Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0003420

Physical Location & Seq

Genomic Coordinates Reverse (-)

3358578 .. 3361148

Gene Structure 2571 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G001840.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGGGAAGTAGATACGGTGAGTACACTTATGAGAACCTGGAGAGGGAACCGTACTGGCCTTCTGAGAAGCTTCATATTTCTGTAACGGGGGCTGGTGGTTTCATTGCTTCACACATTGCCAGGCGACTGAAGAGTGAGGGTCATTACATTATTGCTTCCGACTGGAAGAAAAATGAGCACATGACTGAGGACATGTTCTGTAACGAGTTCCATCTGGTTGATCTTAGAGTGATGGATAACTGTTTGAAGGTTACTGCTGGTGTTAACCATGTTTTCAACCTTGCTGCTGACATGGGAGGTATGGGGTTCATTCAGTCCAACCATTCCGTCATTATGTATAACAACACAATGATCAGCTTTAATATGCTCGAGGCAGCAAGGATCAATGGAGCTAAGAGGTTCTTTTATGCTTCTAGTGCTTGCATTTACCCTGAATTCAAACAGTTGGATACTAATGTGAGCTTGAAGGAGTCTGATGCTTGGCCTGCAGAGCCTCAAGACGCCTATGGCTTGGAGAAGCTCATGACTGAAGAATTATGCAAGCACTTTAATAAGGATTTCAGTATTGAATGTCGGATTGGACGGTTTCACAACATTTATGGACCCTTCGGCACTTGGAAAGGTGGTAGAGAGAAGGCCCCTGCTGCTTTTTGTAGAAAAACCCTTACTTCCACTGATAGGTTTGAGATGTGGGGAGACGGGCTACAGACTCAGTCTTTCACCTTCATTGATGAATGTGTAGAAGGTGTCCTGAGATTGACAAAGTCTGACTTCCGGGATCCGGTAAATATTGGAAGTGATGAGATGGTTAGCATGAATGAGATGGCTGAAATGGTCCTAAGCATTGAGAACAAGAAGCTTCCCATCCACCATATTCCTGGCCCTGAGGGTGTTCGTGGTCGAAACTCAGACAACACTTTGATTAAGGAGAAGCTTGGATGGGCCCCTACTATGAAATTGAAGGATGGGCTGAGGATAACATACTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00053 ko00520 ko01100 ko01110 map00053 map00520 map01100 map01110

Pfam Domains

Protein Families

Epimerase

Protein Analysis

329

Amino Acids

37.53

Weight (kDa)

6.02

Isoelectric Point (pI)

42.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	26 - 265	2.1e-41	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	28 - 326	5.4e-24	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	28 - 185	3.4e-10	3-beta hydroxysteroid dehydrogenase/isomerase family

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: OG0003420)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28840 AT5G28840
fragaria_vesca	FvH4_6g02980
malus_domestica	MD04G1224100.v1.1 MD04G1224200.v1.1 MD12G1240900.v1.1
prunus_persica	Prupe.1G025100_v2.0.a1 Prupe.1G025100_v2.0.a1 Prupe.6G342800_v2.0.a1
pyrus_communis	pycom04g19750
rosa_chinensis	RchiOBHm_Chr3g0451161 RchiOBHm_Chr4g0388911
rosa_laevigata	RLG00000010008 RLG00000010011 RLG00000025681 RLG00000025682
rosa_multiflora	Rmu_co8299443.1_g000001 Rmu_sc0005486.1_g000010 Rmu_ssc0000028.1_g000003
rosa_roxburghii	Rroxscaffold_5G00335220 Rroxscaffold_6G00428630
rosa_rugosa	Rorug02G0632400 Rorug02G0632500 Rorug03G0321000 Rorug03G0321000 Rorug03G0321100
rosa_samantha	Rh3AG034900 Rh3BG035300 Rh3CG033800 Rh3CG033900 Rh3DG034900 Rh4BG018800 Rh4CG028600 Rh4DG019300
rosa_wichuraiana	Rw3G002560 Rw4G001840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	389, 773, 786
AcsI	RAATTY	1 cut(s)	434
AcuI	CTGAAG	2 cut(s)	149, 549
AcyI	GRCGYC	1 cut(s)	501
AfaI	GTAC	2 cut(s)	23, 53
AfiI	CCNNNNNNNGG	3 cut(s)	43, 678, 781
AflIII	ACRYGT	1 cut(s)	192
AgsI	TTSAA	6 cut(s)	247, 277, 439, 466, 569, 961
AjnI	CCWGG	3 cut(s)	36, 119, 877
AjuI	GAANNNNNNNTTGG	2 cut(s)	561, 593
AluBI	AGCT	7 cut(s)	70, 357, 392, 462, 520, 859, 934
AluI	AGCT	7 cut(s)	70, 357, 392, 462, 520, 859, 934
Alw21I	GWGCWC	1 cut(s)	180
Alw26I	GTCTC	1 cut(s)	690
AlwI	GGATC	3 cut(s)	389, 773, 786
Ama87I	CYCGRG	1 cut(s)	368
AoxI	GGCC	5 cut(s)	56, 482, 636, 880, 942
ApaI	GGGCCC	1 cut(s)	946
ApeKI	GCWGC	3 cut(s)	284, 374, 644
ApoI	RAATTY	1 cut(s)	434
AspS9I	GGNCC	6 cut(s)	602, 637, 835, 881, 942, 943
AsuC2I	CCSGG	1 cut(s)	776
AsuHPI	GGTGA	2 cut(s)	29, 712
AvaI	CYCGRG	1 cut(s)	368
AvaII	GGWCC	2 cut(s)	602, 835
AxyI	CCTNAGG	1 cut(s)	885
BaeGI	GKGCMC	1 cut(s)	946
BaeI	ACNNNNGTAYC	2 cut(s)	441, 474
BamHI	GGATCC	1 cut(s)	778
BanII	GRGCYC	1 cut(s)	946
Bbv12I	GWGCWC	1 cut(s)	180
BbvCI	CCTCAGC	1 cut(s)	971
BbvI	GCAGC	3 cut(s)	271, 386, 631
BccI	CCATC	7 cut(s)	219, 226, 799, 817, 872, 933, 959
BciT130I	CCWGG	3 cut(s)	38, 121, 879
BciVI	GTATCC	1 cut(s)	442
BclI	TGATCA	1 cut(s)	351
BcnI	CCSGG	1 cut(s)	776
BcoDI	GTCTC	1 cut(s)	690
BfaI	CTAG	1 cut(s)	414
BfmI	CTRYAG	2 cut(s)	486, 704
BfuI	GTATCC	1 cut(s)	442
BisI	GCNGC	3 cut(s)	285, 375, 645
BlsI	GCNGC	3 cut(s)	286, 376, 646
Bme1390I	CCNGG	4 cut(s)	38, 121, 776, 879
Bme18I	GGWCC	2 cut(s)	602, 835
BmeT110I	CYCGRG	1 cut(s)	368
BmgT120I	GGNCC	6 cut(s)	602, 637, 835, 881, 942, 943
BmiI	GGNNCC	6 cut(s)	48, 604, 639, 780, 944, 945
BmrFI	CCNGG	4 cut(s)	38, 121, 776, 879
BmsI	GCATC	1 cut(s)	466
BpmI	CTGGAG	1 cut(s)	59
Bpu10I	CCTNAGC	2 cut(s)	839, 971
BpuEI	CTTGAG	1 cut(s)	480
BpuMI	CCSGG	1 cut(s)	776
BsaHI	GRCGYC	1 cut(s)	501
BsaWI	WCCGGW	1 cut(s)	781
Bsc4I	CCNNNNNNNGG	3 cut(s)	43, 678, 781
Bse1I	ACTGG	2 cut(s)	59, 167
Bse21I	CCTNAGG	1 cut(s)	885
Bse3DI	GCAATG	2 cut(s)	102, 114
BseBI	CCWGG	3 cut(s)	38, 121, 879
BseGI	GGATG	3 cut(s)	864, 944, 970
BseLI	CCNNNNNNNGG	3 cut(s)	43, 678, 781
BseMI	GCAATG	2 cut(s)	102, 114
BseMII	CTCAG	7 cut(s)	54, 177, 725, 743, 876, 921, 962
BseNI	ACTGG	2 cut(s)	59, 167
BseSI	GKGCMC	1 cut(s)	946
BseXI	GCAGC	3 cut(s)	271, 386, 631
BshFI	GGCC	5 cut(s)	58, 484, 638, 882, 944
BsiHKAI	GWGCWC	1 cut(s)	180
BsiHKCI	CYCGRG	1 cut(s)	368
BsiSI	CCGG	2 cut(s)	775, 782
BslI	CCNNNNNNNGG	3 cut(s)	43, 678, 781
BsmAI	GTCTC	1 cut(s)	690
BsmBI	CGTCTC	1 cut(s)	690
BsnI	GGCC	5 cut(s)	58, 484, 638, 882, 944
BsoBI	CYCGRG	1 cut(s)	368
Bsp120I	GGGCCC	1 cut(s)	942
Bsp1286I	GDGCHC	2 cut(s)	180, 946
Bsp143I	GATC	4 cut(s)	220, 351, 381, 778
BspANI	GGCC	5 cut(s)	58, 484, 638, 882, 944
BspCNI	CTCAG	7 cut(s)	55, 178, 724, 744, 877, 920, 963
BspHI	TCATGA	1 cut(s)	522
BspLI	GGNNCC	6 cut(s)	48, 604, 639, 780, 944, 945
BspMAI	CTGCAG	1 cut(s)	490
BspPI	GGATC	3 cut(s)	389, 773, 786
BsrDI	GCAATG	2 cut(s)	102, 114
BsrI	ACTGG	2 cut(s)	59, 167
BssMI	GATC	4 cut(s)	220, 351, 381, 778
BssNI	GRCGYC	1 cut(s)	501
Bst2UI	CCWGG	3 cut(s)	38, 121, 879
Bst4CI	ACNGT	5 cut(s)	17, 51, 242, 444, 585
Bst6I	CTCTTC	1 cut(s)	125
BstACI	GRCGYC	1 cut(s)	501
BstC8I	GCNNGC	3 cut(s)	421, 486, 542
BstF5I	GGATG	3 cut(s)	864, 944, 970
BstKTI	GATC	4 cut(s)	223, 354, 384, 781
BstMAI	GTCTC	1 cut(s)	690
BstMBI	GATC	4 cut(s)	220, 351, 381, 778
BstMWI	GCNNNNNNNGC	4 cut(s)	416, 485, 490, 644
BstNI	CCWGG	3 cut(s)	38, 121, 879
BstNSI	RCATGY	1 cut(s)	196
BstSCI	CCNGG	4 cut(s)	36, 119, 774, 877
BstSFI	CTRYAG	2 cut(s)	486, 704
BstSLI	GKGCMC	1 cut(s)	946
BstV1I	GCAGC	3 cut(s)	271, 386, 631
BstX2I	RGATCY	1 cut(s)	778
BstXI	CCANNNNNNTGG	1 cut(s)	878
BstYI	RGATCY	1 cut(s)	778
Bsu36I	CCTNAGG	1 cut(s)	885
BsuI	GTATCC	1 cut(s)	442
BsuRI	GGCC	5 cut(s)	58, 484, 638, 882, 944
BtsCI	GGATG	3 cut(s)	864, 944, 970
BtsIMutI	CAGTG	1 cut(s)	672
Cac8I	GCNNGC	3 cut(s)	421, 486, 542
CciI	TCATGA	1 cut(s)	522
Cfr13I	GGNCC	6 cut(s)	602, 637, 835, 881, 942, 943
CseI	GACGC	1 cut(s)	509
Csp6I	GTAC	2 cut(s)	22, 52
CviAII	CATG	6 cut(s)	181, 193, 269, 292, 523, 814
CviQI	GTAC	2 cut(s)	22, 52
DpnI	GATC	4 cut(s)	222, 353, 383, 780
DpnII	GATC	4 cut(s)	220, 351, 381, 778
Eam1104I	CTCTTC	1 cut(s)	125
EarI	CTCTTC	1 cut(s)	125
Eco24I	GRGCYC	1 cut(s)	946
Eco47I	GGWCC	2 cut(s)	602, 835
Eco57I	CTGAAG	2 cut(s)	149, 549
Eco81I	CCTNAGG	1 cut(s)	885
Eco88I	CYCGRG	1 cut(s)	368
EcoO109I	RGGNCCY	2 cut(s)	637, 943
EcoRI	GAATTC	1 cut(s)	434
EcoRII	CCWGG	3 cut(s)	36, 119, 877
EcoT38I	GRGCYC	1 cut(s)	946
Esp3I	CGTCTC	1 cut(s)	690
FaeI	CATG	6 cut(s)	184, 196, 272, 295, 526, 817
FalI	AAGNNNNNCTT	4 cut(s)	386, 418, 755, 787
FatI	CATG	6 cut(s)	180, 192, 268, 291, 522, 813
FbaI	TGATCA	1 cut(s)	351
Fnu4HI	GCNGC	3 cut(s)	285, 375, 645
FokI	GGATG	3 cut(s)	851, 951, 977
FriOI	GRGCYC	1 cut(s)	946
Fsp4HI	GCNGC	3 cut(s)	285, 375, 645
FspBI	CTAG	1 cut(s)	414
GluI	GCNGC	3 cut(s)	285, 375, 645
GsuI	CTGGAG	1 cut(s)	59
HaeIII	GGCC	5 cut(s)	58, 484, 638, 882, 944
HapII	CCGG	2 cut(s)	775, 782
HgaI	GACGC	1 cut(s)	509
Hin1I	GRCGYC	1 cut(s)	501
Hin1II	CATG	6 cut(s)	184, 196, 272, 295, 526, 817
HincII	GTYRAC	1 cut(s)	265
HindII	GTYRAC	1 cut(s)	265
HindIII	AAGCTT	3 cut(s)	68, 857, 932
HinfI	GANTC	2 cut(s)	470, 709
HpaI	GTTAAC	1 cut(s)	265
HpaII	CCGG	2 cut(s)	775, 782
HphI	GGTGA	2 cut(s)	29, 712
Hpy166II	GTNNAC	2 cut(s)	24, 265
Hpy188I	TCNGA	6 cut(s)	64, 160, 475, 576, 769, 910
Hpy188III	TCNNGA	3 cut(s)	497, 523, 751
Hpy8I	GTNNAC	2 cut(s)	24, 265
HpyAV	CCTTC	8 cut(s)	69, 241, 460, 616, 628, 733, 737, 955
HpyCH4III	ACNGT	5 cut(s)	17, 51, 242, 444, 585
HpyCH4V	TGCA	3 cut(s)	423, 488, 540
HpyF10VI	GCNNNNNNNGC	4 cut(s)	416, 485, 490, 644
Hsp92I	GRCGYC	1 cut(s)	501
Hsp92II	CATG	6 cut(s)	184, 196, 272, 295, 526, 817
Ksp22I	TGATCA	1 cut(s)	351
KspAI	GTTAAC	1 cut(s)	265
Kzo9I	GATC	4 cut(s)	220, 351, 381, 778
LmnI	GCTCC	1 cut(s)	389
Lsp1109I	GCAGC	3 cut(s)	271, 386, 631
LweI	GCATC	1 cut(s)	466
MaeI	CTAG	1 cut(s)	414
MaeIII	GTNAC	3 cut(s)	82, 200, 250
MalI	GATC	4 cut(s)	222, 353, 383, 780
MboI	GATC	4 cut(s)	220, 351, 381, 778
MboII	GAAGA	3 cut(s)	142, 178, 542
MflI	RGATCY	1 cut(s)	778
MhlI	GDGCHC	2 cut(s)	180, 946
MluCI	AATT	3 cut(s)	434, 533, 956
MlyI	GAGTC	2 cut(s)	479, 703
MmeI	TCCRAC	4 cut(s)	183, 342, 426, 554
MnlI	CCTC	9 cut(s)	36, 130, 181, 290, 364, 390, 504, 880, 966
MseI	TTAA	4 cut(s)	264, 360, 549, 924
MspI	CCGG	2 cut(s)	775, 782
MspR9I	CCNGG	4 cut(s)	38, 121, 776, 879
MvaI	CCWGG	3 cut(s)	38, 121, 879
MwoI	GCNNNNNNNGC	4 cut(s)	416, 485, 490, 644
NciI	CCSGG	1 cut(s)	776
NdeII	GATC	4 cut(s)	220, 351, 381, 778
NlaIII	CATG	6 cut(s)	184, 196, 272, 295, 526, 817
NlaIV	GGNNCC	6 cut(s)	48, 604, 639, 780, 944, 945
NspI	RCATGY	1 cut(s)	196
PaeR7I	CTCGAG	1 cut(s)	368
PagI	TCATGA	1 cut(s)	522
PciI	ACATGT	1 cut(s)	192
PflFI	GACNNNGTC	2 cut(s)	712, 763
PfoI	TCCNGGA	1 cut(s)	774
PkrI	GCNGC	3 cut(s)	286, 376, 646
PleI	GAGTC	2 cut(s)	478, 703
PpsI	GAGTC	2 cut(s)	478, 703
PscI	ACATGT	1 cut(s)	192
Psp6I	CCWGG	3 cut(s)	36, 119, 877
PspGI	CCWGG	3 cut(s)	36, 119, 877
PspN4I	GGNNCC	6 cut(s)	48, 604, 639, 780, 944, 945
PspOMI	GGGCCC	1 cut(s)	942
PspPI	GGNCC	6 cut(s)	602, 637, 835, 881, 942, 943
PspXI	VCTCGAGB	1 cut(s)	368
PstI	CTGCAG	1 cut(s)	490
PsuI	RGATCY	1 cut(s)	778
PsyI	GACNNNGTC	2 cut(s)	712, 763
RsaI	GTAC	2 cut(s)	23, 53
RsaNI	GTAC	2 cut(s)	22, 52
SaqAI	TTAA	4 cut(s)	264, 360, 549, 924
SatI	GCNGC	3 cut(s)	285, 375, 645
Sau3AI	GATC	4 cut(s)	220, 351, 381, 778
Sau96I	GGNCC	6 cut(s)	602, 637, 835, 881, 942, 943
SchI	GAGTC	2 cut(s)	479, 703
ScrFI	CCNGG	4 cut(s)	38, 121, 776, 879
SduI	GDGCHC	2 cut(s)	180, 946
SfaNI	GCATC	1 cut(s)	466
SfcI	CTRYAG	2 cut(s)	486, 704
Sfr274I	CTCGAG	1 cut(s)	368
SinI	GGWCC	2 cut(s)	602, 835
SlaI	CTCGAG	1 cut(s)	368
SmlI	CTYRAG	2 cut(s)	368, 495
SmoI	CTYRAG	2 cut(s)	368, 495
Sse9I	AATT	3 cut(s)	434, 533, 956
SspI	AATATT	1 cut(s)	790
SspMI	CTAG	1 cut(s)	414
StyD4I	CCNGG	4 cut(s)	36, 119, 774, 877
TaaI	ACNGT	5 cut(s)	17, 51, 242, 444, 585
TaqI	TCGA	2 cut(s)	369, 901
TasI	AATT	3 cut(s)	434, 533, 956
TatI	WGTACW	1 cut(s)	21
Tru1I	TTAA	4 cut(s)	264, 360, 549, 924
Tru9I	TTAA	4 cut(s)	264, 360, 549, 924
TscAI	CASTG	1 cut(s)	679
TseI	GCWGC	3 cut(s)	284, 374, 644
TspDTI	ATGAA	7 cut(s)	62, 91, 298, 715, 747, 830, 968
TspGWI	ACGGA	1 cut(s)	316
TspRI	CASTG	1 cut(s)	679
Tth111I	GACNNNGTC	2 cut(s)	712, 763
VpaK11BI	GGWCC	2 cut(s)	602, 835
XapI	RAATTY	1 cut(s)	434
XceI	RCATGY	1 cut(s)	196
XcmI	CCANNNNNNNNNTGG	1 cut(s)	875
XhoI	CTCGAG	1 cut(s)	368
XspI	CTAG	1 cut(s)	414

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