Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0013190

Physical Location & Seq

Genomic Coordinates Forward (+)

19170494 .. 19171834

Gene Structure 1341 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0121000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGGCTTCTTCAACTTCAATGCTTCTGTTCGTTCCATTTCTGCTAGTTAGCTCTGTTATGGTTGCTTCTGCTGGTAACTTCAACCAAGACTTTCAGATTACATGGGGAGACGGTCGAGCCAACATACTCAACGACGGCCAACTTCTTACTCTCTCCCTCGACAAAGCCTCTGGCTCTGGTTTCGAATCCAAAAACGAATACCTCTTCGGCAAGATTGACATGCAGCTCAAGCTTGTCGCCGGAAACTCTGCCGGCACCGTCACAGCCTACTATTTAAAATCAGAAGGGTCTACATGGGATGAGATAGACTTTGAGTTCTTGGGAAACCTGAGTGGTAACCCTTACACTCTTCACACAAATGTCTTCAGCCAAGGCAAAGGAAACAGAGAGCAGCAATTCCATCTCTGGTTCGACCCAACTGCTGATTTCCACACCTATTCCATTCTCTGGAATCCACAGCGCATTGTTTTCTCTGTTGATGGTACTCCCATTAGAGAGTTCAAGAACCAAGAATCAAATGGTGTTCCATTCCCAAAGAGCCAAGCAATGAGAATACACTCGAGCCTCTGGAATGCTGATGATTGGGCAACAATGGGAGGACGTGTAAAGACGGATTGGAATGCAGCTCCGTTCACTGCCTCTTACAGGAATTTCAATGCTGAAGCATGCATTTGGGCTTCTGGATCATCTTCTTGCGGTTCAAGCAGTGCCCCTGCTTCGACTAATGGAGATTGGCTTTCGCAAGAATTGGACAGTGCTAGTTATGAAAAGTTGAGTTGGGTGCAGAAAAACTACTTGATCTACAATTACTGTACAGATGTCAACAGATTCCCTCAAGGTCTCCCCGTTGAATGCAGCACTTCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000741 GO:0003674 GO:0003824 GO:0004372 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005886 GO:0005911 GO:0006730 GO:0006996 GO:0006997 GO:0007275 GO:0007623 GO:0008150 GO:0008152 GO:0009506 GO:0009553 GO:0009555 GO:0009559 GO:0009561 GO:0009987 GO:0010035 GO:0010038 GO:0010197 GO:0016020 GO:0016043 GO:0016740 GO:0016741 GO:0016742 GO:0030054 GO:0030154 GO:0032501 GO:0032502 GO:0042221 GO:0044237 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046686 GO:0048229 GO:0048284 GO:0048511 GO:0048856 GO:0048869 GO:0050896 GO:0055044 GO:0071840 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00260 ko00460 ko00630 ko00670 ko00680 ko01100 ko01110 ko01120 ko01130 ko01200 ko01230 ko01523 map00260 map00460 map00630 map00670 map00680 map01100 map01110 map01120 map01130 map01200 map01230 map01523

Pfam Domains

Protein Families

SHMT

Protein Analysis

288

Amino Acids

31.93

Weight (kDa)

4.89

Isoelectric Point (pI)

30.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_16	PF00722	27 - 207	1e-67	Glycosyl hydrolases family 16
XET_C	PF06955	241 - 285	1.3e-18	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: OG0013190)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G13890 AT4G13890 AT4G13930
fragaria_vesca	FvH4_4g13290 FvH4_4g13290
malus_domestica	MD05G1230200.v1.1
prunus_persica	Prupe.1G165100_v2.0.a1
pyrus_communis	pycom04g01360 pycom420g00990
rosa_chinensis	RchiOBHm_Chr4g0413581
rosa_laevigata	RLG00000008211
rosa_multiflora	Rmu_sc0008298.1_g000001
rosa_roxburghii	Rroxscaffold_5G00357460
rosa_rugosa	Rorug04G0121000
rosa_samantha	Rh4AG180800 Rh4BG180000 Rh4CG191900
rosa_wichuraiana	Rw4G015100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	254
AccB7I	CCANNNNNTGG	1 cut(s)	447
AccI	GTMKAC	1 cut(s)	290
AciI	CCGC	1 cut(s)	696
AclWI	GGATC	1 cut(s)	691
AcoI	YGGCCR	1 cut(s)	136
AcsI	RAATTY	1 cut(s)	649
AcuI	CTGAAG	2 cut(s)	349, 681
AfaI	GTAC	2 cut(s)	484, 814
AfiI	CCNNNNNNNGG	2 cut(s)	447, 645
AflIII	ACRYGT	1 cut(s)	601
AgsI	TTSAA	7 cut(s)	12, 18, 82, 502, 655, 702, 851
AjiI	CACGTC	1 cut(s)	602
AluBI	AGCT	4 cut(s)	51, 226, 232, 626
AluI	AGCT	4 cut(s)	51, 226, 232, 626
Alw26I	GTCTC	2 cut(s)	102, 845
AlwI	GGATC	1 cut(s)	691
Ama87I	CYCGRG	1 cut(s)	559
AoxI	GGCC	1 cut(s)	136
ApeKI	GCWGC	4 cut(s)	223, 391, 623, 855
ApoI	RAATTY	1 cut(s)	649
AspLEI	GCGC	1 cut(s)	462
AsuII	TTCGAA	1 cut(s)	183
AvaI	CYCGRG	1 cut(s)	559
BaeGI	GKGCMC	1 cut(s)	712
BanI	GGYRCC	1 cut(s)	254
BbsI	GAAGAC	1 cut(s)	355
BbvI	GCAGC	3 cut(s)	235, 403, 635
BccI	CCATC	2 cut(s)	408, 473
BceAI	ACGGC	1 cut(s)	151
BcgI	CGANNNNNNTGC	2 cut(s)	401, 435
BcoDI	GTCTC	2 cut(s)	102, 845
BfaI	CTAG	2 cut(s)	44, 759
BisI	GCNGC	4 cut(s)	224, 392, 624, 856
BlsI	GCNGC	4 cut(s)	225, 393, 625, 857
BmeT110I	CYCGRG	1 cut(s)	559
BmgBI	CACGTC	1 cut(s)	602
BmiI	GGNNCC	1 cut(s)	256
BpiI	GAAGAC	1 cut(s)	355
Bpu14I	TTCGAA	1 cut(s)	183
BpuEI	CTTGAG	2 cut(s)	212, 819
BsaI	GGTCTC	1 cut(s)	845
BsaJI	CCNNGG	1 cut(s)	370
BsaXI	ACNNNNNCTCC	2 cut(s)	588, 618
Bsc4I	CCNNNNNNNGG	2 cut(s)	447, 645
Bse118I	RCCGGY	1 cut(s)	251
Bse3DI	GCAATG	1 cut(s)	552
BseDI	CCNNGG	1 cut(s)	370
BseGI	GGATG	1 cut(s)	304
BseLI	CCNNNNNNNGG	2 cut(s)	447, 645
BseMI	GCAATG	1 cut(s)	552
BseMII	CTCAG	1 cut(s)	320
BseSI	GKGCMC	1 cut(s)	712
BseXI	GCAGC	3 cut(s)	235, 403, 635
BsgI	GTGCAG	1 cut(s)	803
Bsh1285I	CGRYCG	1 cut(s)	115
BshFI	GGCC	1 cut(s)	138
BshNI	GGYRCC	1 cut(s)	254
BsiEI	CGRYCG	1 cut(s)	115
BsiHKCI	CYCGRG	1 cut(s)	559
BsiSI	CCGG	2 cut(s)	240, 252
BslI	CCNNNNNNNGG	2 cut(s)	447, 645
BsmAI	GTCTC	2 cut(s)	102, 845
BsmBI	CGTCTC	1 cut(s)	102
BsmI	GAATGC	3 cut(s)	577, 625, 857
BsnI	GGCC	1 cut(s)	138
Bso31I	GGTCTC	1 cut(s)	845
BsoBI	CYCGRG	1 cut(s)	559
Bsp119I	TTCGAA	1 cut(s)	183
Bsp1286I	GDGCHC	1 cut(s)	712
Bsp1407I	TGTACA	1 cut(s)	812
Bsp143I	GATC	2 cut(s)	683, 798
BspACI	CCGC	1 cut(s)	696
BspANI	GGCC	1 cut(s)	138
BspCNI	CTCAG	1 cut(s)	321
BspLI	GGNNCC	1 cut(s)	256
BspPI	GGATC	1 cut(s)	691
BspT104I	TTCGAA	1 cut(s)	183
BspT107I	GGYRCC	1 cut(s)	254
BspTNI	GGTCTC	1 cut(s)	845
BsrDI	GCAATG	1 cut(s)	552
BsrFI	RCCGGY	1 cut(s)	251
BsrGI	TGTACA	1 cut(s)	812
BssAI	RCCGGY	1 cut(s)	251
BssECI	CCNNGG	1 cut(s)	370
BssMI	GATC	2 cut(s)	683, 798
BssT1I	CCWWGG	1 cut(s)	370
Bst4CI	ACNGT	4 cut(s)	113, 259, 755, 812
Bst6I	CTCTTC	2 cut(s)	209, 354
BstAUI	TGTACA	1 cut(s)	812
BstBI	TTCGAA	1 cut(s)	183
BstC8I	GCNNGC	2 cut(s)	253, 667
BstDEI	CTNAG	1 cut(s)	329
BstEII	GGTNACC	1 cut(s)	335
BstENI	CCTNNNNNAGG	1 cut(s)	643
BstF5I	GGATG	1 cut(s)	304
BstHHI	GCGC	1 cut(s)	462
BstKTI	GATC	2 cut(s)	686, 801
BstMAI	GTCTC	2 cut(s)	102, 845
BstMBI	GATC	2 cut(s)	683, 798
BstMCI	CGRYCG	1 cut(s)	115
BstMWI	GCNNNNNNNGC	2 cut(s)	229, 702
BstNSI	RCATGY	2 cut(s)	223, 669
BstPI	GGTNACC	1 cut(s)	335
BstSLI	GKGCMC	1 cut(s)	712
BstV1I	GCAGC	3 cut(s)	235, 403, 635
BstV2I	GAAGAC	1 cut(s)	355
BsuRI	GGCC	1 cut(s)	138
BtrI	CACGTC	1 cut(s)	602
BtsCI	GGATG	1 cut(s)	304
BtsI	GCAGTG	2 cut(s)	633, 712
BtsIMutI	CAGTG	3 cut(s)	633, 712, 760
Cac8I	GCNNGC	2 cut(s)	253, 667
CfoI	GCGC	1 cut(s)	462
Cfr10I	RCCGGY	1 cut(s)	251
Csp6I	GTAC	2 cut(s)	483, 813
CviAII	CATG	4 cut(s)	102, 220, 294, 666
CviQI	GTAC	2 cut(s)	483, 813
DdeI	CTNAG	1 cut(s)	329
DpnI	GATC	2 cut(s)	685, 800
DpnII	GATC	2 cut(s)	683, 798
DraI	TTTAAA	1 cut(s)	276
EaeI	YGGCCR	1 cut(s)	136
Eam1104I	CTCTTC	2 cut(s)	209, 354
EarI	CTCTTC	2 cut(s)	209, 354
Eco130I	CCWWGG	1 cut(s)	370
Eco31I	GGTCTC	1 cut(s)	845
Eco57I	CTGAAG	2 cut(s)	349, 681
Eco88I	CYCGRG	1 cut(s)	559
Eco91I	GGTNACC	1 cut(s)	335
EcoNI	CCTNNNNNAGG	1 cut(s)	643
EcoO65I	GGTNACC	1 cut(s)	335
EcoT14I	CCWWGG	1 cut(s)	370
EcoT22I	ATGCAT	1 cut(s)	671
ErhI	CCWWGG	1 cut(s)	370
Esp3I	CGTCTC	1 cut(s)	102
FaeI	CATG	4 cut(s)	105, 223, 297, 669
FaiI	YATR	8 cut(s)	59, 103, 125, 221, 295, 667, 765, 865
FatI	CATG	4 cut(s)	101, 219, 293, 665
FblI	GTMKAC	1 cut(s)	290
Fnu4HI	GCNGC	4 cut(s)	224, 392, 624, 856
FokI	GGATG	1 cut(s)	311
Fsp4HI	GCNGC	4 cut(s)	224, 392, 624, 856
FspBI	CTAG	2 cut(s)	44, 759
GlaI	GCGC	1 cut(s)	461
GluI	GCNGC	4 cut(s)	224, 392, 624, 856
HaeIII	GGCC	1 cut(s)	138
HapII	CCGG	2 cut(s)	240, 252
HhaI	GCGC	1 cut(s)	462
Hin1II	CATG	4 cut(s)	105, 223, 297, 669
Hin6I	GCGC	1 cut(s)	460
HinP1I	GCGC	1 cut(s)	460
HincII	GTYRAC	1 cut(s)	823
HindII	GTYRAC	1 cut(s)	823
HindIII	AAGCTT	1 cut(s)	230
HinfI	GANTC	4 cut(s)	185, 451, 512, 828
HpaII	CCGG	2 cut(s)	240, 252
Hpy166II	GTNNAC	3 cut(s)	291, 633, 823
Hpy188I	TCNGA	2 cut(s)	96, 283
Hpy188III	TCNNGA	4 cut(s)	448, 502, 568, 681
Hpy8I	GTNNAC	3 cut(s)	291, 633, 823
Hpy99I	CGWCG	1 cut(s)	137
HpyAV	CCTTC	1 cut(s)	278
HpyCH4III	ACNGT	4 cut(s)	113, 259, 755, 812
HpyCH4IV	ACGT	1 cut(s)	601
HpyCH4V	TGCA	5 cut(s)	223, 623, 669, 784, 855
HpyF10VI	GCNNNNNNNGC	2 cut(s)	229, 702
HpyF3I	CTNAG	1 cut(s)	329
HpySE526I	ACGT	1 cut(s)	601
Hsp92II	CATG	4 cut(s)	105, 223, 297, 669
HspAI	GCGC	1 cut(s)	460
KroI	GCCGGC	1 cut(s)	251
KroNI	GCCGGC	1 cut(s)	253
Kzo9I	GATC	2 cut(s)	683, 798
LmnI	GCTCC	1 cut(s)	631
Lsp1109I	GCAGC	3 cut(s)	235, 403, 635
MaeI	CTAG	2 cut(s)	44, 759
MaeII	ACGT	1 cut(s)	601
MaeIII	GTNAC	3 cut(s)	74, 259, 335
MalI	GATC	2 cut(s)	685, 800
MboI	GATC	2 cut(s)	683, 798
MboII	GAAGA	4 cut(s)	196, 341, 355, 681
MhlI	GDGCHC	1 cut(s)	712
MluCI	AATT	4 cut(s)	395, 649, 746, 805
MnlI	CCTC	7 cut(s)	167, 178, 212, 575, 590, 649, 843
Mph1103I	ATGCAT	1 cut(s)	671
MroNI	GCCGGC	1 cut(s)	251
MseI	TTAA	1 cut(s)	275
MslI	CAYNNNNRTG	1 cut(s)	357
MspI	CCGG	2 cut(s)	240, 252
Mva1269I	GAATGC	3 cut(s)	577, 625, 857
MwoI	GCNNNNNNNGC	2 cut(s)	229, 702
NaeI	GCCGGC	1 cut(s)	253
NdeII	GATC	2 cut(s)	683, 798
NgoMIV	GCCGGC	1 cut(s)	251
NlaIII	CATG	4 cut(s)	105, 223, 297, 669
NlaIV	GGNNCC	1 cut(s)	256
NmuCI	GTSAC	1 cut(s)	259
NsiI	ATGCAT	1 cut(s)	671
NspI	RCATGY	2 cut(s)	223, 669
NspV	TTCGAA	1 cut(s)	183
PaeI	GCATGC	1 cut(s)	669
PaeR7I	CTCGAG	1 cut(s)	559
PctI	GAATGC	3 cut(s)	577, 625, 857
PdiI	GCCGGC	1 cut(s)	253
PfeI	GAWTC	4 cut(s)	185, 451, 512, 828
PflMI	CCANNNNNTGG	1 cut(s)	447
PkrI	GCNGC	4 cut(s)	225, 393, 625, 857
PspEI	GGTNACC	1 cut(s)	335
PspN4I	GGNNCC	1 cut(s)	256
PspXI	VCTCGAGB	1 cut(s)	559
RsaI	GTAC	2 cut(s)	484, 814
RsaNI	GTAC	2 cut(s)	483, 813
RseI	CAYNNNNRTG	1 cut(s)	357
SaqAI	TTAA	1 cut(s)	275
SatI	GCNGC	4 cut(s)	224, 392, 624, 856
Sau3AI	GATC	2 cut(s)	683, 798
SduI	GDGCHC	1 cut(s)	712
SetI	ASST	9 cut(s)	53, 204, 228, 234, 330, 437, 604, 628, 841
Sfr274I	CTCGAG	1 cut(s)	559
SfuI	TTCGAA	1 cut(s)	183
SlaI	CTCGAG	1 cut(s)	559
SmiMI	CAYNNNNRTG	1 cut(s)	357
SmlI	CTYRAG	3 cut(s)	227, 559, 834
SmoI	CTYRAG	3 cut(s)	227, 559, 834
SphI	GCATGC	1 cut(s)	669
Sse9I	AATT	4 cut(s)	395, 649, 746, 805
SsiI	CCGC	1 cut(s)	696
SspMI	CTAG	2 cut(s)	44, 759
StyI	CCWWGG	1 cut(s)	370
TaaI	ACNGT	4 cut(s)	113, 259, 755, 812
TaiI	ACGT	1 cut(s)	604
TaqI	TCGA	6 cut(s)	115, 159, 183, 411, 560, 719
TasI	AATT	4 cut(s)	395, 649, 746, 805
TatI	WGTACW	1 cut(s)	812
TfiI	GAWTC	4 cut(s)	185, 451, 512, 828
Tru1I	TTAA	1 cut(s)	275
Tru9I	TTAA	1 cut(s)	275
TscAI	CASTG	3 cut(s)	640, 712, 760
TseFI	GTSAC	1 cut(s)	259
TseI	GCWGC	4 cut(s)	223, 391, 623, 855
Tsp45I	GTSAC	1 cut(s)	259
TspDTI	ATGAA	2 cut(s)	780, 852
TspGWI	ACGGA	2 cut(s)	618, 626
TspRI	CASTG	3 cut(s)	640, 712, 760
Van91I	CCANNNNNTGG	1 cut(s)	447
XagI	CCTNNNNNAGG	1 cut(s)	643
XapI	RAATTY	1 cut(s)	649
XceI	RCATGY	2 cut(s)	223, 669
XcmI	CCANNNNNNNNNTGG	1 cut(s)	515
XhoI	CTCGAG	1 cut(s)	559
XmiI	GTMKAC	1 cut(s)	290
XspI	CTAG	2 cut(s)	44, 759
Zsp2I	ATGCAT	1 cut(s)	671

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