Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0003420

Physical Location & Seq

Genomic Coordinates Reverse (-)

2994287 .. 2997782

Gene Structure 3496 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG019300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGATCTATGATCCTATTCCATCTTACAAAACTCTTTTTGTTTGTTCAAAGACTCTGAAGCTTGCGAGAATGGGAAGTAGATACGGTGAGTACACATATGAGAACCTGGAGAGGGAACCGTACTGGCCTTCTGAGAAGCTTCAGATTTCTGTAACGGGGGCTGGTGGTTTCATTGCTTCACACATTGCCAGGCGACTAAAGAGTGAGGGTCATTACATTATTGCTTCCGACTGGAAGAAAAATGAGCACATGACCGAGGACCTGTTCTGTAACGAATTCCATCTGGTTGATCTTAGAGTGATGGATAACTGTTTGAAGGTTACTGCTGGTGTTAACCATGTTTTCAACCTTGCTGCTGATATGGGAGGTATGGGGTTCATTCAGTCCAACCATTCCGTCATTATGTATAGCAACACAATGATTAGCTTTAATATGCTCGAGGCAGCAAGGATCAATGGAGCTAAGAGGTTCTTTTATGCTTCTAGTGCTTGCATTTACCCTGAATTCAAACAGTTGGATACTAATGTGAGCTTGAAGGAGTCTGATGCTTGGCCTGCAGAGCCTCAAGACGCCTATGGCTTGGAGAAGCTCATGACTGAAGAATTATGCAAGCACTTTAATAAGGATTTCAGTATTGAATGTCGGATTGGACGGTTTCACAACATTTATGGACCCTTTGGCACTTGGAAAGGTGGTAGAGAGAAGGCCCCTGCTGCTTTTTGTAGAAAAACCCTTACTTCCACCGATAGATTGACAAAGTCTGACTTCCGGGATCCGGTAAATATTGGAAGTGATGAGATGGTTAGCATGAATGAGATGGCTGAAATGGTCCTAAGCATTGAGAACAAGAAGCTTCCCATCCACCATATTCCTGGCCCTGAGGGTGTTCGTGGTCGAAACTCAGACAACACTTTGATTAAGGAGAAGCTTGGATGGGCCCCTACTATGAAATTGAAGGATGGGCTGAGGATAACATACTTTTGGATAAAGGAACAACTTGAGAAAGAGGAGGCTCAAGGGATTAAAGTGTCAGGTTATGGCACATCAAAAGTAGTAGGAACACAAGCACCAGTTCAACTCGGCTCTCTTCGAGCCGCTGATGGGAAAGAGTGA

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

370

Amino Acids

41.82

Weight (kDa)

7.61

Isoelectric Point (pI)

35.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	49 - 243	3.3e-34	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	51 - 239	1.2e-13	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	51 - 208	4.3e-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

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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)
AciI	CCGC	1 cut(s)	1095
AclWI	GGATC	4 cut(s)	5, 458, 767, 780
AcsI	RAATTY	2 cut(s)	275, 503
AcuI	CTGAAG	3 cut(s)	77, 125, 618
AcyI	GRCGYC	1 cut(s)	570
AfaI	GTAC	2 cut(s)	92, 122
AfiI	CCNNNNNNNGG	3 cut(s)	112, 775, 1101
AgsI	TTSAA	8 cut(s)	48, 316, 346, 508, 535, 638, 955, 1076
AjnI	CCWGG	3 cut(s)	105, 188, 871
AjuI	GAANNNNNNNTTGG	2 cut(s)	630, 662
AluBI	AGCT	8 cut(s)	61, 139, 426, 461, 531, 589, 853, 928
AluI	AGCT	8 cut(s)	61, 139, 426, 461, 531, 589, 853, 928
Alw21I	GWGCWC	1 cut(s)	249
AlwI	GGATC	4 cut(s)	5, 458, 767, 780
Ama87I	CYCGRG	1 cut(s)	437
AoxI	GGCC	5 cut(s)	125, 551, 705, 874, 936
ApaI	GGGCCC	1 cut(s)	940
ApeKI	GCWGC	3 cut(s)	353, 443, 713
ApoI	RAATTY	2 cut(s)	275, 503
AspS9I	GGNCC	7 cut(s)	259, 671, 706, 829, 875, 936, 937
AsuC2I	CCSGG	1 cut(s)	770
AsuHPI	GGTGA	1 cut(s)	98
AvaI	CYCGRG	1 cut(s)	437
AvaII	GGWCC	3 cut(s)	259, 671, 829
AxyI	CCTNAGG	1 cut(s)	879
BaeGI	GKGCMC	1 cut(s)	940
BaeI	ACNNNNGTAYC	2 cut(s)	510, 543
BamHI	GGATCC	1 cut(s)	772
BanII	GRGCYC	1 cut(s)	940
Bbv12I	GWGCWC	1 cut(s)	249
BbvCI	CCTCAGC	1 cut(s)	965
BbvI	GCAGC	3 cut(s)	340, 455, 700
BccI	CCATC	9 cut(s)	28, 288, 295, 793, 811, 866, 927, 953, 1094
BciT130I	CCWGG	3 cut(s)	107, 190, 873
BciVI	GTATCC	1 cut(s)	511
BcnI	CCSGG	1 cut(s)	770
BfaI	CTAG	1 cut(s)	483
BfmI	CTRYAG	1 cut(s)	555
BfuI	GTATCC	1 cut(s)	511
BisI	GCNGC	4 cut(s)	354, 444, 714, 1095
BlsI	GCNGC	4 cut(s)	355, 445, 715, 1096
Bme1390I	CCNGG	4 cut(s)	107, 190, 770, 873
Bme18I	GGWCC	3 cut(s)	259, 671, 829
BmeT110I	CYCGRG	1 cut(s)	437
BmgT120I	GGNCC	7 cut(s)	259, 671, 706, 829, 875, 936, 937
BmiI	GGNNCC	6 cut(s)	117, 673, 708, 774, 938, 939
BmrFI	CCNGG	4 cut(s)	107, 190, 770, 873
BmsI	GCATC	1 cut(s)	535
BpmI	CTGGAG	1 cut(s)	128
Bpu10I	CCTNAGC	2 cut(s)	833, 965
BpuEI	CTTGAG	3 cut(s)	549, 999, 1019
BpuMI	CCSGG	1 cut(s)	770
BsaHI	GRCGYC	1 cut(s)	570
BsaJI	CCNNGG	1 cut(s)	255
BsaWI	WCCGGW	1 cut(s)	775
Bsc4I	CCNNNNNNNGG	3 cut(s)	112, 775, 1101
Bse1I	ACTGG	3 cut(s)	128, 236, 1070
Bse21I	CCTNAGG	1 cut(s)	879
Bse3DI	GCAATG	2 cut(s)	171, 183
BseBI	CCWGG	3 cut(s)	107, 190, 873
BseDI	CCNNGG	1 cut(s)	255
BseGI	GGATG	3 cut(s)	858, 938, 964
BseLI	CCNNNNNNNGG	3 cut(s)	112, 775, 1101
BseMI	GCAATG	2 cut(s)	171, 183
BseMII	CTCAG	4 cut(s)	123, 870, 915, 956
BseNI	ACTGG	3 cut(s)	128, 236, 1070
BseRI	GAGGAG	1 cut(s)	1022
BseSI	GKGCMC	1 cut(s)	940
BseXI	GCAGC	3 cut(s)	340, 455, 700
BshFI	GGCC	5 cut(s)	127, 553, 707, 876, 938
BsiHKAI	GWGCWC	1 cut(s)	249
BsiHKCI	CYCGRG	1 cut(s)	437
BsiSI	CCGG	2 cut(s)	769, 776
BslI	CCNNNNNNNGG	3 cut(s)	112, 775, 1101
BsnI	GGCC	5 cut(s)	127, 553, 707, 876, 938
BsoBI	CYCGRG	1 cut(s)	437
Bsp120I	GGGCCC	1 cut(s)	936
Bsp1286I	GDGCHC	2 cut(s)	249, 940
Bsp143I	GATC	5 cut(s)	3, 10, 289, 450, 772
BspACI	CCGC	1 cut(s)	1095
BspANI	GGCC	5 cut(s)	127, 553, 707, 876, 938
BspCNI	CTCAG	4 cut(s)	124, 871, 914, 957
BspHI	TCATGA	1 cut(s)	591
BspLI	GGNNCC	6 cut(s)	117, 673, 708, 774, 938, 939
BspMAI	CTGCAG	1 cut(s)	559
BspPI	GGATC	4 cut(s)	5, 458, 767, 780
BsrDI	GCAATG	2 cut(s)	171, 183
BsrI	ACTGG	3 cut(s)	128, 236, 1070
BssECI	CCNNGG	1 cut(s)	255
BssMI	GATC	5 cut(s)	3, 10, 289, 450, 772
BssNI	GRCGYC	1 cut(s)	570
Bst2UI	CCWGG	3 cut(s)	107, 190, 873
Bst4CI	ACNGT	5 cut(s)	86, 120, 311, 513, 654
Bst6I	CTCTTC	1 cut(s)	1092
BstACI	GRCGYC	1 cut(s)	570
BstC8I	GCNNGC	4 cut(s)	63, 490, 555, 611
BstDEI	CTNAG	7 cut(s)	132, 293, 462, 833, 879, 901, 965
BstF5I	GGATG	3 cut(s)	858, 938, 964
BstKTI	GATC	5 cut(s)	6, 13, 292, 453, 775
BstMBI	GATC	5 cut(s)	3, 10, 289, 450, 772
BstMWI	GCNNNNNNNGC	4 cut(s)	485, 554, 559, 713
BstNI	CCWGG	3 cut(s)	107, 190, 873
BstSCI	CCNGG	4 cut(s)	105, 188, 768, 871
BstSFI	CTRYAG	1 cut(s)	555
BstSLI	GKGCMC	1 cut(s)	940
BstV1I	GCAGC	3 cut(s)	340, 455, 700
BstX2I	RGATCY	1 cut(s)	772
BstXI	CCANNNNNNTGG	1 cut(s)	872
BstYI	RGATCY	1 cut(s)	772
Bsu36I	CCTNAGG	1 cut(s)	879
BsuI	GTATCC	1 cut(s)	511
BsuRI	GGCC	5 cut(s)	127, 553, 707, 876, 938
BtsCI	GGATG	3 cut(s)	858, 938, 964
Cac8I	GCNNGC	4 cut(s)	63, 490, 555, 611
CciI	TCATGA	1 cut(s)	591
Cfr13I	GGNCC	7 cut(s)	259, 671, 706, 829, 875, 936, 937
CseI	GACGC	1 cut(s)	578
Csp6I	GTAC	2 cut(s)	91, 121
CviAII	CATG	4 cut(s)	250, 338, 592, 808
CviQI	GTAC	2 cut(s)	91, 121
DdeI	CTNAG	7 cut(s)	132, 293, 462, 833, 879, 901, 965
DpnI	GATC	5 cut(s)	5, 12, 291, 452, 774
DpnII	GATC	5 cut(s)	3, 10, 289, 450, 772
Eam1104I	CTCTTC	1 cut(s)	1092
EarI	CTCTTC	1 cut(s)	1092
Eco24I	GRGCYC	1 cut(s)	940
Eco47I	GGWCC	3 cut(s)	259, 671, 829
Eco57I	CTGAAG	3 cut(s)	77, 125, 618
Eco81I	CCTNAGG	1 cut(s)	879
Eco88I	CYCGRG	1 cut(s)	437
EcoO109I	RGGNCCY	3 cut(s)	259, 706, 937
EcoRI	GAATTC	2 cut(s)	275, 503
EcoRII	CCWGG	3 cut(s)	105, 188, 871
EcoT38I	GRGCYC	1 cut(s)	940
FaeI	CATG	4 cut(s)	253, 341, 595, 811
FalI	AAGNNNNNCTT	4 cut(s)	455, 487, 749, 781
FatI	CATG	4 cut(s)	249, 337, 591, 807
FauNDI	CATATG	1 cut(s)	97
Fnu4HI	GCNGC	4 cut(s)	354, 444, 714, 1095
FokI	GGATG	3 cut(s)	845, 945, 971
FriOI	GRGCYC	1 cut(s)	940
Fsp4HI	GCNGC	4 cut(s)	354, 444, 714, 1095
FspBI	CTAG	1 cut(s)	483
GluI	GCNGC	4 cut(s)	354, 444, 714, 1095
GsuI	CTGGAG	1 cut(s)	128
HaeIII	GGCC	5 cut(s)	127, 553, 707, 876, 938
HapII	CCGG	2 cut(s)	769, 776
HgaI	GACGC	1 cut(s)	578
Hin1I	GRCGYC	1 cut(s)	570
Hin1II	CATG	4 cut(s)	253, 341, 595, 811
HincII	GTYRAC	1 cut(s)	334
HindII	GTYRAC	1 cut(s)	334
HindIII	AAGCTT	4 cut(s)	59, 137, 851, 926
HinfI	GANTC	2 cut(s)	52, 539
HpaI	GTTAAC	1 cut(s)	334
HpaII	CCGG	2 cut(s)	769, 776
HphI	GGTGA	1 cut(s)	98
Hpy166II	GTNNAC	2 cut(s)	93, 334
Hpy188I	TCNGA	8 cut(s)	57, 133, 144, 229, 544, 645, 763, 904
Hpy188III	TCNNGA	2 cut(s)	566, 592
Hpy8I	GTNNAC	2 cut(s)	93, 334
HpyAV	CCTTC	5 cut(s)	138, 310, 529, 697, 949
HpyCH4III	ACNGT	5 cut(s)	86, 120, 311, 513, 654
HpyCH4V	TGCA	3 cut(s)	492, 557, 609
HpyF10VI	GCNNNNNNNGC	4 cut(s)	485, 554, 559, 713
HpyF3I	CTNAG	7 cut(s)	132, 293, 462, 833, 879, 901, 965
Hsp92I	GRCGYC	1 cut(s)	570
Hsp92II	CATG	4 cut(s)	253, 341, 595, 811
KspAI	GTTAAC	1 cut(s)	334
Kzo9I	GATC	5 cut(s)	3, 10, 289, 450, 772
LmnI	GCTCC	1 cut(s)	458
Lsp1109I	GCAGC	3 cut(s)	340, 455, 700
LweI	GCATC	1 cut(s)	535
MaeI	CTAG	1 cut(s)	483
MaeIII	GTNAC	3 cut(s)	151, 269, 319
MalI	GATC	5 cut(s)	5, 12, 291, 452, 774
MboI	GATC	5 cut(s)	3, 10, 289, 450, 772
MboII	GAAGA	3 cut(s)	247, 611, 1079
MflI	RGATCY	1 cut(s)	772
MhlI	GDGCHC	2 cut(s)	249, 940
MluCI	AATT	4 cut(s)	275, 503, 602, 950
MlyI	GAGTC	2 cut(s)	46, 548
MmeI	TCCRAC	4 cut(s)	252, 411, 495, 623
MseI	TTAA	5 cut(s)	333, 429, 618, 918, 1023
MspA1I	CMGCKG	1 cut(s)	1097
MspI	CCGG	2 cut(s)	769, 776
MspR9I	CCNGG	4 cut(s)	107, 190, 770, 873
MvaI	CCWGG	3 cut(s)	107, 190, 873
MwoI	GCNNNNNNNGC	4 cut(s)	485, 554, 559, 713
NciI	CCSGG	1 cut(s)	770
NdeI	CATATG	1 cut(s)	97
NdeII	GATC	5 cut(s)	3, 10, 289, 450, 772
NlaIII	CATG	4 cut(s)	253, 341, 595, 811
NlaIV	GGNNCC	6 cut(s)	117, 673, 708, 774, 938, 939
NmeAIII	GCCGAG	1 cut(s)	1059
PaeR7I	CTCGAG	1 cut(s)	437
PagI	TCATGA	1 cut(s)	591
PflFI	GACNNNGTC	1 cut(s)	757
PfoI	TCCNGGA	1 cut(s)	768
PkrI	GCNGC	4 cut(s)	355, 445, 715, 1096
PleI	GAGTC	2 cut(s)	46, 547
PpsI	GAGTC	2 cut(s)	46, 547
PpuMI	RGGWCCY	1 cut(s)	259
Psp5II	RGGWCCY	1 cut(s)	259
Psp6I	CCWGG	3 cut(s)	105, 188, 871
PspGI	CCWGG	3 cut(s)	105, 188, 871
PspN4I	GGNNCC	6 cut(s)	117, 673, 708, 774, 938, 939
PspOMI	GGGCCC	1 cut(s)	936
PspPI	GGNCC	7 cut(s)	259, 671, 706, 829, 875, 936, 937
PspPPI	RGGWCCY	1 cut(s)	259
PspXI	VCTCGAGB	1 cut(s)	437
PstI	CTGCAG	1 cut(s)	559
PsuI	RGATCY	1 cut(s)	772
PsyI	GACNNNGTC	1 cut(s)	757
RsaI	GTAC	2 cut(s)	92, 122
RsaNI	GTAC	2 cut(s)	91, 121
SaqAI	TTAA	5 cut(s)	333, 429, 618, 918, 1023
SatI	GCNGC	4 cut(s)	354, 444, 714, 1095
Sau3AI	GATC	5 cut(s)	3, 10, 289, 450, 772
Sau96I	GGNCC	7 cut(s)	259, 671, 706, 829, 875, 936, 937
SchI	GAGTC	2 cut(s)	46, 548
ScrFI	CCNGG	4 cut(s)	107, 190, 770, 873
SduI	GDGCHC	2 cut(s)	249, 940
SfaNI	GCATC	1 cut(s)	535
SfcI	CTRYAG	1 cut(s)	555
Sfr274I	CTCGAG	1 cut(s)	437
SinI	GGWCC	3 cut(s)	259, 671, 829
SlaI	CTCGAG	1 cut(s)	437
SmlI	CTYRAG	4 cut(s)	437, 564, 998, 1014
SmoI	CTYRAG	4 cut(s)	437, 564, 998, 1014
Sse9I	AATT	4 cut(s)	275, 503, 602, 950
SsiI	CCGC	1 cut(s)	1095
SspI	AATATT	1 cut(s)	784
SspMI	CTAG	1 cut(s)	483
StyD4I	CCNGG	4 cut(s)	105, 188, 768, 871
TaaI	ACNGT	5 cut(s)	86, 120, 311, 513, 654
TaqI	TCGA	3 cut(s)	438, 895, 1090
TaqII	GACCGA	1 cut(s)	269
TasI	AATT	4 cut(s)	275, 503, 602, 950
TatI	WGTACW	1 cut(s)	90
TauI	GCSGC	1 cut(s)	1097
Tru1I	TTAA	5 cut(s)	333, 429, 618, 918, 1023
Tru9I	TTAA	5 cut(s)	333, 429, 618, 918, 1023
TseI	GCWGC	3 cut(s)	353, 443, 713
TspDTI	ATGAA	4 cut(s)	160, 367, 824, 962
TspGWI	ACGGA	1 cut(s)	385
Tth111I	GACNNNGTC	1 cut(s)	757
VpaK11BI	GGWCC	3 cut(s)	259, 671, 829
XapI	RAATTY	2 cut(s)	275, 503
XcmI	CCANNNNNNNNNTGG	1 cut(s)	869
XhoI	CTCGAG	1 cut(s)	437
XspI	CTAG	1 cut(s)	483

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