Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0016303

Physical Location & Seq

Genomic Coordinates Reverse (-)

25039253 .. 25041248

Gene Structure 1996 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG116100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGGTTTCTGCTTATTTTTCTTCTTCCAATGTTTCAGCCTTGCTCGTTTTCCTCTTCATGATGAGCACTTCCATGGTTGCCTTTGGTGGCAAATTTTACGATGATTTCTACATAACATGGGGACCGGAGAATGCTAAAATGCTCGATTATGGGCAGCTCTTGACTCTATCCCTCAATAATGTCAGTGGCTCCGCATTTGAGTCCTACAATCAATATCTATATGTAAAGATAGACATGCAAATCAAACTTGTTGCCGGAAACTCTGCCGGTACTGTCACTACATTCTACTTATCCTCAACAGGAAATCATCATGATGAGATAGACTTTGAATTCTTGGGAAATGTTACTGGTCAGCCTTACATTCTTCATACGAATGTCTTTTGCCAAGGAAAGGGCAACAGAGAGCAGCAATTCTACCTTTGGTTTGATCCTACTGCCGATTTCCACACATATTCTATCCTTTGGAATCCCCTAAACATTGTCTTCTTGGTGGATGGCATTCCCATTAGACAGTTCAAGAACCTGGAGTCCTTTGGCATTCCATTTCCCAAATACCAGCCTATGAGGTTATACTCCAGTCTCTGGAATGCGGATAACTGGGCTACAAGAGGTGGACTGGAGAAAATAGATTGGACTCAAGCACCCTTTGCTGCATCTTACAGGAACTTCAATGCCAATTCTGATTCCCATGGAGCATGGTACTGGAAGAAGGTGGATTATTCGGGTAAAGGGCAGATACAATGGGTGCAAAATAACTATATGATCTACAACTACTGCACAGACTCGAAGCGATTCCCCCTAGGGTTTGCTCCTGAATGTTATTTGACTAATCTGTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005975 GO:0005976 GO:0006073 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009408 GO:0009409 GO:0009605 GO:0009612 GO:0009628 GO:0009664 GO:0009719 GO:0009725 GO:0009733 GO:0009741 GO:0009987 GO:0010033 GO:0010383 GO:0010410 GO:0010411 GO:0012505 GO:0014070 GO:0016043 GO:0016740 GO:0016757 GO:0016758 GO:0016762 GO:0030312 GO:0033993 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044036 GO:0044042 GO:0044237 GO:0044238 GO:0044260 GO:0044262 GO:0044264 GO:0044424 GO:0044444 GO:0044464 GO:0045229 GO:0046527 GO:0050896 GO:0071554 GO:0071555 GO:0071669 GO:0071704 GO:0071840 GO:0071944 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04075 map04075

Pfam Domains

Protein Families

Glyco_hydro_16 XET_C

Protein Analysis

279

Amino Acids

32.06

Weight (kDa)

5.69

Isoelectric Point (pI)

27.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_16	PF00722	33 - 212	1.1e-63	Glycosyl hydrolases family 16
XET_C	PF06955	231 - 273	2.7e-17	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

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Orthologous Genes (Group: OG0016303)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g09250
malus_domestica	MD13G1268400.v1.1
prunus_persica	Prupe.1G088500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0402841 RchiOBHm_Chr4g0402851 RchiOBHm_Chr4g0402861
rosa_laevigata	RLG00000009045
rosa_multiflora	Rmu_sc0002451.1_g000049 Rmu_sc0008058.1_g000013
rosa_roxburghii	Rroxscaffold_5G00347580 Rroxscaffold_5G00347590
rosa_rugosa	Rorug04G0038700 Rorug04G0038800
rosa_samantha	Rh4AG116100
rosa_wichuraiana	Rw4G009300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	832
AccB7I	CCANNNNNTGG	1 cut(s)	582
AciI	CCGC	2 cut(s)	192, 590
AclWI	GGATC	1 cut(s)	422
AcsI	RAATTY	2 cut(s)	92, 329
AfaI	GTAC	2 cut(s)	271, 701
AfiI	CCNNNNNNNGG	2 cut(s)	391, 582
AgsI	TTSAA	3 cut(s)	329, 517, 670
AjnI	CCWGG	1 cut(s)	522
AloI	GAACNNNNNNTCC	2 cut(s)	512, 544
AluBI	AGCT	1 cut(s)	157
AluI	AGCT	1 cut(s)	157
Alw21I	GWGCWC	1 cut(s)	68
Alw26I	GTCTC	1 cut(s)	584
AlwI	GGATC	1 cut(s)	422
AlwNI	CAGNNNCTG	1 cut(s)	582
ApeKI	GCWGC	3 cut(s)	154, 406, 650
ApoI	RAATTY	2 cut(s)	92, 329
Asp700I	GAANNNNTTC	1 cut(s)	791
AspA2I	CCTAGG	1 cut(s)	799
AspS9I	GGNCC	1 cut(s)	122
AvaII	GGWCC	1 cut(s)	122
AvrII	CCTAGG	1 cut(s)	799
BbsI	GAAGAC	1 cut(s)	475
Bbv12I	GWGCWC	1 cut(s)	68
BbvI	GCAGC	3 cut(s)	166, 418, 637
BccI	CCATC	1 cut(s)	488
BciT130I	CCWGG	1 cut(s)	524
BcoDI	GTCTC	1 cut(s)	584
BfaI	CTAG	2 cut(s)	800, 838
BisI	GCNGC	3 cut(s)	155, 407, 651
BlnI	CCTAGG	1 cut(s)	799
BlsI	GCNGC	3 cut(s)	156, 408, 652
Bme1390I	CCNGG	1 cut(s)	524
Bme18I	GGWCC	1 cut(s)	122
BmgT120I	GGNCC	1 cut(s)	122
BmiI	GGNNCC	2 cut(s)	123, 190
BmrFI	CCNGG	1 cut(s)	524
BmrI	ACTGGG	1 cut(s)	607
BmsI	GCATC	1 cut(s)	662
BmuI	ACTGGG	1 cut(s)	607
BpiI	GAAGAC	1 cut(s)	475
BpmI	CTGGAG	3 cut(s)	545, 559, 638
BpuEI	CTTGAG	1 cut(s)	621
BsaJI	CCNNGG	4 cut(s)	72, 385, 688, 799
BsaWI	WCCGGW	1 cut(s)	124
Bsc4I	CCNNNNNNNGG	2 cut(s)	391, 582
Bse118I	RCCGGY	1 cut(s)	266
Bse1I	ACTGG	5 cut(s)	352, 576, 602, 621, 707
BseBI	CCWGG	1 cut(s)	524
BseDI	CCNNGG	4 cut(s)	72, 385, 688, 799
BseGI	GGATG	1 cut(s)	499
BseLI	CCNNNNNNNGG	2 cut(s)	391, 582
BseNI	ACTGG	5 cut(s)	352, 576, 602, 621, 707
BseXI	GCAGC	3 cut(s)	166, 418, 637
BsgI	GTGCAG	1 cut(s)	760
BsiHKAI	GWGCWC	1 cut(s)	68
BsiSI	CCGG	3 cut(s)	125, 255, 267
BslFI	GGGAC	1 cut(s)	135
BslI	CCNNNNNNNGG	2 cut(s)	391, 582
BsmAI	GTCTC	1 cut(s)	584
BsmFI	GGGAC	1 cut(s)	135
BsmI	GAATGC	4 cut(s)	136, 498, 537, 592
Bsp1286I	GDGCHC	1 cut(s)	68
Bsp143I	GATC	2 cut(s)	427, 762
Bsp19I	CCATGG	2 cut(s)	72, 688
BspACI	CCGC	2 cut(s)	192, 590
BspHI	TCATGA	2 cut(s)	57, 310
BspLI	GGNNCC	2 cut(s)	123, 190
BspPI	GGATC	1 cut(s)	422
BsrFI	RCCGGY	1 cut(s)	266
BsrI	ACTGG	5 cut(s)	352, 576, 602, 621, 707
BssAI	RCCGGY	1 cut(s)	266
BssECI	CCNNGG	4 cut(s)	72, 385, 688, 799
BssMI	GATC	2 cut(s)	427, 762
BssT1I	CCWWGG	4 cut(s)	72, 385, 688, 799
Bst2UI	CCWGG	1 cut(s)	524
Bst4CI	ACNGT	2 cut(s)	274, 513
Bst6I	CTCTTC	1 cut(s)	59
BstAPI	GCANNNNNTGC	1 cut(s)	647
BstDSI	CCRYGG	2 cut(s)	72, 688
BstF5I	GGATG	1 cut(s)	499
BstKTI	GATC	2 cut(s)	430, 765
BstMAI	GTCTC	1 cut(s)	584
BstMBI	GATC	2 cut(s)	427, 762
BstMWI	GCNNNNNNNGC	1 cut(s)	647
BstNI	CCWGG	1 cut(s)	524
BstNSI	RCATGY	1 cut(s)	238
BstSCI	CCNGG	1 cut(s)	522
BstV1I	GCAGC	3 cut(s)	166, 418, 637
BstV2I	GAAGAC	1 cut(s)	475
BtgI	CCRYGG	2 cut(s)	72, 688
BtsCI	GGATG	1 cut(s)	499
BtsIMutI	CAGTG	1 cut(s)	190
CaiI	CAGNNNCTG	1 cut(s)	582
CciI	TCATGA	2 cut(s)	57, 310
Cfr10I	RCCGGY	1 cut(s)	266
Cfr13I	GGNCC	1 cut(s)	122
Csp6I	GTAC	2 cut(s)	270, 700
CviAII	CATG	7 cut(s)	58, 73, 117, 235, 311, 689, 696
CviJI	RGCY	6 cut(s)	38, 157, 189, 355, 559, 602
CviKI_1	RGCY	6 cut(s)	38, 157, 189, 355, 559, 602
CviQI	GTAC	2 cut(s)	270, 700
DpnI	GATC	2 cut(s)	429, 764
DpnII	GATC	2 cut(s)	427, 762
DrdI	GACNNNNNNGTC	1 cut(s)	832
DseDI	GACNNNNNNGTC	1 cut(s)	832
Eam1104I	CTCTTC	1 cut(s)	59
EarI	CTCTTC	1 cut(s)	59
Eco130I	CCWWGG	4 cut(s)	72, 385, 688, 799
Eco47I	GGWCC	1 cut(s)	122
EcoRI	GAATTC	1 cut(s)	329
EcoRII	CCWGG	1 cut(s)	522
EcoT14I	CCWWGG	4 cut(s)	72, 385, 688, 799
ErhI	CCWWGG	4 cut(s)	72, 385, 688, 799
FaeI	CATG	7 cut(s)	61, 76, 120, 238, 314, 692, 699
FaqI	GGGAC	1 cut(s)	135
FatI	CATG	7 cut(s)	57, 72, 116, 234, 310, 688, 695
Fnu4HI	GCNGC	3 cut(s)	155, 407, 651
FokI	GGATG	1 cut(s)	506
Fsp4HI	GCNGC	3 cut(s)	155, 407, 651
FspBI	CTAG	2 cut(s)	800, 838
GluI	GCNGC	3 cut(s)	155, 407, 651
GsuI	CTGGAG	3 cut(s)	545, 559, 638
HapII	CCGG	3 cut(s)	125, 255, 267
Hin1II	CATG	7 cut(s)	61, 76, 120, 238, 314, 692, 699
HinfI	GANTC	8 cut(s)	163, 200, 466, 527, 634, 683, 782, 792
HpaII	CCGG	3 cut(s)	125, 255, 267
Hpy166II	GTNNAC	1 cut(s)	614
Hpy188I	TCNGA	1 cut(s)	682
Hpy188III	TCNNGA	6 cut(s)	58, 160, 311, 517, 583, 812
Hpy8I	GTNNAC	1 cut(s)	614
HpyAV	CCTTC	1 cut(s)	703
HpyCH4III	ACNGT	2 cut(s)	274, 513
HpyCH4V	TGCA	4 cut(s)	238, 653, 748, 777
HpyF10VI	GCNNNNNNNGC	1 cut(s)	647
Hsp92II	CATG	7 cut(s)	61, 76, 120, 238, 314, 692, 699
Kzo9I	GATC	2 cut(s)	427, 762
LmnI	GCTCC	3 cut(s)	194, 692, 814
Lsp1109I	GCAGC	3 cut(s)	166, 418, 637
LweI	GCATC	1 cut(s)	662
MaeI	CTAG	2 cut(s)	800, 838
MaeIII	GTNAC	2 cut(s)	274, 343
MalI	GATC	2 cut(s)	429, 764
MboI	GATC	2 cut(s)	427, 762
MboII	GAAGA	6 cut(s)	12, 15, 46, 356, 475, 718
MhlI	GDGCHC	1 cut(s)	68
MluCI	AATT	4 cut(s)	92, 329, 410, 676
MlyI	GAGTC	5 cut(s)	157, 209, 536, 628, 776
MnlI	CCTC	5 cut(s)	62, 182, 304, 558, 602
MroXI	GAANNNNTTC	1 cut(s)	791
MslI	CAYNNNNRTG	3 cut(s)	71, 312, 372
MspI	CCGG	3 cut(s)	125, 255, 267
MspR9I	CCNGG	1 cut(s)	524
Mva1269I	GAATGC	4 cut(s)	136, 498, 537, 592
MvaI	CCWGG	1 cut(s)	524
MwoI	GCNNNNNNNGC	1 cut(s)	647
NcoI	CCATGG	2 cut(s)	72, 688
NdeII	GATC	2 cut(s)	427, 762
NlaIII	CATG	7 cut(s)	61, 76, 120, 238, 314, 692, 699
NlaIV	GGNNCC	2 cut(s)	123, 190
NmuCI	GTSAC	1 cut(s)	274
NspI	RCATGY	1 cut(s)	238
PagI	TCATGA	2 cut(s)	57, 310
PctI	GAATGC	4 cut(s)	136, 498, 537, 592
PdmI	GAANNNNTTC	1 cut(s)	791
PfeI	GAWTC	3 cut(s)	466, 683, 792
PflMI	CCANNNNNTGG	1 cut(s)	582
PkrI	GCNGC	3 cut(s)	156, 408, 652
PleI	GAGTC	5 cut(s)	157, 208, 535, 628, 776
PpsI	GAGTC	5 cut(s)	157, 208, 535, 628, 776
Psp6I	CCWGG	1 cut(s)	522
PspGI	CCWGG	1 cut(s)	522
PspN4I	GGNNCC	2 cut(s)	123, 190
PspPI	GGNCC	1 cut(s)	122
PstNI	CAGNNNCTG	1 cut(s)	582
RsaI	GTAC	2 cut(s)	271, 701
RsaNI	GTAC	2 cut(s)	270, 700
RseI	CAYNNNNRTG	3 cut(s)	71, 312, 372
SatI	GCNGC	3 cut(s)	155, 407, 651
Sau3AI	GATC	2 cut(s)	427, 762
Sau96I	GGNCC	1 cut(s)	122
SchI	GAGTC	5 cut(s)	157, 209, 536, 628, 776
ScrFI	CCNGG	1 cut(s)	524
SduI	GDGCHC	1 cut(s)	68
SetI	ASST	6 cut(s)	159, 420, 525, 569, 613, 714
SfaNI	GCATC	1 cut(s)	662
SinI	GGWCC	1 cut(s)	122
SmiMI	CAYNNNNRTG	3 cut(s)	71, 312, 372
SmlI	CTYRAG	1 cut(s)	636
SmoI	CTYRAG	1 cut(s)	636
Sse9I	AATT	4 cut(s)	92, 329, 410, 676
SsiI	CCGC	2 cut(s)	192, 590
SspMI	CTAG	2 cut(s)	800, 838
StyD4I	CCNGG	1 cut(s)	522
StyI	CCWWGG	4 cut(s)	72, 385, 688, 799
TaaI	ACNGT	2 cut(s)	274, 513
TaqI	TCGA	2 cut(s)	144, 785
TasI	AATT	4 cut(s)	92, 329, 410, 676
TfiI	GAWTC	3 cut(s)	466, 683, 792
TscAI	CASTG	1 cut(s)	190
TseFI	GTSAC	1 cut(s)	274
TseI	GCWGC	3 cut(s)	154, 406, 650
Tsp45I	GTSAC	1 cut(s)	274
TspDTI	ATGAA	2 cut(s)	46, 356
TspRI	CASTG	1 cut(s)	190
Van91I	CCANNNNNTGG	1 cut(s)	582
VpaK11BI	GGWCC	1 cut(s)	122
XapI	RAATTY	2 cut(s)	92, 329
XceI	RCATGY	1 cut(s)	238
XmaJI	CCTAGG	1 cut(s)	799
XmnI	GAANNNNTTC	1 cut(s)	791
XspI	CTAG	2 cut(s)	800, 838

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