGCTCCCCGGCTCAGGCGAGCATGGTGGCACCCTTCACCGGGCTCAAGTCCTCTTCAGCCTTCCCCGTGACCCGCAAGGCCAACGATATTACCTCCATTGCCAGCAACGGTGGAAGAGTCCAGTGCATGCAGGTGTGGCCACCAATTGGACTGAAGAAGTTTGAGACTCTCTCTTACCTTCCTCCCCTGTCCCCGGAGTCATTGGCCAAGGAAGTTGACTACCTTCTCCGCAAAAACTGGGTTCCCACCTTGGAATTCGAGTTGGAGCACCCGTTTGTCTACCGTGAGCACAACAGCTCCCCAGGGTACTATGACGGACGCTACTGGACAATGTGGAAGCTTCCCCTCTTCGGATGCACTGATTCTTCCCAAGTTCTCAAGGAGCTCGAGGAGGCCAAGACCGCCTACCCCAACTCCTTCATCAGGATCATCGGATTCGACAACGTCCGCCAAACACAGTGCATCAGTTTCATCGCTTACCAGCCCCCAAGCTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00630 ko00710 ko01100 ko01120 ko01200 map00630 map00710 map01100 map01120 map01200

Pfam Domains

Protein Families

RbcS RuBisCO_small

Protein Analysis

183

Amino Acids

20.42

Weight (kDa)

8.74

Isoelectric Point (pI)

48.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RbcS	PF12338	2 - 45	2.6e-21	Ribulose-1,5-bisphosphate carboxylase small subunit
RuBisCO_small	PF00101	71 - 179	4.5e-35	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002444)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G67090 AT1G67090 AT5G38410 AT5G38410 AT5G38410 AT5G38420 AT5G38430 AT5G38430
fragaria_vesca	FvH4_4g27330 FvH4_6g26030
malus_domestica	MD09G1252100.v1.1 MD16G1042700.v1.1 MD17G1244400.v1.1
prunus_persica	Prupe.1G311400_v2.0.a1 Prupe.3G157200_v2.0.a1 Prupe.3G157200_v2.0.a1
pyrus_communis	pycom09g16870 pycom09g16880 pycom16g03670 pycom17g24720
rosa_chinensis	RchiOBHm_Chr2g0126111 RchiOBHm_Chr4g0435151
rosa_laevigata	RLG00000006615 RLG00000018888
rosa_multiflora	Rmu_co8187892.1_g000001 Rmu_sc0012196.1_g000003 Rmu_ssc0000339.1_g000037
rosa_roxburghii	Rroxscaffold_2G00117430 Rroxscaffold_5G00376370
rosa_rugosa	Rorug02G0261500 Rorug04G0282600
rosa_samantha	Rh2AG318400 Rh2BG326700 Rh2DG344900 Rh2DG346000 Rh4AG338200 Rh4BG346300 Rh4CG360800 Rh4DG340700
rosa_wichuraiana	Rw2G025780 Rw4G029500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	172
Acc36I	ACCTGC	1 cut(s)	172
AccB1I	GGYRCC	1 cut(s)	79
AccB7I	CCANNNNNTGG	1 cut(s)	197
AccI	GTMKAC	1 cut(s)	330
AciI	CCGC	8 cut(s)	24, 27, 43, 46, 124, 280, 453, 499
AclWI	GGATC	1 cut(s)	485
AcoI	YGGCCR	2 cut(s)	188, 255
AcsI	RAATTY	1 cut(s)	305
AcuI	CTGAAG	2 cut(s)	90, 224
AfaI	GTAC	1 cut(s)	359
AfiI	CCNNNNNNNGG	7 cut(s)	64, 89, 90, 197, 244, 401, 474
AjnI	CCWGG	1 cut(s)	352
AluBI	AGCT	6 cut(s)	36, 54, 348, 391, 436, 543
AluI	AGCT	6 cut(s)	36, 54, 348, 391, 436, 543
Alw21I	GWGCWC	3 cut(s)	321, 342, 438
Alw26I	GTCTC	1 cut(s)	209
AlwI	GGATC	1 cut(s)	485
Ama87I	CYCGRG	1 cut(s)	437
AoxI	GGCC	4 cut(s)	129, 188, 255, 444
ApoI	RAATTY	1 cut(s)	305
AsuC2I	CCSGG	3 cut(s)	59, 91, 245
AsuHPI	GGTGA	1 cut(s)	79
AvaI	CYCGRG	1 cut(s)	437
BalI	TGGCCA	2 cut(s)	190, 257
BanI	GGYRCC	1 cut(s)	79
BanII	GRGCYC	2 cut(s)	96, 438
Bbv12I	GWGCWC	3 cut(s)	321, 342, 438
BciT130I	CCWGG	1 cut(s)	354
BcnI	CCSGG	3 cut(s)	59, 91, 245
BcoDI	GTCTC	1 cut(s)	209
BfuAI	ACCTGC	1 cut(s)	172
BisI	GCNGC	2 cut(s)	27, 46
BlsI	GCNGC	2 cut(s)	28, 47
Bme1390I	CCNGG	4 cut(s)	59, 91, 245, 354
BmeT110I	CYCGRG	1 cut(s)	437
BmiI	GGNNCC	2 cut(s)	81, 294
BmrFI	CCNGG	4 cut(s)	59, 91, 245, 354
BmrI	ACTGGG	1 cut(s)	298
BmsI	GCATC	2 cut(s)	395, 522
BmuI	ACTGGG	1 cut(s)	298
BplI	GAGNNNNNCTC	2 cut(s)	206, 238
Bpu10I	CCTNAGC	1 cut(s)	63
BpuEI	CTTGAG	2 cut(s)	80, 413
BpuMI	CCSGG	3 cut(s)	59, 91, 245
BsaJI	CCNNGG	6 cut(s)	57, 243, 258, 300, 352, 353
BsaXI	ACNNNNNCTCC	6 cut(s)	308, 332, 338, 362, 449, 479
Bsc4I	CCNNNNNNNGG	7 cut(s)	64, 89, 90, 197, 244, 401, 474
Bse1I	ACTGG	3 cut(s)	172, 293, 380
Bse3DI	GCAATG	1 cut(s)	147
BseBI	CCWGG	1 cut(s)	354
BseDI	CCNNGG	6 cut(s)	57, 243, 258, 300, 352, 353
BseGI	GGATG	1 cut(s)	410
BseLI	CCNNNNNNNGG	7 cut(s)	64, 89, 90, 197, 244, 401, 474
BseMI	GCAATG	1 cut(s)	147
BseMII	CTCAG	1 cut(s)	77
BseNI	ACTGG	3 cut(s)	172, 293, 380
BseRI	GAGGAG	1 cut(s)	455
BshFI	GGCC	4 cut(s)	131, 190, 257, 446
BshNI	GGYRCC	1 cut(s)	79
BsiHKAI	GWGCWC	3 cut(s)	321, 342, 438
BsiHKCI	CYCGRG	1 cut(s)	437
BsiSI	CCGG	3 cut(s)	59, 90, 245
BslFI	GGGAC	1 cut(s)	226
BslI	CCNNNNNNNGG	7 cut(s)	64, 89, 90, 197, 244, 401, 474
BsmAI	GTCTC	1 cut(s)	209
BsmFI	GGGAC	1 cut(s)	226
BsnI	GGCC	4 cut(s)	131, 190, 257, 446
BsoBI	CYCGRG	1 cut(s)	437
Bsp1286I	GDGCHC	4 cut(s)	96, 321, 342, 438
Bsp143I	GATC	1 cut(s)	477
BspACI	CCGC	8 cut(s)	24, 27, 43, 46, 124, 280, 453, 499
BspANI	GGCC	4 cut(s)	131, 190, 257, 446
BspCNI	CTCAG	1 cut(s)	76
BspLI	GGNNCC	2 cut(s)	81, 294
BspMI	ACCTGC	1 cut(s)	172
BspPI	GGATC	1 cut(s)	485
BspT107I	GGYRCC	1 cut(s)	79
BsrDI	GCAATG	1 cut(s)	147
BsrI	ACTGG	3 cut(s)	172, 293, 380
BssECI	CCNNGG	6 cut(s)	57, 243, 258, 300, 352, 353
BssMI	GATC	1 cut(s)	477
BssT1I	CCWWGG	2 cut(s)	258, 300
Bst2UI	CCWGG	1 cut(s)	354
Bst4CI	ACNGT	3 cut(s)	161, 335, 510
Bst6I	CTCTTC	3 cut(s)	109, 160, 404
BstC8I	GCNNGC	3 cut(s)	70, 154, 179
BstDEI	CTNAG	1 cut(s)	63
BstENI	CCTNNNNNAGG	1 cut(s)	472
BstF5I	GGATG	1 cut(s)	410
BstKTI	GATC	1 cut(s)	480
BstMAI	GTCTC	1 cut(s)	209
BstMBI	GATC	1 cut(s)	477
BstMWI	GCNNNNNNNGC	4 cut(s)	42, 51, 187, 452
BstNI	CCWGG	1 cut(s)	354
BstNSI	RCATGY	1 cut(s)	181
BstSCI	CCNGG	4 cut(s)	57, 89, 243, 352
BsuRI	GGCC	4 cut(s)	131, 190, 257, 446
BtgZI	GCGATG	1 cut(s)	508
BtsCI	GGATG	1 cut(s)	410
BtsIMutI	CAGTG	3 cut(s)	179, 408, 515
BveI	ACCTGC	1 cut(s)	172
Cac8I	GCNNGC	3 cut(s)	70, 154, 179
CseI	GACGC	1 cut(s)	378
Csp6I	GTAC	1 cut(s)	358
CviAII	CATG	2 cut(s)	73, 178
CviQI	GTAC	1 cut(s)	358
DdeI	CTNAG	1 cut(s)	63
DpnI	GATC	1 cut(s)	479
DpnII	GATC	1 cut(s)	477
EaeI	YGGCCR	2 cut(s)	188, 255
Eam1104I	CTCTTC	3 cut(s)	109, 160, 404
EarI	CTCTTC	3 cut(s)	109, 160, 404
EciI	GGCGGA	3 cut(s)	13, 32, 488
Ecl136II	GAGCTC	1 cut(s)	436
Eco130I	CCWWGG	2 cut(s)	258, 300
Eco24I	GRGCYC	2 cut(s)	96, 438
Eco53kI	GAGCTC	1 cut(s)	436
Eco57I	CTGAAG	2 cut(s)	90, 224
Eco88I	CYCGRG	1 cut(s)	437
EcoICRI	GAGCTC	1 cut(s)	436
EcoNI	CCTNNNNNAGG	1 cut(s)	472
EcoRI	GAATTC	1 cut(s)	305
EcoRII	CCWGG	1 cut(s)	352
EcoT14I	CCWWGG	2 cut(s)	258, 300
EcoT38I	GRGCYC	2 cut(s)	96, 438
ErhI	CCWWGG	2 cut(s)	258, 300
FaeI	CATG	2 cut(s)	76, 181
FaiI	YATR	4 cut(s)	14, 74, 179, 363
FaqI	GGGAC	1 cut(s)	226
FatI	CATG	2 cut(s)	72, 177
FauI	CCCGC	1 cut(s)	131
FblI	GTMKAC	1 cut(s)	330
Fnu4HI	GCNGC	2 cut(s)	27, 46
FokI	GGATG	1 cut(s)	417
FriOI	GRGCYC	2 cut(s)	96, 438
Fsp4HI	GCNGC	2 cut(s)	27, 46
GluI	GCNGC	2 cut(s)	27, 46
HaeIII	GGCC	4 cut(s)	131, 190, 257, 446
HapII	CCGG	3 cut(s)	59, 90, 245
HgaI	GACGC	1 cut(s)	378
Hin1II	CATG	2 cut(s)	76, 181
HincII	GTYRAC	1 cut(s)	268
HindII	GTYRAC	1 cut(s)	268
HindIII	AAGCTT	1 cut(s)	389
HinfI	GANTC	5 cut(s)	168, 217, 248, 413, 486
HpaII	CCGG	3 cut(s)	59, 90, 245
HphI	GGTGA	1 cut(s)	79
Hpy166II	GTNNAC	2 cut(s)	268, 331
Hpy188I	TCNGA	2 cut(s)	404, 485
Hpy188III	TCNNGA	1 cut(s)	475
Hpy8I	GTNNAC	2 cut(s)	268, 331
HpyAV	CCTTC	5 cut(s)	94, 121, 239, 284, 478
HpyCH4III	ACNGT	3 cut(s)	161, 335, 510
HpyCH4IV	ACGT	1 cut(s)	495
HpyCH4V	TGCA	4 cut(s)	177, 181, 408, 513
HpyF10VI	GCNNNNNNNGC	4 cut(s)	42, 51, 187, 452
HpyF3I	CTNAG	1 cut(s)	63
HpySE526I	ACGT	1 cut(s)	495
Hsp92II	CATG	2 cut(s)	76, 181
Kzo9I	GATC	1 cut(s)	477
LmnI	GCTCC	5 cut(s)	41, 59, 316, 353, 433
LweI	GCATC	2 cut(s)	395, 522
MaeII	ACGT	1 cut(s)	495
MaeIII	GTNAC	1 cut(s)	118
MalI	GATC	1 cut(s)	479
MboI	GATC	1 cut(s)	477
MboII	GAAGA	5 cut(s)	96, 177, 217, 391, 408
MfeI	CAATTG	1 cut(s)	195
MhlI	GDGCHC	4 cut(s)	96, 321, 342, 438
MlsI	TGGCCA	2 cut(s)	190, 257
MluCI	AATT	2 cut(s)	195, 305
MluNI	TGGCCA	2 cut(s)	190, 257
MlyI	GAGTC	3 cut(s)	177, 211, 257
MmeI	TCCRAC	1 cut(s)	294
MnlI	CCTC	7 cut(s)	19, 112, 154, 243, 407, 433, 436
Mox20I	TGGCCA	2 cut(s)	190, 257
MscI	TGGCCA	2 cut(s)	190, 257
MseI	TTAA	1 cut(s)	547
MslI	CAYNNNNRTG	1 cut(s)	182
Msp20I	TGGCCA	2 cut(s)	190, 257
MspA1I	CMGCKG	1 cut(s)	29
MspI	CCGG	3 cut(s)	59, 90, 245
MspR9I	CCNGG	4 cut(s)	59, 91, 245, 354
MunI	CAATTG	1 cut(s)	195
MvaI	CCWGG	1 cut(s)	354
MwoI	GCNNNNNNNGC	4 cut(s)	42, 51, 187, 452
NciI	CCSGG	3 cut(s)	59, 91, 245
NdeII	GATC	1 cut(s)	477
NlaIII	CATG	2 cut(s)	76, 181
NlaIV	GGNNCC	2 cut(s)	81, 294
NmuCI	GTSAC	1 cut(s)	118
NspI	RCATGY	1 cut(s)	181
PaeI	GCATGC	1 cut(s)	181
PaeR7I	CTCGAG	1 cut(s)	437
PaqCI	CACCTGC	1 cut(s)	172
PasI	CCCWGGG	1 cut(s)	353
PfeI	GAWTC	2 cut(s)	413, 486
PflFI	GACNNNGTC	1 cut(s)	494
PflMI	CCANNNNNTGG	1 cut(s)	197
PkrI	GCNGC	2 cut(s)	28, 47
PleI	GAGTC	3 cut(s)	176, 211, 256
PpsI	GAGTC	3 cut(s)	176, 211, 256
Psp124BI	GAGCTC	1 cut(s)	438
Psp6I	CCWGG	1 cut(s)	352
PspGI	CCWGG	1 cut(s)	352
PspN4I	GGNNCC	2 cut(s)	81, 294
PspXI	VCTCGAGB	1 cut(s)	437
PsyI	GACNNNGTC	1 cut(s)	494
RsaI	GTAC	1 cut(s)	359
RsaNI	GTAC	1 cut(s)	358
RseI	CAYNNNNRTG	1 cut(s)	182
SacI	GAGCTC	1 cut(s)	438
SaqAI	TTAA	1 cut(s)	547
SatI	GCNGC	2 cut(s)	27, 46
Sau3AI	GATC	1 cut(s)	477
SchI	GAGTC	3 cut(s)	177, 211, 257
ScrFI	CCNGG	4 cut(s)	59, 91, 245, 354
SduI	GDGCHC	4 cut(s)	96, 321, 342, 438
SfaNI	GCATC	2 cut(s)	395, 522
Sfr274I	CTCGAG	1 cut(s)	437
SlaI	CTCGAG	1 cut(s)	437
SmiMI	CAYNNNNRTG	1 cut(s)	182
SmlI	CTYRAG	3 cut(s)	95, 428, 437
SmoI	CTYRAG	3 cut(s)	95, 428, 437
SphI	GCATGC	1 cut(s)	181
Sse9I	AATT	2 cut(s)	195, 305
SsiI	CCGC	8 cut(s)	24, 27, 43, 46, 124, 280, 453, 499
SstI	GAGCTC	1 cut(s)	438
StyD4I	CCNGG	4 cut(s)	57, 89, 243, 352
StyI	CCWWGG	2 cut(s)	258, 300
TaaI	ACNGT	3 cut(s)	161, 335, 510
TaiI	ACGT	1 cut(s)	498
TaqI	TCGA	3 cut(s)	309, 438, 489
TasI	AATT	2 cut(s)	195, 305
TauI	GCSGC	2 cut(s)	29, 48
TfiI	GAWTC	2 cut(s)	413, 486
Tru1I	TTAA	1 cut(s)	547
Tru9I	TTAA	1 cut(s)	547
TscAI	CASTG	3 cut(s)	179, 415, 515
TseFI	GTSAC	1 cut(s)	118
Tsp45I	GTSAC	1 cut(s)	118
TspDTI	ATGAA	2 cut(s)	460, 511
TspGWI	ACGGA	2 cut(s)	28, 381
TspRI	CASTG	3 cut(s)	179, 415, 515
Tth111I	GACNNNGTC	1 cut(s)	494
Van91I	CCANNNNNTGG	1 cut(s)	197
XagI	CCTNNNNNAGG	1 cut(s)	472
XapI	RAATTY	1 cut(s)	305
XceI	RCATGY	1 cut(s)	181
XhoI	CTCGAG	1 cut(s)	437
XmiI	GTMKAC	1 cut(s)	330

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.