Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001935

Physical Location & Seq

Genomic Coordinates Reverse (-)

2016471 .. 2017452

Gene Structure 982 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG030300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGAAGCTCTCCGATAGTTTCTATCTTTTCTTCACTTGCTTCATTGCTCTATCCATTAACTCGCATGCTAGGTCTAGTTCTAATATCGGCTCATCCCGCTTCGTAAAAGTCCCCTTGCCTTTGTTCAGAGAGTCATTGGTGTCTACTATGGAACTTGTTCAAAGTGTGGCCTCTACCATGTCCCTAATCCATGGTGACATTGATGATAACGATGATGATGGTCCAAATCTCAATGTTTCTCTTCCACATTGTGCATATTTGCTTGGTGAAACTGCTGGTGTTATGAATTGGACCCTTTCGGCGATTAATCAGCAATATACTCAAGGTGATGCCATTTCCCATGCGAGGACGCTGTTGAGTGGTAGTCTTGGCAGCCAAGAAATGTGTACGCAAATGCTTGATGGTACCAAACATTTCATGGTTTCAGGGAGGCTCAAACAAGTGACCACATCCATATATGATATCCTCGATATGTTGCAAGTGCCAAGATTTGGTCCTGATTTTTCCAGGGCCACTGGTGCTTCTTTACTTGGTTCGACTAGATCCGACGGCGTTAAGATTCCGCAAAAACCAAACGTCATTGTTTCACAAGACGGGAAGGGAGATTTCAAGCTAATAATGGACGCGATTAAGGAAGCACCAAGTCACTCCACAAATTACTTTGTGATACTTGTTAAGAGAGGAGTTTACCATGAATACGTGAACATTGATGAGACAAAATCGAATCTGGTCTTGATGGGAGAGGGCATGGATGTTACTACCATTTCCGGAAGTAAAAGCGCAAGGGGTGGTCAGCCAACATTTGATTCAGCCACATTTGGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00040 ko01100 map00040 map01100

Pfam Domains

Protein Families

PMEI Pectinesterase

Protein Analysis

274

Amino Acids

29.75

Weight (kDa)

5.77

Isoelectric Point (pI)

32.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PMEI	PF04043	38 - 147	4.2e-06	Plant invertase/pectin methylesterase inhibitor
Pectinesterase	PF01095	192 - 273	1.4e-23	Pectinesterase

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: OG0001935)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g17310 FvH4_6g17430
malus_domestica	MD01G1105400.v1.1 MD03G1086400.v1.1 MD04G1225800.v1.1 MD06G1080700.v1.1
prunus_persica	Prupe.2G210700_v2.0.a1 Prupe.2G216300_v2.0.a1 Prupe.6G344600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0362901 RchiOBHm_Chr1g0362911 RchiOBHm_Chr3g0450671 RchiOBHm_Chr3g0471441
rosa_laevigata	RLG00000024178 RLG00000025712
rosa_multiflora	Rmu_co8224930.1_g000001 Rmu_co8324923.1_g000001 Rmu_sc0000078.1_g000035 Rmu_sc0001502.1_g000007 Rmu_sc0001502.1_g000008 Rmu_sc0006582.1_g000010
rosa_roxburghii	Rroxscaffold_4G00293660 Rroxscaffold_6G00409950 Rroxscaffold_6G00428330
rosa_rugosa	Rorug01G0302100 Rorug01G0302100 Rorug02G0629500 Rorug03G0117800
rosa_samantha	Rh1AG311400 Rh1AG311500 Rh1BG274600 Rh1CG291800 Rh1DG305300 Rh3AG030300 Rh3AG167600 Rh3BG030600 Rh3BG030700 Rh3BG193100 Rh3CG029500 Rh3CG183500 Rh3DG030200 Rh3DG030300 Rh3DG182400
rosa_wichuraiana	Rw1G027600 Rw3G002330 Rw3G015790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	404
AccB1I	GGYRCC	1 cut(s)	404
AccB7I	CCANNNNNTGG	1 cut(s)	491
AccI	GTMKAC	1 cut(s)	143
AccII	CGCG	1 cut(s)	626
AccIII	TCCGGA	1 cut(s)	767
AciI	CCGC	2 cut(s)	97, 563
AclWI	GGATC	1 cut(s)	537
AdeI	CACNNNGTG	1 cut(s)	251
AfaI	GTAC	2 cut(s)	388, 406
AfiI	CCNNNNNNNGG	2 cut(s)	345, 491
AgsI	TTSAA	2 cut(s)	161, 610
AjnI	CCWGG	1 cut(s)	506
AjuI	GAANNNNNNNTTGG	2 cut(s)	790, 822
AluBI	AGCT	2 cut(s)	7, 613
AluI	AGCT	2 cut(s)	7, 613
Alw26I	GTCTC	1 cut(s)	707
AlwI	GGATC	1 cut(s)	537
Aor13HI	TCCGGA	1 cut(s)	767
AoxI	GGCC	2 cut(s)	168, 510
ApeKI	GCWGC	1 cut(s)	372
AseI	ATTAAT	1 cut(s)	306
Asp700I	GAANNNNTTC	1 cut(s)	156
Asp718I	GGTACC	1 cut(s)	404
AspLEI	GCGC	1 cut(s)	782
AspS9I	GGNCC	4 cut(s)	221, 291, 494, 510
AsuHPI	GGTGA	3 cut(s)	206, 278, 338
AvaII	GGWCC	3 cut(s)	221, 291, 494
BanI	GGYRCC	1 cut(s)	404
BbvI	GCAGC	1 cut(s)	384
BccI	CCATC	3 cut(s)	212, 395, 730
BceAI	ACGGC	1 cut(s)	565
BciT130I	CCWGG	1 cut(s)	508
BcoDI	GTCTC	1 cut(s)	707
BfaI	CTAG	3 cut(s)	69, 75, 540
BisI	GCNGC	1 cut(s)	373
BlsI	GCNGC	1 cut(s)	374
Bme1390I	CCNGG	1 cut(s)	508
Bme18I	GGWCC	3 cut(s)	221, 291, 494
BmgT120I	GGNCC	4 cut(s)	221, 291, 494, 510
BmiI	GGNNCC	2 cut(s)	293, 406
BmrFI	CCNGG	1 cut(s)	508
BmsI	GCATC	1 cut(s)	319
BpuEI	CTTGAG	1 cut(s)	306
BsaAI	YACGTR	1 cut(s)	700
BsaJI	CCNNGG	2 cut(s)	190, 507
BsaWI	WCCGGW	1 cut(s)	767
Bsc4I	CCNNNNNNNGG	2 cut(s)	345, 491
Bse1I	ACTGG	1 cut(s)	520
Bse3DI	GCAATG	1 cut(s)	42
BseAI	TCCGGA	1 cut(s)	767
BseBI	CCWGG	1 cut(s)	508
BseDI	CCNNGG	2 cut(s)	190, 507
BseGI	GGATG	3 cut(s)	92, 449, 757
BseLI	CCNNNNNNNGG	2 cut(s)	345, 491
BseMI	GCAATG	1 cut(s)	42
BseNI	ACTGG	1 cut(s)	520
BseRI	GAGGAG	1 cut(s)	696
BseXI	GCAGC	1 cut(s)	384
Bsh1236I	CGCG	1 cut(s)	626
BshFI	GGCC	2 cut(s)	170, 512
BshNI	GGYRCC	1 cut(s)	404
BsiSI	CCGG	1 cut(s)	768
BslFI	GGGAC	2 cut(s)	95, 166
BslI	CCNNNNNNNGG	2 cut(s)	345, 491
BsmAI	GTCTC	1 cut(s)	707
BsmFI	GGGAC	2 cut(s)	95, 166
BsnI	GGCC	2 cut(s)	170, 512
Bsp13I	TCCGGA	1 cut(s)	767
Bsp143I	GATC	1 cut(s)	542
Bsp19I	CCATGG	1 cut(s)	190
BspACI	CCGC	2 cut(s)	97, 563
BspANI	GGCC	2 cut(s)	170, 512
BspEI	TCCGGA	1 cut(s)	767
BspFNI	CGCG	1 cut(s)	626
BspLI	GGNNCC	2 cut(s)	293, 406
BspPI	GGATC	1 cut(s)	537
BspT107I	GGYRCC	1 cut(s)	404
BsrDI	GCAATG	1 cut(s)	42
BsrI	ACTGG	1 cut(s)	520
BssECI	CCNNGG	2 cut(s)	190, 507
BssMI	GATC	1 cut(s)	542
BssT1I	CCWWGG	1 cut(s)	190
Bst2UI	CCWGG	1 cut(s)	508
Bst6I	CTCTTC	1 cut(s)	246
BstBAI	YACGTR	1 cut(s)	700
BstC8I	GCNNGC	1 cut(s)	66
BstDSI	CCRYGG	1 cut(s)	190
BstF5I	GGATG	3 cut(s)	92, 449, 757
BstFNI	CGCG	1 cut(s)	626
BstHHI	GCGC	1 cut(s)	782
BstKTI	GATC	1 cut(s)	545
BstMAI	GTCTC	1 cut(s)	707
BstMBI	GATC	1 cut(s)	542
BstMWI	GCNNNNNNNGC	2 cut(s)	96, 518
BstNI	CCWGG	1 cut(s)	508
BstNSI	RCATGY	1 cut(s)	68
BstSCI	CCNGG	1 cut(s)	506
BstUI	CGCG	1 cut(s)	626
BstV1I	GCAGC	1 cut(s)	384
BstX2I	RGATCY	1 cut(s)	542
BstYI	RGATCY	1 cut(s)	542
BsuRI	GGCC	2 cut(s)	170, 512
BtgI	CCRYGG	1 cut(s)	190
BtsCI	GGATG	3 cut(s)	92, 449, 757
BtsIMutI	CAGTG	1 cut(s)	513
Cac8I	GCNNGC	1 cut(s)	66
CfoI	GCGC	1 cut(s)	782
Cfr13I	GGNCC	4 cut(s)	221, 291, 494, 510
CseI	GACGC	2 cut(s)	358, 632
Csp6I	GTAC	2 cut(s)	387, 405
CviAII	CATG	7 cut(s)	65, 178, 191, 341, 418, 692, 748
CviJI	RGCY	9 cut(s)	7, 90, 170, 375, 433, 512, 613, 796, 812
CviKI_1	RGCY	9 cut(s)	7, 90, 170, 375, 433, 512, 613, 796, 812
CviQI	GTAC	2 cut(s)	387, 405
DpnI	GATC	1 cut(s)	544
DpnII	GATC	1 cut(s)	542
DraIII	CACNNNGTG	1 cut(s)	251
Eam1104I	CTCTTC	1 cut(s)	246
EarI	CTCTTC	1 cut(s)	246
Eco130I	CCWWGG	1 cut(s)	190
Eco32I	GATATC	1 cut(s)	463
Eco47I	GGWCC	3 cut(s)	221, 291, 494
EcoRII	CCWGG	1 cut(s)	506
EcoRV	GATATC	1 cut(s)	463
EcoT14I	CCWWGG	1 cut(s)	190
ErhI	CCWWGG	1 cut(s)	190
FaeI	CATG	7 cut(s)	68, 181, 194, 344, 421, 695, 751
FaqI	GGGAC	2 cut(s)	95, 166
FatI	CATG	7 cut(s)	64, 177, 190, 340, 417, 691, 747
FauI	CCCGC	1 cut(s)	104
FblI	GTMKAC	1 cut(s)	143
Fnu4HI	GCNGC	1 cut(s)	373
FokI	GGATG	3 cut(s)	79, 436, 764
Fsp4HI	GCNGC	1 cut(s)	373
FspBI	CTAG	3 cut(s)	69, 75, 540
GlaI	GCGC	1 cut(s)	781
GluI	GCNGC	1 cut(s)	373
HaeIII	GGCC	2 cut(s)	170, 512
HapII	CCGG	1 cut(s)	768
HgaI	GACGC	2 cut(s)	358, 632
HhaI	GCGC	1 cut(s)	782
Hin1II	CATG	7 cut(s)	68, 181, 194, 344, 421, 695, 751
Hin6I	GCGC	1 cut(s)	780
HinP1I	GCGC	1 cut(s)	780
HinfI	GANTC	4 cut(s)	131, 559, 724, 806
HpaII	CCGG	1 cut(s)	768
HphI	GGTGA	3 cut(s)	206, 278, 338
Hpy166II	GTNNAC	4 cut(s)	144, 387, 688, 703
Hpy188I	TCNGA	3 cut(s)	13, 128, 547
Hpy188III	TCNNGA	3 cut(s)	497, 733, 768
Hpy8I	GTNNAC	4 cut(s)	144, 387, 688, 703
Hpy99I	CGWCG	1 cut(s)	551
HpyAV	CCTTC	1 cut(s)	592
HpyCH4IV	ACGT	2 cut(s)	576, 699
HpyCH4V	TGCA	2 cut(s)	254, 478
HpyF10VI	GCNNNNNNNGC	2 cut(s)	96, 518
HpySE526I	ACGT	2 cut(s)	576, 699
Hsp92II	CATG	7 cut(s)	68, 181, 194, 344, 421, 695, 751
HspAI	GCGC	1 cut(s)	780
Kpn2I	TCCGGA	1 cut(s)	767
KpnI	GGTACC	1 cut(s)	408
Kzo9I	GATC	1 cut(s)	542
LpnPI	CCDG	8 cut(s)	261, 411, 493, 501, 510, 520, 713, 781
Lsp1109I	GCAGC	1 cut(s)	384
LweI	GCATC	1 cut(s)	319
MaeI	CTAG	3 cut(s)	69, 75, 540
MaeII	ACGT	2 cut(s)	576, 699
MaeIII	GTNAC	4 cut(s)	194, 442, 644, 754
MalI	GATC	1 cut(s)	544
MboI	GATC	1 cut(s)	542
MboII	GAAGA	2 cut(s)	22, 233
MflI	RGATCY	1 cut(s)	542
MluCI	AATT	2 cut(s)	286, 655
MlyI	GAGTC	1 cut(s)	140
MmeI	TCCRAC	1 cut(s)	570
MnlI	CCTC	6 cut(s)	181, 339, 423, 476, 674, 736
MroI	TCCGGA	1 cut(s)	767
MroXI	GAANNNNTTC	1 cut(s)	156
MseI	TTAA	5 cut(s)	57, 306, 555, 630, 675
MspI	CCGG	1 cut(s)	768
MspR9I	CCNGG	1 cut(s)	508
MvaI	CCWGG	1 cut(s)	508
MvnI	CGCG	1 cut(s)	626
MwoI	GCNNNNNNNGC	2 cut(s)	96, 518
NcoI	CCATGG	1 cut(s)	190
NdeII	GATC	1 cut(s)	542
NlaIII	CATG	7 cut(s)	68, 181, 194, 344, 421, 695, 751
NlaIV	GGNNCC	2 cut(s)	293, 406
NmuCI	GTSAC	3 cut(s)	194, 442, 644
NspI	RCATGY	1 cut(s)	68
PaeI	GCATGC	1 cut(s)	68
PdmI	GAANNNNTTC	1 cut(s)	156
PfeI	GAWTC	3 cut(s)	559, 724, 806
PflMI	CCANNNNNTGG	1 cut(s)	491
PkrI	GCNGC	1 cut(s)	374
PleI	GAGTC	1 cut(s)	139
PpsI	GAGTC	1 cut(s)	139
Ppu21I	YACGTR	1 cut(s)	700
PshBI	ATTAAT	1 cut(s)	306
Psp6I	CCWGG	1 cut(s)	506
PspGI	CCWGG	1 cut(s)	506
PspN4I	GGNNCC	2 cut(s)	293, 406
PspPI	GGNCC	4 cut(s)	221, 291, 494, 510
PsuI	RGATCY	1 cut(s)	542
RsaI	GTAC	2 cut(s)	388, 406
RsaNI	GTAC	2 cut(s)	387, 405
SaqAI	TTAA	5 cut(s)	57, 306, 555, 630, 675
SatI	GCNGC	1 cut(s)	373
Sau3AI	GATC	1 cut(s)	542
Sau96I	GGNCC	4 cut(s)	221, 291, 494, 510
SchI	GAGTC	1 cut(s)	140
ScrFI	CCNGG	1 cut(s)	508
SetI	ASST	6 cut(s)	9, 74, 328, 579, 615, 702
SfaNI	GCATC	1 cut(s)	319
SinI	GGWCC	3 cut(s)	221, 291, 494
SmlI	CTYRAG	1 cut(s)	321
SmoI	CTYRAG	1 cut(s)	321
SphI	GCATGC	1 cut(s)	68
Sse9I	AATT	2 cut(s)	286, 655
SsiI	CCGC	2 cut(s)	97, 563
SspMI	CTAG	3 cut(s)	69, 75, 540
StyD4I	CCNGG	1 cut(s)	506
StyI	CCWWGG	1 cut(s)	190
TaiI	ACGT	2 cut(s)	579, 702
TaqI	TCGA	3 cut(s)	468, 536, 722
TasI	AATT	2 cut(s)	286, 655
TfiI	GAWTC	3 cut(s)	559, 724, 806
Tru1I	TTAA	5 cut(s)	57, 306, 555, 630, 675
Tru9I	TTAA	5 cut(s)	57, 306, 555, 630, 675
TscAI	CASTG	1 cut(s)	520
TseFI	GTSAC	3 cut(s)	194, 442, 644
TseI	GCWGC	1 cut(s)	372
Tsp45I	GTSAC	3 cut(s)	194, 442, 644
TspDTI	ATGAA	5 cut(s)	17, 31, 299, 406, 708
TspRI	CASTG	1 cut(s)	520
Van91I	CCANNNNNTGG	1 cut(s)	491
VpaK11BI	GGWCC	3 cut(s)	221, 291, 494
VspI	ATTAAT	1 cut(s)	306
XceI	RCATGY	1 cut(s)	68
XcmI	CCANNNNNNNNNTGG	1 cut(s)	415
XmiI	GTMKAC	1 cut(s)	143
XmnI	GAANNNNTTC	1 cut(s)	156
XspI	CTAG	3 cut(s)	69, 75, 540

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