Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0005670

Physical Location & Seq

Genomic Coordinates Reverse (-)

4503955 .. 4506218

Gene Structure 2264 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG023300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 762 bp

ATGAGATGCTCATCCGTTTTTTTTGTGTTTTGTGTTAAACAGATGTCGAATGCTGACATGTTCCCCAAGAACCATGACGAAATCGATTTCGAGTTTCTGGGTAATATAAGAGGCAAAGAATGGAGGGTTCAGACCAACGTTTATGGCAATGGAAGCACTGATACTGGGAGAGAAGAGAGATACAATCTCTGGTTTGATCCTTCTGAGGATTACCACCAGTACAGTATTCTCTGGACTGACTCTCATATCATATTCTATGTTGACAATATTCCCATTAGAGTGGTTAAGAAATCGGAGGCGATGGGTGGTGACTATCCCTCGAAGCCAATGTCATTGTATGCTACAATATGGGATGGATCCGATTGGGCTACCAATGGAGGCAAATACAGAGTCAACTACAAGTATGCTCCATTCAAGGCCGAGTTCTCTGACCTTGTTCTACATGGCTGTGCAGTTGATCCAATTGAACAGGTATCAAAGAAATGTGATAAAACCCAAGGTTCTGAATATATCCCTACCGGTGTTACGCGCCTACAAAGAATGAGGATGGAGAGTTTCAGGAAGAGGCAGATGACATACTCATATTGCTACGACAGAATACGATACAAGGTTGCTCCACCAGAGTGTGTGATCAATCCCCAAAAAGCTGAAAGACTCCGCGTGTTTGACCCCGTTACATTCGGGCACGGGCACCACCGTCAACGAAAACATCACCGCAGGAGCAGCAGCAGAGCAAGCCTAGCGGATACAACTTCTGTTTGA

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

253

Amino Acids

29.58

Weight (kDa)

9.02

Isoelectric Point (pI)

42.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_16	PF00722	17 - 134	2.1e-43	Glycosyl hydrolases family 16
XET_C	PF06955	174 - 209	3.4e-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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)	690
AccII	CGCG	2 cut(s)	529, 660
AciI	CCGC	3 cut(s)	658, 715, 743
AclI	AACGTT	1 cut(s)	138
AclWI	GGATC	4 cut(s)	191, 351, 364, 452
AfaI	GTAC	1 cut(s)	221
AflIII	ACRYGT	1 cut(s)	57
AgeI	ACCGGT	1 cut(s)	518
AgsI	TTSAA	2 cut(s)	415, 467
AleI	CACNNNNGTG	1 cut(s)	622
AluBI	AGCT	1 cut(s)	647
AluI	AGCT	1 cut(s)	647
AlwI	GGATC	4 cut(s)	191, 351, 364, 452
AoxI	GGCC	1 cut(s)	417
ApeKI	GCWGC	2 cut(s)	723, 726
ArsI	GACNNNNNNTTYG	4 cut(s)	314, 346, 375, 407
AsiGI	ACCGGT	1 cut(s)	518
AspLEI	GCGC	1 cut(s)	531
AsuHPI	GGTGA	2 cut(s)	320, 704
BaeGI	GKGCMC	2 cut(s)	687, 693
BamHI	GGATCC	1 cut(s)	356
BanI	GGYRCC	1 cut(s)	690
BarI	GAAGNNNNNNTAC	2 cut(s)	145, 177
BbvI	GCAGC	2 cut(s)	735, 738
BccI	CCATC	3 cut(s)	295, 347, 541
BciVI	GTATCC	1 cut(s)	739
BclI	TGATCA	1 cut(s)	630
BfaI	CTAG	1 cut(s)	740
BfuI	GTATCC	1 cut(s)	739
BisI	GCNGC	2 cut(s)	724, 727
BlsI	GCNGC	2 cut(s)	725, 728
BmiI	GGNNCC	2 cut(s)	358, 692
BmrI	ACTGGG	1 cut(s)	174
BmuI	ACTGGG	1 cut(s)	174
Bsa29I	ATCGAT	1 cut(s)	84
BsaBI	GATNNNNATC	1 cut(s)	10
BsaJI	CCNNGG	1 cut(s)	496
BsaWI	WCCGGW	1 cut(s)	518
Bse118I	RCCGGY	1 cut(s)	518
Bse1I	ACTGG	2 cut(s)	169, 217
Bse3DI	GCAATG	1 cut(s)	154
Bse8I	GATNNNNATC	1 cut(s)	10
BseCI	ATCGAT	1 cut(s)	84
BseDI	CCNNGG	1 cut(s)	496
BseGI	GGATG	3 cut(s)	11, 358, 552
BseJI	GATNNNNATC	1 cut(s)	10
BseMI	GCAATG	1 cut(s)	154
BseMII	CTCAG	1 cut(s)	195
BseNI	ACTGG	2 cut(s)	169, 217
BseSI	GKGCMC	2 cut(s)	687, 693
BseXI	GCAGC	2 cut(s)	735, 738
BsgI	GTGCAG	1 cut(s)	471
Bsh1236I	CGCG	2 cut(s)	529, 660
BshFI	GGCC	1 cut(s)	419
BshNI	GGYRCC	1 cut(s)	690
BshTI	ACCGGT	1 cut(s)	518
BshVI	ATCGAT	1 cut(s)	84
BsiSI	CCGG	1 cut(s)	519
BsmI	GAATGC	1 cut(s)	55
BsnI	GGCC	1 cut(s)	419
Bsp1286I	GDGCHC	2 cut(s)	687, 693
Bsp143I	GATC	4 cut(s)	196, 356, 457, 630
BspACI	CCGC	3 cut(s)	658, 715, 743
BspANI	GGCC	1 cut(s)	419
BspCNI	CTCAG	1 cut(s)	196
BspDI	ATCGAT	1 cut(s)	84
BspFNI	CGCG	2 cut(s)	529, 660
BspLI	GGNNCC	2 cut(s)	358, 692
BspPI	GGATC	4 cut(s)	191, 351, 364, 452
BspT107I	GGYRCC	1 cut(s)	690
BsrDI	GCAATG	1 cut(s)	154
BsrFI	RCCGGY	1 cut(s)	518
BsrI	ACTGG	2 cut(s)	169, 217
BssAI	RCCGGY	1 cut(s)	518
BssECI	CCNNGG	1 cut(s)	496
BssMI	GATC	4 cut(s)	196, 356, 457, 630
BssT1I	CCWWGG	1 cut(s)	496
Bst4CI	ACNGT	2 cut(s)	224, 698
Bst6I	CTCTTC	2 cut(s)	168, 557
BstC8I	GCNNGC	1 cut(s)	736
BstDEI	CTNAG	1 cut(s)	204
BstF5I	GGATG	3 cut(s)	11, 358, 552
BstFNI	CGCG	2 cut(s)	529, 660
BstHHI	GCGC	1 cut(s)	531
BstKTI	GATC	4 cut(s)	199, 359, 460, 633
BstMBI	GATC	4 cut(s)	196, 356, 457, 630
BstMWI	GCNNNNNNNGC	4 cut(s)	153, 723, 735, 740
BstNSI	RCATGY	1 cut(s)	61
BstSLI	GKGCMC	2 cut(s)	687, 693
BstUI	CGCG	2 cut(s)	529, 660
BstV1I	GCAGC	2 cut(s)	735, 738
BstX2I	RGATCY	1 cut(s)	356
BstXI	CCANNNNNNTGG	1 cut(s)	280
BstYI	RGATCY	1 cut(s)	356
Bsu15I	ATCGAT	1 cut(s)	84
BsuI	GTATCC	1 cut(s)	739
BsuRI	GGCC	1 cut(s)	419
BsuTUI	ATCGAT	1 cut(s)	84
BtgZI	GCGATG	1 cut(s)	314
BtsCI	GGATG	3 cut(s)	11, 358, 552
BtsIMutI	CAGTG	1 cut(s)	156
Cac8I	GCNNGC	1 cut(s)	736
CfoI	GCGC	1 cut(s)	531
Cfr10I	RCCGGY	1 cut(s)	518
ClaI	ATCGAT	1 cut(s)	84
Csp6I	GTAC	1 cut(s)	220
CspAI	ACCGGT	1 cut(s)	518
CviAII	CATG	3 cut(s)	58, 74, 443
CviJI	RGCY	6 cut(s)	325, 368, 419, 447, 647, 738
CviKI_1	RGCY	6 cut(s)	325, 368, 419, 447, 647, 738
CviQI	GTAC	1 cut(s)	220
DdeI	CTNAG	1 cut(s)	204
DpnI	GATC	4 cut(s)	198, 358, 459, 632
DpnII	GATC	4 cut(s)	196, 356, 457, 630
Eam1104I	CTCTTC	2 cut(s)	168, 557
EarI	CTCTTC	2 cut(s)	168, 557
Eco130I	CCWWGG	1 cut(s)	496
EcoT14I	CCWWGG	1 cut(s)	496
ErhI	CCWWGG	1 cut(s)	496
FaeI	CATG	3 cut(s)	61, 77, 446
FatI	CATG	3 cut(s)	57, 73, 442
FbaI	TGATCA	1 cut(s)	630
Fnu4HI	GCNGC	2 cut(s)	724, 727
FokI	GGATG	2 cut(s)	365, 559
Fsp4HI	GCNGC	2 cut(s)	724, 727
FspBI	CTAG	1 cut(s)	740
GlaI	GCGC	1 cut(s)	530
GluI	GCNGC	2 cut(s)	724, 727
HaeIII	GGCC	1 cut(s)	419
HapII	CCGG	1 cut(s)	519
HhaI	GCGC	1 cut(s)	531
Hin1II	CATG	3 cut(s)	61, 77, 446
Hin6I	GCGC	1 cut(s)	529
HinP1I	GCGC	1 cut(s)	529
HincII	GTYRAC	3 cut(s)	262, 394, 701
HindII	GTYRAC	3 cut(s)	262, 394, 701
HinfI	GANTC	3 cut(s)	239, 390, 654
HpaII	CCGG	1 cut(s)	519
HphI	GGTGA	2 cut(s)	320, 704
Hpy166II	GTNNAC	3 cut(s)	262, 394, 701
Hpy188I	TCNGA	6 cut(s)	132, 205, 295, 361, 430, 505
Hpy188III	TCNNGA	2 cut(s)	232, 559
Hpy8I	GTNNAC	3 cut(s)	262, 394, 701
HpyAV	CCTTC	1 cut(s)	210
HpyCH4III	ACNGT	2 cut(s)	224, 698
HpyCH4IV	ACGT	1 cut(s)	138
HpyCH4V	TGCA	1 cut(s)	452
HpyF10VI	GCNNNNNNNGC	4 cut(s)	153, 723, 735, 740
HpyF3I	CTNAG	1 cut(s)	204
HpySE526I	ACGT	1 cut(s)	138
Hsp92II	CATG	3 cut(s)	61, 77, 446
HspAI	GCGC	1 cut(s)	529
Ksp22I	TGATCA	1 cut(s)	630
Kzo9I	GATC	4 cut(s)	196, 356, 457, 630
LmnI	GCTCC	3 cut(s)	412, 619, 720
Lsp1109I	GCAGC	2 cut(s)	735, 738
MaeI	CTAG	1 cut(s)	740
MaeII	ACGT	1 cut(s)	138
MaeIII	GTNAC	3 cut(s)	308, 523, 673
MalI	GATC	4 cut(s)	198, 358, 459, 632
MboI	GATC	4 cut(s)	196, 356, 457, 630
MboII	GAAGA	2 cut(s)	185, 574
MfeI	CAATTG	1 cut(s)	462
MflI	RGATCY	1 cut(s)	356
MhlI	GDGCHC	2 cut(s)	687, 693
MluCI	AATT	1 cut(s)	462
MlyI	GAGTC	3 cut(s)	233, 399, 648
MnlI	CCTC	8 cut(s)	104, 117, 199, 289, 328, 371, 537, 558
MseI	TTAA	2 cut(s)	36, 285
MslI	CAYNNNNRTG	3 cut(s)	278, 447, 622
MspI	CCGG	1 cut(s)	519
MunI	CAATTG	1 cut(s)	462
Mva1269I	GAATGC	1 cut(s)	55
MvnI	CGCG	2 cut(s)	529, 660
MwoI	GCNNNNNNNGC	4 cut(s)	153, 723, 735, 740
NdeII	GATC	4 cut(s)	196, 356, 457, 630
NlaIII	CATG	3 cut(s)	61, 77, 446
NlaIV	GGNNCC	2 cut(s)	358, 692
NmeAIII	GCCGAG	1 cut(s)	445
NmuCI	GTSAC	1 cut(s)	308
NspI	RCATGY	1 cut(s)	61
OliI	CACNNNNGTG	1 cut(s)	622
PciI	ACATGT	1 cut(s)	57
PctI	GAATGC	1 cut(s)	55
PinAI	ACCGGT	1 cut(s)	518
PkrI	GCNGC	2 cut(s)	725, 728
PleI	GAGTC	3 cut(s)	233, 398, 648
PpsI	GAGTC	3 cut(s)	233, 398, 648
PscI	ACATGT	1 cut(s)	57
Psp1406I	AACGTT	1 cut(s)	138
PspN4I	GGNNCC	2 cut(s)	358, 692
PsuI	RGATCY	1 cut(s)	356
RsaI	GTAC	1 cut(s)	221
RsaNI	GTAC	1 cut(s)	220
RseI	CAYNNNNRTG	3 cut(s)	278, 447, 622
SaqAI	TTAA	2 cut(s)	36, 285
SatI	GCNGC	2 cut(s)	724, 727
Sau3AI	GATC	4 cut(s)	196, 356, 457, 630
SchI	GAGTC	3 cut(s)	233, 399, 648
SduI	GDGCHC	2 cut(s)	687, 693
SetI	ASST	6 cut(s)	141, 435, 474, 502, 612, 649
SmiMI	CAYNNNNRTG	3 cut(s)	278, 447, 622
Sse9I	AATT	1 cut(s)	462
SsiI	CCGC	3 cut(s)	658, 715, 743
SspI	AATATT	1 cut(s)	268
SspMI	CTAG	1 cut(s)	740
StyI	CCWWGG	1 cut(s)	496
TaaI	ACNGT	2 cut(s)	224, 698
TaiI	ACGT	1 cut(s)	141
TaqI	TCGA	4 cut(s)	47, 84, 90, 320
TasI	AATT	1 cut(s)	462
TatI	WGTACW	1 cut(s)	219
Tru1I	TTAA	2 cut(s)	36, 285
Tru9I	TTAA	2 cut(s)	36, 285
TscAI	CASTG	1 cut(s)	163
TseFI	GTSAC	1 cut(s)	308
TseI	GCWGC	2 cut(s)	723, 726
Tsp45I	GTSAC	1 cut(s)	308
TspGWI	ACGGA	1 cut(s)	4
TspRI	CASTG	1 cut(s)	163
XceI	RCATGY	1 cut(s)	61
XspI	CTAG	1 cut(s)	740

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