Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0005670

Physical Location & Seq

Genomic Coordinates Reverse (-)

61360851 .. 61364079

Gene Structure 3229 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG397100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 720 bp

ATGTCGAATGCTGACATGTTCCCCAAGAACCATGACGAAATCGATTTCGAGTTTCTGGGTAATATAAGAGGCAAAGAATGGAGGGTTCAGACCAACGTTTATGGCAATGGAAGCACTGATACTGGGAGAGAAGAGAGATACAATCTCTGGTTTGATCCTTCGGAGGATTACCACCAGTACAGTATTCTCTGGACTGACTCTTATATCATATTCTATGTTGACAATATTCCCATTAGAGTGGTTAAGAAATCAGAGGCGATGGGTGGTGACTATCCCTCGAAGCCAATGTCATTGTATGCTACAATATGGGATGGATCCGATTGGGCTACCAATGGAGGCAAATACAGAGTCAACTACAAGTATGCTCCATTCAAGGCCGAGTTCTCTGACCTTGTTCTACATGGCTGTGCAGTTGATCCAATTGAACAGGTATCAAAGAAATGTGATAAAACCCAAGGTTCTGAATATATCCCTACCGGTGTTACGCGCCTACAAAGAATGAGGATGGAGAGTTTCAGGAAGAGGCAGATGACATACTCCTATTGCTACGACAGAATACGATACAAGGTTGCTCCACCAGAGTGTGTGATCAATCCCCAAGAAGCTGAAAGACTCCGCGTGTTTGACCCCGTTACATTCGGGCACGGGCACCACCGTCAACGAAAACATCACCGCAGGAGCAGCAGCAGAGCAAGCCTAGCGGATACCACTTCTGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0007275 GO:0008150 GO:0009791 GO:0009888 GO:0009908 GO:0010087 GO:0010154 GO:0016740 GO:0016757 GO:0016758 GO:0016762 GO:0022414 GO:0032501 GO:0032502 GO:0046527 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0061458 GO:0080086 GO:0090567 GO:0099402

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_16 XET_C

Protein Analysis

239

Amino Acids

27.94

Weight (kDa)

8.54

Isoelectric Point (pI)

42.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_16	PF00722	5 - 120	1.2e-42	Glycosyl hydrolases family 16
XET_C	PF06955	160 - 195	3.5e-12	Xyloglucan endo-transglycosylase (XET) C-terminus

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)

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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: OG0005670)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G14720 AT2G01850
fragaria_vesca	FvH4_4g33070 FvH4_4g33070
malus_domestica	MD13G1016500.v1.1 MD16G1014000.v1.1
prunus_persica	Prupe.1G337000_v2.0.a1
pyrus_communis	pycom13g01420 pycom16g01320
rosa_chinensis	RchiOBHm_Chr3g0486711 RchiOBHm_Chr4g0388421 RchiOBHm_Chr4g0442121
rosa_laevigata	RLG00000006039 RLG00000010057 RLG00000010058
rosa_multiflora	Rmu_sc0002501.1_g000002 Rmu_sc0010284.1_g000014
rosa_roxburghii	Rroxscaffold_4G00314720 Rroxscaffold_5G00383030
rosa_rugosa	Rorug04G0339100
rosa_samantha	Rh3AG276200 Rh4AG390500 Rh4BG016200 Rh4BG404100 Rh4CG023300 Rh4CG419100 Rh4DG397100
rosa_wichuraiana	Rw4G033750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	648
AccII	CGCG	2 cut(s)	487, 618
AciI	CCGC	3 cut(s)	616, 673, 701
AclI	AACGTT	1 cut(s)	96
AclWI	GGATC	4 cut(s)	149, 309, 322, 410
AfaI	GTAC	1 cut(s)	179
AflIII	ACRYGT	1 cut(s)	15
AgeI	ACCGGT	1 cut(s)	476
AgsI	TTSAA	2 cut(s)	373, 425
AleI	CACNNNNGTG	1 cut(s)	580
AluBI	AGCT	1 cut(s)	605
AluI	AGCT	1 cut(s)	605
AlwI	GGATC	4 cut(s)	149, 309, 322, 410
AoxI	GGCC	1 cut(s)	375
ApeKI	GCWGC	2 cut(s)	681, 684
ArsI	GACNNNNNNTTYG	4 cut(s)	272, 304, 333, 365
AsiGI	ACCGGT	1 cut(s)	476
AspLEI	GCGC	1 cut(s)	489
AsuHPI	GGTGA	2 cut(s)	278, 662
BaeGI	GKGCMC	2 cut(s)	645, 651
BamHI	GGATCC	1 cut(s)	314
BanI	GGYRCC	1 cut(s)	648
BarI	GAAGNNNNNNTAC	2 cut(s)	103, 135
BbvI	GCAGC	2 cut(s)	693, 696
BccI	CCATC	3 cut(s)	253, 305, 499
BciVI	GTATCC	1 cut(s)	697
BclI	TGATCA	1 cut(s)	588
BfaI	CTAG	1 cut(s)	698
BfuI	GTATCC	1 cut(s)	697
BisI	GCNGC	2 cut(s)	682, 685
BlsI	GCNGC	2 cut(s)	683, 686
BmiI	GGNNCC	2 cut(s)	316, 650
BmrI	ACTGGG	1 cut(s)	132
BmuI	ACTGGG	1 cut(s)	132
Bsa29I	ATCGAT	1 cut(s)	42
BsaJI	CCNNGG	1 cut(s)	454
BsaWI	WCCGGW	1 cut(s)	476
Bse118I	RCCGGY	1 cut(s)	476
Bse1I	ACTGG	2 cut(s)	127, 175
Bse3DI	GCAATG	1 cut(s)	112
BseCI	ATCGAT	1 cut(s)	42
BseDI	CCNNGG	1 cut(s)	454
BseGI	GGATG	2 cut(s)	316, 510
BseMI	GCAATG	1 cut(s)	112
BseNI	ACTGG	2 cut(s)	127, 175
BseSI	GKGCMC	2 cut(s)	645, 651
BseXI	GCAGC	2 cut(s)	693, 696
BsgI	GTGCAG	1 cut(s)	429
Bsh1236I	CGCG	2 cut(s)	487, 618
BshFI	GGCC	1 cut(s)	377
BshNI	GGYRCC	1 cut(s)	648
BshTI	ACCGGT	1 cut(s)	476
BshVI	ATCGAT	1 cut(s)	42
BsiSI	CCGG	1 cut(s)	477
BsmI	GAATGC	1 cut(s)	13
BsnI	GGCC	1 cut(s)	377
Bsp1286I	GDGCHC	2 cut(s)	645, 651
Bsp143I	GATC	4 cut(s)	154, 314, 415, 588
BspACI	CCGC	3 cut(s)	616, 673, 701
BspANI	GGCC	1 cut(s)	377
BspDI	ATCGAT	1 cut(s)	42
BspFNI	CGCG	2 cut(s)	487, 618
BspLI	GGNNCC	2 cut(s)	316, 650
BspPI	GGATC	4 cut(s)	149, 309, 322, 410
BspT107I	GGYRCC	1 cut(s)	648
BsrDI	GCAATG	1 cut(s)	112
BsrFI	RCCGGY	1 cut(s)	476
BsrI	ACTGG	2 cut(s)	127, 175
BssAI	RCCGGY	1 cut(s)	476
BssECI	CCNNGG	1 cut(s)	454
BssMI	GATC	4 cut(s)	154, 314, 415, 588
BssT1I	CCWWGG	1 cut(s)	454
Bst4CI	ACNGT	2 cut(s)	182, 656
Bst6I	CTCTTC	2 cut(s)	126, 515
BstC8I	GCNNGC	1 cut(s)	694
BstF5I	GGATG	2 cut(s)	316, 510
BstFNI	CGCG	2 cut(s)	487, 618
BstHHI	GCGC	1 cut(s)	489
BstKTI	GATC	4 cut(s)	157, 317, 418, 591
BstMBI	GATC	4 cut(s)	154, 314, 415, 588
BstMWI	GCNNNNNNNGC	4 cut(s)	111, 681, 693, 698
BstNSI	RCATGY	1 cut(s)	19
BstSLI	GKGCMC	2 cut(s)	645, 651
BstUI	CGCG	2 cut(s)	487, 618
BstV1I	GCAGC	2 cut(s)	693, 696
BstX2I	RGATCY	1 cut(s)	314
BstXI	CCANNNNNNTGG	1 cut(s)	238
BstYI	RGATCY	1 cut(s)	314
Bsu15I	ATCGAT	1 cut(s)	42
BsuI	GTATCC	1 cut(s)	697
BsuRI	GGCC	1 cut(s)	377
BsuTUI	ATCGAT	1 cut(s)	42
BtgZI	GCGATG	1 cut(s)	272
BtsCI	GGATG	2 cut(s)	316, 510
BtsIMutI	CAGTG	1 cut(s)	114
Cac8I	GCNNGC	1 cut(s)	694
CfoI	GCGC	1 cut(s)	489
Cfr10I	RCCGGY	1 cut(s)	476
ClaI	ATCGAT	1 cut(s)	42
Csp6I	GTAC	1 cut(s)	178
CspAI	ACCGGT	1 cut(s)	476
CviAII	CATG	3 cut(s)	16, 32, 401
CviJI	RGCY	6 cut(s)	283, 326, 377, 405, 605, 696
CviKI_1	RGCY	6 cut(s)	283, 326, 377, 405, 605, 696
CviQI	GTAC	1 cut(s)	178
DpnI	GATC	4 cut(s)	156, 316, 417, 590
DpnII	GATC	4 cut(s)	154, 314, 415, 588
Eam1104I	CTCTTC	2 cut(s)	126, 515
EarI	CTCTTC	2 cut(s)	126, 515
Eco130I	CCWWGG	1 cut(s)	454
EcoT14I	CCWWGG	1 cut(s)	454
ErhI	CCWWGG	1 cut(s)	454
FaeI	CATG	3 cut(s)	19, 35, 404
FatI	CATG	3 cut(s)	15, 31, 400
FbaI	TGATCA	1 cut(s)	588
Fnu4HI	GCNGC	2 cut(s)	682, 685
FokI	GGATG	2 cut(s)	323, 517
Fsp4HI	GCNGC	2 cut(s)	682, 685
FspBI	CTAG	1 cut(s)	698
GlaI	GCGC	1 cut(s)	488
GluI	GCNGC	2 cut(s)	682, 685
HaeIII	GGCC	1 cut(s)	377
HapII	CCGG	1 cut(s)	477
HhaI	GCGC	1 cut(s)	489
Hin1II	CATG	3 cut(s)	19, 35, 404
Hin6I	GCGC	1 cut(s)	487
HinP1I	GCGC	1 cut(s)	487
HincII	GTYRAC	3 cut(s)	220, 352, 659
HindII	GTYRAC	3 cut(s)	220, 352, 659
HinfI	GANTC	3 cut(s)	197, 348, 612
HpaII	CCGG	1 cut(s)	477
HphI	GGTGA	2 cut(s)	278, 662
Hpy166II	GTNNAC	3 cut(s)	220, 352, 659
Hpy188I	TCNGA	6 cut(s)	90, 163, 253, 319, 388, 463
Hpy188III	TCNNGA	2 cut(s)	190, 517
Hpy8I	GTNNAC	3 cut(s)	220, 352, 659
HpyAV	CCTTC	1 cut(s)	168
HpyCH4III	ACNGT	2 cut(s)	182, 656
HpyCH4IV	ACGT	1 cut(s)	96
HpyCH4V	TGCA	1 cut(s)	410
HpyF10VI	GCNNNNNNNGC	4 cut(s)	111, 681, 693, 698
HpySE526I	ACGT	1 cut(s)	96
Hsp92II	CATG	3 cut(s)	19, 35, 404
HspAI	GCGC	1 cut(s)	487
Ksp22I	TGATCA	1 cut(s)	588
Kzo9I	GATC	4 cut(s)	154, 314, 415, 588
LmnI	GCTCC	3 cut(s)	370, 577, 678
Lsp1109I	GCAGC	2 cut(s)	693, 696
MaeI	CTAG	1 cut(s)	698
MaeII	ACGT	1 cut(s)	96
MaeIII	GTNAC	3 cut(s)	266, 481, 631
MalI	GATC	4 cut(s)	156, 316, 417, 590
MboI	GATC	4 cut(s)	154, 314, 415, 588
MboII	GAAGA	2 cut(s)	143, 532
MfeI	CAATTG	1 cut(s)	420
MflI	RGATCY	1 cut(s)	314
MhlI	GDGCHC	2 cut(s)	645, 651
MluCI	AATT	1 cut(s)	420
MlyI	GAGTC	3 cut(s)	191, 357, 606
MnlI	CCTC	8 cut(s)	62, 75, 157, 247, 286, 329, 495, 516
MseI	TTAA	1 cut(s)	243
MslI	CAYNNNNRTG	3 cut(s)	236, 405, 580
MspI	CCGG	1 cut(s)	477
MunI	CAATTG	1 cut(s)	420
Mva1269I	GAATGC	1 cut(s)	13
MvnI	CGCG	2 cut(s)	487, 618
MwoI	GCNNNNNNNGC	4 cut(s)	111, 681, 693, 698
NdeII	GATC	4 cut(s)	154, 314, 415, 588
NlaIII	CATG	3 cut(s)	19, 35, 404
NlaIV	GGNNCC	2 cut(s)	316, 650
NmeAIII	GCCGAG	1 cut(s)	403
NmuCI	GTSAC	1 cut(s)	266
NspI	RCATGY	1 cut(s)	19
OliI	CACNNNNGTG	1 cut(s)	580
PciI	ACATGT	1 cut(s)	15
PctI	GAATGC	1 cut(s)	13
PinAI	ACCGGT	1 cut(s)	476
PkrI	GCNGC	2 cut(s)	683, 686
PleI	GAGTC	3 cut(s)	191, 356, 606
PpsI	GAGTC	3 cut(s)	191, 356, 606
PscI	ACATGT	1 cut(s)	15
Psp1406I	AACGTT	1 cut(s)	96
PspN4I	GGNNCC	2 cut(s)	316, 650
PsuI	RGATCY	1 cut(s)	314
RsaI	GTAC	1 cut(s)	179
RsaNI	GTAC	1 cut(s)	178
RseI	CAYNNNNRTG	3 cut(s)	236, 405, 580
SaqAI	TTAA	1 cut(s)	243
SatI	GCNGC	2 cut(s)	682, 685
Sau3AI	GATC	4 cut(s)	154, 314, 415, 588
SchI	GAGTC	3 cut(s)	191, 357, 606
SduI	GDGCHC	2 cut(s)	645, 651
SetI	ASST	6 cut(s)	99, 393, 432, 460, 570, 607
SmiMI	CAYNNNNRTG	3 cut(s)	236, 405, 580
Sse9I	AATT	1 cut(s)	420
SsiI	CCGC	3 cut(s)	616, 673, 701
SspI	AATATT	1 cut(s)	226
SspMI	CTAG	1 cut(s)	698
StyI	CCWWGG	1 cut(s)	454
TaaI	ACNGT	2 cut(s)	182, 656
TaiI	ACGT	1 cut(s)	99
TaqI	TCGA	4 cut(s)	5, 42, 48, 278
TasI	AATT	1 cut(s)	420
TatI	WGTACW	1 cut(s)	177
Tru1I	TTAA	1 cut(s)	243
Tru9I	TTAA	1 cut(s)	243
TscAI	CASTG	1 cut(s)	121
TseFI	GTSAC	1 cut(s)	266
TseI	GCWGC	2 cut(s)	681, 684
Tsp45I	GTSAC	1 cut(s)	266
TspRI	CASTG	1 cut(s)	121
XceI	RCATGY	1 cut(s)	19
XspI	CTAG	1 cut(s)	698

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