Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0002444

Physical Location & Seq

Genomic Coordinates Reverse (-)

64712901 .. 64715475

Gene Structure 2575 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG338200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 543 bp

ATGGCTTCCTCTATGATGTCCTCAGAAACCGTTGCCTCAGTTAACCGTGCCCCGGTTCAGGCTAGCATGGTTGCACCCTTCAACGGGCTCAAGTCGGCCTCCGCCTTCCCTGTGACCCGCAAGGCCAACGATATTACCTCTGTTGCCAGCAACGGTGGAAGAGTCCAGTGCATGCAGGTGTGGCCAACAGTTGGATTGAAGAAGTTTGAGACCCTCTCTTACCTTCCTCCTCTAACTGTCGAGTCATTGGCCAAGGAAATAGAGTACCTTCTCCGCAACAAATGGGTTCCCTGCTTGGAATTTGAGTTGGAGCACGGTTTCGTCTACCGTGAGAACGGCCAGTCCCCCGGGTACTATGACGGACGTTACTGGACAATGTGGAAGCTCCCCATGTTCGGATGCACCGACGCTTCCCAGGTTATTGCTGAGCTCGAAGAGGCCAAGAAGACTTACCCCGAAGCCTTCATCAGGATCATCGGATTTGACAACGTTCGCCAAACACAGTGCGTTAGTTTCATTGCCTACAAGCCAAAAAGCTACTAA

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

180

Amino Acids

20.26

Weight (kDa)

8.3

Isoelectric Point (pI)

38.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RbcS	PF12338	2 - 43	5.3e-21	Ribulose-1,5-bisphosphate carboxylase small subunit
RuBisCO_small	PF00101	69 - 177	1.2e-36	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

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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)	166
Acc36I	ACCTGC	1 cut(s)	166
AccB7I	CCANNNNNTGG	1 cut(s)	191
AccI	GTMKAC	1 cut(s)	324
AciI	CCGC	3 cut(s)	102, 118, 274
AclI	AACGTT	1 cut(s)	489
AclWI	GGATC	1 cut(s)	479
AcoI	YGGCCR	3 cut(s)	182, 249, 337
AcsI	RAATTY	1 cut(s)	299
AfaI	GTAC	2 cut(s)	266, 353
AfiI	CCNNNNNNNGG	7 cut(s)	52, 58, 83, 84, 191, 395, 468
AgsI	TTSAA	2 cut(s)	82, 199
AjnI	CCWGG	1 cut(s)	414
AloI	GAACNNNNNNTCC	2 cut(s)	326, 358
AluBI	AGCT	3 cut(s)	385, 430, 537
AluI	AGCT	3 cut(s)	385, 430, 537
Alw21I	GWGCWC	2 cut(s)	315, 432
Alw26I	GTCTC	1 cut(s)	203
AlwI	GGATC	1 cut(s)	479
Ama87I	CYCGRG	1 cut(s)	347
AoxI	GGCC	6 cut(s)	96, 123, 182, 249, 337, 438
ApoI	RAATTY	1 cut(s)	299
AsuC2I	CCSGG	3 cut(s)	53, 348, 349
AsuNHI	GCTAGC	1 cut(s)	62
AvaI	CYCGRG	1 cut(s)	347
BaeGI	GKGCMC	1 cut(s)	52
BalI	TGGCCA	2 cut(s)	184, 251
BanII	GRGCYC	2 cut(s)	90, 432
BbsI	GAAGAC	1 cut(s)	452
Bbv12I	GWGCWC	2 cut(s)	315, 432
BceAI	ACGGC	1 cut(s)	352
BciT130I	CCWGG	1 cut(s)	416
BcnI	CCSGG	3 cut(s)	53, 348, 349
BcoDI	GTCTC	1 cut(s)	203
BfaI	CTAG	1 cut(s)	63
BfuAI	ACCTGC	1 cut(s)	166
BlpI	GCTNAGC	1 cut(s)	426
Bme1390I	CCNGG	4 cut(s)	53, 348, 349, 416
BmeT110I	CYCGRG	1 cut(s)	347
BmiI	GGNNCC	1 cut(s)	288
BmrFI	CCNGG	4 cut(s)	53, 348, 349, 416
BmsI	GCATC	1 cut(s)	389
BmtI	GCTAGC	1 cut(s)	66
BpiI	GAAGAC	1 cut(s)	452
BplI	GAGNNNNNCTC	2 cut(s)	200, 232
Bpu1102I	GCTNAGC	1 cut(s)	426
BpuEI	CTTGAG	1 cut(s)	74
BpuMI	CCSGG	3 cut(s)	53, 348, 349
BsaI	GGTCTC	1 cut(s)	203
BsaJI	CCNNGG	5 cut(s)	51, 252, 346, 347, 414
Bsc4I	CCNNNNNNNGG	7 cut(s)	52, 58, 83, 84, 191, 395, 468
Bse1I	ACTGG	3 cut(s)	166, 340, 374
Bse3DI	GCAATG	1 cut(s)	516
BseBI	CCWGG	1 cut(s)	416
BseDI	CCNNGG	5 cut(s)	51, 252, 346, 347, 414
BseGI	GGATG	1 cut(s)	404
BseLI	CCNNNNNNNGG	7 cut(s)	52, 58, 83, 84, 191, 395, 468
BseMI	GCAATG	1 cut(s)	516
BseMII	CTCAG	3 cut(s)	36, 51, 417
BseNI	ACTGG	3 cut(s)	166, 340, 374
BseRI	GAGGAG	1 cut(s)	219
BseSI	GKGCMC	1 cut(s)	52
BshFI	GGCC	6 cut(s)	98, 125, 184, 251, 339, 440
BsiHKAI	GWGCWC	2 cut(s)	315, 432
BsiHKCI	CYCGRG	1 cut(s)	347
BsiSI	CCGG	2 cut(s)	53, 348
BslFI	GGGAC	1 cut(s)	328
BslI	CCNNNNNNNGG	7 cut(s)	52, 58, 83, 84, 191, 395, 468
BsmAI	GTCTC	1 cut(s)	203
BsmFI	GGGAC	1 cut(s)	328
BsnI	GGCC	6 cut(s)	98, 125, 184, 251, 339, 440
Bso31I	GGTCTC	1 cut(s)	203
BsoBI	CYCGRG	1 cut(s)	347
Bsp1286I	GDGCHC	4 cut(s)	52, 90, 315, 432
Bsp143I	GATC	1 cut(s)	471
Bsp1720I	GCTNAGC	1 cut(s)	426
BspACI	CCGC	3 cut(s)	102, 118, 274
BspANI	GGCC	6 cut(s)	98, 125, 184, 251, 339, 440
BspCNI	CTCAG	3 cut(s)	35, 50, 418
BspLI	GGNNCC	1 cut(s)	288
BspMI	ACCTGC	1 cut(s)	166
BspOI	GCTAGC	1 cut(s)	66
BspPI	GGATC	1 cut(s)	479
BspTNI	GGTCTC	1 cut(s)	203
BsrDI	GCAATG	1 cut(s)	516
BsrI	ACTGG	3 cut(s)	166, 340, 374
BssECI	CCNNGG	5 cut(s)	51, 252, 346, 347, 414
BssMI	GATC	1 cut(s)	471
BssT1I	CCWWGG	1 cut(s)	252
Bst2UI	CCWGG	1 cut(s)	416
Bst4CI	ACNGT	8 cut(s)	31, 47, 155, 190, 238, 317, 329, 504
Bst6I	CTCTTC	2 cut(s)	154, 429
BstC8I	GCNNGC	3 cut(s)	64, 148, 173
BstDEI	CTNAG	3 cut(s)	22, 37, 426
BstENI	CCTNNNNNAGG	1 cut(s)	466
BstF5I	GGATG	1 cut(s)	404
BstKTI	GATC	1 cut(s)	474
BstMAI	GTCTC	1 cut(s)	203
BstMBI	GATC	1 cut(s)	471
BstMWI	GCNNNNNNNGC	1 cut(s)	181
BstNI	CCWGG	1 cut(s)	416
BstNSI	RCATGY	1 cut(s)	175
BstSCI	CCNGG	4 cut(s)	51, 346, 347, 414
BstSLI	GKGCMC	1 cut(s)	52
BstV2I	GAAGAC	1 cut(s)	452
BsuRI	GGCC	6 cut(s)	98, 125, 184, 251, 339, 440
BtsCI	GGATG	1 cut(s)	404
BtsIMutI	CAGTG	2 cut(s)	173, 509
BveI	ACCTGC	1 cut(s)	166
Cac8I	GCNNGC	3 cut(s)	64, 148, 173
Cfr9I	CCCGGG	1 cut(s)	347
CseI	GACGC	1 cut(s)	416
Csp6I	GTAC	2 cut(s)	265, 352
CviAII	CATG	3 cut(s)	67, 172, 391
CviQI	GTAC	2 cut(s)	265, 352
DdeI	CTNAG	3 cut(s)	22, 37, 426
DpnI	GATC	1 cut(s)	473
DpnII	GATC	1 cut(s)	471
EaeI	YGGCCR	3 cut(s)	182, 249, 337
Eam1104I	CTCTTC	2 cut(s)	154, 429
EarI	CTCTTC	2 cut(s)	154, 429
EciI	GGCGGA	1 cut(s)	91
Ecl136II	GAGCTC	1 cut(s)	430
Eco130I	CCWWGG	1 cut(s)	252
Eco24I	GRGCYC	2 cut(s)	90, 432
Eco31I	GGTCTC	1 cut(s)	203
Eco53kI	GAGCTC	1 cut(s)	430
Eco88I	CYCGRG	1 cut(s)	347
EcoICRI	GAGCTC	1 cut(s)	430
EcoNI	CCTNNNNNAGG	1 cut(s)	466
EcoRII	CCWGG	1 cut(s)	414
EcoT14I	CCWWGG	1 cut(s)	252
EcoT38I	GRGCYC	2 cut(s)	90, 432
ErhI	CCWWGG	1 cut(s)	252
FaeI	CATG	3 cut(s)	70, 175, 394
FaiI	YATR	5 cut(s)	14, 68, 173, 357, 392
FaqI	GGGAC	1 cut(s)	328
FatI	CATG	3 cut(s)	66, 171, 390
FauI	CCCGC	1 cut(s)	125
FblI	GTMKAC	1 cut(s)	324
FokI	GGATG	1 cut(s)	411
FriOI	GRGCYC	2 cut(s)	90, 432
FspBI	CTAG	1 cut(s)	63
HaeIII	GGCC	6 cut(s)	98, 125, 184, 251, 339, 440
HapII	CCGG	2 cut(s)	53, 348
HgaI	GACGC	1 cut(s)	416
Hin1II	CATG	3 cut(s)	70, 175, 394
HincII	GTYRAC	1 cut(s)	43
HindII	GTYRAC	1 cut(s)	43
HinfI	GANTC	2 cut(s)	162, 242
HpaI	GTTAAC	1 cut(s)	43
HpaII	CCGG	2 cut(s)	53, 348
Hpy166II	GTNNAC	2 cut(s)	43, 325
Hpy188I	TCNGA	3 cut(s)	25, 398, 479
Hpy188III	TCNNGA	1 cut(s)	469
Hpy8I	GTNNAC	2 cut(s)	43, 325
Hpy99I	CGWCG	1 cut(s)	410
HpyAV	CCTTC	5 cut(s)	88, 115, 233, 278, 472
HpyCH4III	ACNGT	8 cut(s)	31, 47, 155, 190, 238, 317, 329, 504
HpyCH4IV	ACGT	2 cut(s)	364, 489
HpyCH4V	TGCA	4 cut(s)	74, 171, 175, 402
HpyF10VI	GCNNNNNNNGC	1 cut(s)	181
HpyF3I	CTNAG	3 cut(s)	22, 37, 426
HpySE526I	ACGT	2 cut(s)	364, 489
Hsp92II	CATG	3 cut(s)	70, 175, 394
KspAI	GTTAAC	1 cut(s)	43
Kzo9I	GATC	1 cut(s)	471
LmnI	GCTCC	2 cut(s)	310, 390
LweI	GCATC	1 cut(s)	389
MaeI	CTAG	1 cut(s)	63
MaeII	ACGT	2 cut(s)	364, 489
MaeIII	GTNAC	2 cut(s)	112, 365
MalI	GATC	1 cut(s)	473
MboI	GATC	1 cut(s)	471
MboII	GAAGA	4 cut(s)	171, 211, 446, 457
MhlI	GDGCHC	4 cut(s)	52, 90, 315, 432
MlsI	TGGCCA	2 cut(s)	184, 251
MluCI	AATT	1 cut(s)	299
MluNI	TGGCCA	2 cut(s)	184, 251
MlyI	GAGTC	2 cut(s)	171, 251
MmeI	TCCRAC	2 cut(s)	172, 288
MnlI	CCTC	9 cut(s)	19, 31, 46, 109, 148, 224, 237, 240, 430
Mox20I	TGGCCA	2 cut(s)	184, 251
MscI	TGGCCA	2 cut(s)	184, 251
MseI	TTAA	1 cut(s)	42
MslI	CAYNNNNRTG	1 cut(s)	176
Msp20I	TGGCCA	2 cut(s)	184, 251
MspI	CCGG	2 cut(s)	53, 348
MspR9I	CCNGG	4 cut(s)	53, 348, 349, 416
MvaI	CCWGG	1 cut(s)	416
MwoI	GCNNNNNNNGC	1 cut(s)	181
NciI	CCSGG	3 cut(s)	53, 348, 349
NdeII	GATC	1 cut(s)	471
NheI	GCTAGC	1 cut(s)	62
NlaIII	CATG	3 cut(s)	70, 175, 394
NlaIV	GGNNCC	1 cut(s)	288
NmuCI	GTSAC	1 cut(s)	112
NspI	RCATGY	1 cut(s)	175
PaeI	GCATGC	1 cut(s)	175
PaqCI	CACCTGC	1 cut(s)	166
PcsI	WCGNNNNNNNCGW	1 cut(s)	402
PflMI	CCANNNNNTGG	1 cut(s)	191
PleI	GAGTC	2 cut(s)	170, 250
PpsI	GAGTC	2 cut(s)	170, 250
Psp124BI	GAGCTC	1 cut(s)	432
Psp1406I	AACGTT	1 cut(s)	489
Psp6I	CCWGG	1 cut(s)	414
PspGI	CCWGG	1 cut(s)	414
PspN4I	GGNNCC	1 cut(s)	288
RsaI	GTAC	2 cut(s)	266, 353
RsaNI	GTAC	2 cut(s)	265, 352
RseI	CAYNNNNRTG	1 cut(s)	176
SacI	GAGCTC	1 cut(s)	432
SaqAI	TTAA	1 cut(s)	42
Sau3AI	GATC	1 cut(s)	471
SchI	GAGTC	2 cut(s)	171, 251
ScrFI	CCNGG	4 cut(s)	53, 348, 349, 416
SduI	GDGCHC	4 cut(s)	52, 90, 315, 432
SfaNI	GCATC	1 cut(s)	389
SmaI	CCCGGG	1 cut(s)	349
SmiMI	CAYNNNNRTG	1 cut(s)	176
SmlI	CTYRAG	1 cut(s)	89
SmoI	CTYRAG	1 cut(s)	89
SphI	GCATGC	1 cut(s)	175
Sse9I	AATT	1 cut(s)	299
SsiI	CCGC	3 cut(s)	102, 118, 274
SspMI	CTAG	1 cut(s)	63
SstI	GAGCTC	1 cut(s)	432
StyD4I	CCNGG	4 cut(s)	51, 346, 347, 414
StyI	CCWWGG	1 cut(s)	252
TaaI	ACNGT	8 cut(s)	31, 47, 155, 190, 238, 317, 329, 504
TaiI	ACGT	2 cut(s)	367, 492
TaqI	TCGA	2 cut(s)	240, 432
TasI	AATT	1 cut(s)	299
Tru1I	TTAA	1 cut(s)	42
Tru9I	TTAA	1 cut(s)	42
TscAI	CASTG	2 cut(s)	173, 509
TseFI	GTSAC	1 cut(s)	112
Tsp45I	GTSAC	1 cut(s)	112
TspDTI	ATGAA	2 cut(s)	454, 505
TspGWI	ACGGA	1 cut(s)	375
TspMI	CCCGGG	1 cut(s)	347
TspRI	CASTG	2 cut(s)	173, 509
Van91I	CCANNNNNTGG	1 cut(s)	191
XagI	CCTNNNNNAGG	1 cut(s)	466
XapI	RAATTY	1 cut(s)	299
XceI	RCATGY	1 cut(s)	175
XmaI	CCCGGG	1 cut(s)	347
XmiI	GTMKAC	1 cut(s)	324
XspI	CTAG	1 cut(s)	63

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