Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002413

Physical Location & Seq

Genomic Coordinates Forward (+)

10732062 .. 10735255

Gene Structure 3194 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00290200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGAGAATTTTGGTTACTGGAGGAGCTGGATTCATTGGCTCTCACCTAGTCGACAAGCTGATGGAAAACGAGAAGAATGAGGTAATTGTTGCAGATAACTACTTCACTGGCTCAAAGGACAACCTTAAGAAATGGATTGGTCATCCAAGATTCGAGCTTATTCGTCATGATGTCACCGAGCCATTGCTGGTGGAGGTTGATCAAATATTCCATCTTGCTTGCCCTGCTTCTCCGATCTTCTACAAACACAATCCAGTAAAGACAATAAAGACAAATGTGATCGGTACATTGAACATGCTGGGACTGGCCAAGCGAGTCGGAGCGAGGATTTTGCTCACTTCTACTTCGGAGGTGTATGGAGATCCTCTTATTCACCCTCAGGTTGAGAGCTACTGGGGAAATGTGAATCCAATTGGAGTTAGGAGTTGCTATGATGAGGGAAAGCGAGTGGCTGAAACATTGATGTTTGATTATCACAGGCAGCACGGCATAGAGATACGGATTGCTAGGATTTTCAACACTTATGGACCTCGCATGAATATTGATGATGGCCGTGTCGTCAGTAACTTCATAGCCCAAGCTATCCGGAATGACCCCTTGACTGTTCAAGCACCTGGAACACAGACAAGGAGTTTCTGCTACGTCTCTGACATGGTTGATGGCCTTATTCGACTTATGGAAGGCGACAACACTGGTCCAATCAACATTGGGAATCCAGGTGAATTTACAATGCTCGAACTCGCAGAGAATGTCAAGGAGCTTATCAATCCTAAGGTGGAGATTAAAATGGTTGAAAACACACCTGATGATCCTCGACAGAGGAAGCCTGACATCTCAAAAGCAAAGGAGTTGCTGGGATGGGAACCAAAGGTCAAGTTGCGTGACGGTCTGCCCCTCATGGAGGATGATTTCCGTACAAGACTTGGTGTCCCCAGAAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0012505 GO:0016829 GO:0016830 GO:0016831 GO:0036094 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0048037 GO:0048040 GO:0050662 GO:0051287 GO:0070403 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

313

Amino Acids

35.33

Weight (kDa)

6.47

Isoelectric Point (pI)

26.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RmlD_sub_bind	PF04321	1 - 264	2e-07	RmlD substrate binding domain
Epimerase	PF01370	3 - 237	1.1e-45	NAD dependent epimerase/dehydratase family
Polysacc_synt_2	PF02719	3 - 109	7.9e-08	Polysaccharide biosynthesis protein
GDP_Man_Dehyd	PF16363	4 - 298	9.9e-50	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	4 - 156	8.6e-13	3-beta hydroxysteroid dehydrogenase/isomerase family
NAD_binding_4	PF07993	59 - 173	3.2e-06	Male sterility protein

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: OG0002413)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28755 AT2G28755
fragaria_vesca	FvH4_1g22830 FvH4_1g22850 FvH4_6g23040 FvH4_7g22040 FvH4_7g22040 FvH4_7g22040
prunus_persica	Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1 Prupe.2G232500_v2.0.a1
pyrus_communis	pycom01g15140 pycom07g18370
rosa_chinensis	RchiOBHm_Chr1g0366401 RchiOBHm_Chr2g0117191
rosa_laevigata	RLG00000018334 RLG00000027347
rosa_multiflora	Rmu_ssc0000250.1_g000016
rosa_roxburghii	Rroxscaffold_2G00126670 Rroxscaffold_4G00289940 Rroxscaffold_4G00290200
rosa_rugosa	Rorug01G0329500 Rorug01G0329600 Rorug01G0329700 Rorug01G0329800 Rorug01G0329900 Rorug02G0210800
rosa_samantha	Rh1AG337800 Rh1BG299300 Rh1DG331000 Rh2AG266900 Rh2BG279000 Rh2DG293100
rosa_wichuraiana	Rw1G029910 Rw2G021050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	51
AccIII	TCCGGA	1 cut(s)	585
AclWI	GGATC	2 cut(s)	356, 803
AcoI	YGGCCR	2 cut(s)	306, 550
AcsI	RAATTY	2 cut(s)	6, 722
AfaI	GTAC	2 cut(s)	286, 916
AfiI	CCNNNNNNNGG	1 cut(s)	901
AflII	CTTAAG	1 cut(s)	125
AgsI	TTSAA	4 cut(s)	292, 517, 608, 794
AhdI	GACNNNNNGTC	1 cut(s)	926
AjnI	CCWGG	2 cut(s)	613, 715
AluBI	AGCT	6 cut(s)	26, 58, 157, 390, 581, 760
AluI	AGCT	6 cut(s)	26, 58, 157, 390, 581, 760
Alw26I	GTCTC	1 cut(s)	649
AlwI	GGATC	2 cut(s)	356, 803
Aor13HI	TCCGGA	1 cut(s)	585
AoxI	GGCC	3 cut(s)	306, 550, 661
ApeKI	GCWGC	1 cut(s)	481
ApoI	RAATTY	2 cut(s)	6, 722
AspS9I	GGNCC	2 cut(s)	527, 695
AsuHPI	GGTGA	4 cut(s)	35, 166, 365, 731
AvaII	GGWCC	2 cut(s)	527, 695
AxyI	CCTNAGG	2 cut(s)	378, 771
BalI	TGGCCA	1 cut(s)	308
BbvI	GCAGC	1 cut(s)	493
BccI	CCATC	5 cut(s)	55, 219, 542, 653, 852
BceAI	ACGGC	2 cut(s)	502, 537
BcgI	CGANNNNNNTGC	2 cut(s)	313, 347
BciT130I	CCWGG	2 cut(s)	615, 717
BclI	TGATCA	1 cut(s)	199
BcoDI	GTCTC	1 cut(s)	649
BfaI	CTAG	2 cut(s)	47, 507
BfrI	CTTAAG	1 cut(s)	125
BisI	GCNGC	1 cut(s)	482
BlsI	GCNGC	1 cut(s)	483
Bme1390I	CCNGG	2 cut(s)	615, 717
Bme18I	GGWCC	2 cut(s)	527, 695
BmeRI	GACNNNNNGTC	1 cut(s)	926
BmgT120I	GGNCC	2 cut(s)	527, 695
BmiI	GGNNCC	1 cut(s)	864
BmrFI	CCNGG	2 cut(s)	615, 717
BmrI	ACTGGG	1 cut(s)	403
BmuI	ACTGGG	1 cut(s)	403
BpmI	CTGGAG	1 cut(s)	39
BsaWI	WCCGGW	1 cut(s)	585
Bsc4I	CCNNNNNNNGG	1 cut(s)	901
Bse1I	ACTGG	6 cut(s)	22, 112, 254, 309, 398, 697
Bse21I	CCTNAGG	2 cut(s)	378, 771
Bse3DI	GCAATG	1 cut(s)	182
BseAI	TCCGGA	1 cut(s)	585
BseBI	CCWGG	2 cut(s)	615, 717
BseGI	GGATG	3 cut(s)	142, 863, 910
BseLI	CCNNNNNNNGG	1 cut(s)	901
BseMI	GCAATG	1 cut(s)	182
BseMII	CTCAG	1 cut(s)	392
BseNI	ACTGG	6 cut(s)	22, 112, 254, 309, 398, 697
BseRI	GAGGAG	1 cut(s)	36
BseXI	GCAGC	1 cut(s)	493
BseYI	CCCAGC	2 cut(s)	298, 853
BshFI	GGCC	3 cut(s)	308, 552, 663
BsiSI	CCGG	1 cut(s)	586
BslFI	GGGAC	2 cut(s)	315, 914
BslI	CCNNNNNNNGG	1 cut(s)	901
BsmAI	GTCTC	1 cut(s)	649
BsmBI	CGTCTC	1 cut(s)	649
BsmFI	GGGAC	2 cut(s)	315, 914
BsnI	GGCC	3 cut(s)	308, 552, 663
Bsp13I	TCCGGA	1 cut(s)	585
Bsp143I	GATC	5 cut(s)	199, 234, 279, 361, 808
BspANI	GGCC	3 cut(s)	308, 552, 663
BspCNI	CTCAG	1 cut(s)	391
BspEI	TCCGGA	1 cut(s)	585
BspHI	TCATGA	1 cut(s)	166
BspLI	GGNNCC	1 cut(s)	864
BspPI	GGATC	2 cut(s)	356, 803
BspTI	CTTAAG	1 cut(s)	125
BsrDI	GCAATG	1 cut(s)	182
BsrI	ACTGG	6 cut(s)	22, 112, 254, 309, 398, 697
BssMI	GATC	5 cut(s)	199, 234, 279, 361, 808
Bst2UI	CCWGG	2 cut(s)	615, 717
Bst4CI	ACNGT	2 cut(s)	604, 887
BstAFI	CTTAAG	1 cut(s)	125
BstC8I	GCNNGC	1 cut(s)	220
BstDEI	CTNAG	2 cut(s)	378, 771
BstENI	CCTNNNNNAGG	1 cut(s)	899
BstF5I	GGATG	3 cut(s)	142, 863, 910
BstKTI	GATC	5 cut(s)	202, 237, 282, 364, 811
BstMAI	GTCTC	1 cut(s)	649
BstMBI	GATC	5 cut(s)	199, 234, 279, 361, 808
BstMWI	GCNNNNNNNGC	1 cut(s)	224
BstNI	CCWGG	2 cut(s)	615, 717
BstNSI	RCATGY	1 cut(s)	298
BstSCI	CCNGG	2 cut(s)	613, 715
BstV1I	GCAGC	1 cut(s)	493
BstX2I	RGATCY	1 cut(s)	361
BstYI	RGATCY	1 cut(s)	361
Bsu36I	CCTNAGG	2 cut(s)	378, 771
BsuRI	GGCC	3 cut(s)	308, 552, 663
BtsCI	GGATG	3 cut(s)	142, 863, 910
BtsIMutI	CAGTG	2 cut(s)	105, 690
Cac8I	GCNNGC	1 cut(s)	220
CciI	TCATGA	1 cut(s)	166
Cfr13I	GGNCC	2 cut(s)	527, 695
Csp6I	GTAC	2 cut(s)	285, 915
CviAII	CATG	5 cut(s)	167, 295, 535, 652, 898
CviQI	GTAC	2 cut(s)	285, 915
DdeI	CTNAG	2 cut(s)	378, 771
DpnI	GATC	5 cut(s)	201, 236, 281, 363, 810
DpnII	GATC	5 cut(s)	199, 234, 279, 361, 808
DriI	GACNNNNNGTC	1 cut(s)	926
EaeI	YGGCCR	2 cut(s)	306, 550
Eam1105I	GACNNNNNGTC	1 cut(s)	926
Eco47I	GGWCC	2 cut(s)	527, 695
Eco81I	CCTNAGG	2 cut(s)	378, 771
EcoNI	CCTNNNNNAGG	1 cut(s)	899
EcoRII	CCWGG	2 cut(s)	613, 715
Esp3I	CGTCTC	1 cut(s)	649
FaeI	CATG	5 cut(s)	170, 298, 538, 655, 901
FaqI	GGGAC	2 cut(s)	315, 914
FatI	CATG	5 cut(s)	166, 294, 534, 651, 897
FbaI	TGATCA	1 cut(s)	199
FblI	GTMKAC	1 cut(s)	51
Fnu4HI	GCNGC	1 cut(s)	482
FokI	GGATG	3 cut(s)	129, 870, 917
Fsp4HI	GCNGC	1 cut(s)	482
FspBI	CTAG	2 cut(s)	47, 507
GluI	GCNGC	1 cut(s)	482
GsaI	CCCAGC	2 cut(s)	302, 857
GsuI	CTGGAG	1 cut(s)	39
HaeIII	GGCC	3 cut(s)	308, 552, 663
HapII	CCGG	1 cut(s)	586
Hin1II	CATG	5 cut(s)	170, 298, 538, 655, 901
HincII	GTYRAC	1 cut(s)	52
HindII	GTYRAC	1 cut(s)	52
HinfI	GANTC	5 cut(s)	30, 150, 315, 406, 712
HpaII	CCGG	1 cut(s)	586
HphI	GGTGA	4 cut(s)	35, 166, 365, 731
Hpy166II	GTNNAC	1 cut(s)	52
Hpy188I	TCNGA	4 cut(s)	234, 320, 349, 649
Hpy188III	TCNNGA	2 cut(s)	167, 586
Hpy8I	GTNNAC	1 cut(s)	52
HpyAV	CCTTC	1 cut(s)	674
HpyCH4III	ACNGT	2 cut(s)	604, 887
HpyCH4IV	ACGT	1 cut(s)	642
HpyCH4V	TGCA	1 cut(s)	92
HpyF10VI	GCNNNNNNNGC	1 cut(s)	224
HpyF3I	CTNAG	2 cut(s)	378, 771
HpySE526I	ACGT	1 cut(s)	642
Hsp92II	CATG	5 cut(s)	170, 298, 538, 655, 901
Kpn2I	TCCGGA	1 cut(s)	585
Ksp22I	TGATCA	1 cut(s)	199
Kzo9I	GATC	5 cut(s)	199, 234, 279, 361, 808
LmnI	GCTCC	3 cut(s)	23, 320, 757
Lsp1109I	GCAGC	1 cut(s)	493
MaeI	CTAG	2 cut(s)	47, 507
MaeII	ACGT	1 cut(s)	642
MaeIII	GTNAC	4 cut(s)	13, 172, 563, 881
MalI	GATC	5 cut(s)	201, 236, 281, 363, 810
MboI	GATC	5 cut(s)	199, 234, 279, 361, 808
MboII	GAAGA	2 cut(s)	85, 229
MfeI	CAATTG	1 cut(s)	411
MflI	RGATCY	1 cut(s)	361
MlsI	TGGCCA	1 cut(s)	308
MluCI	AATT	5 cut(s)	6, 84, 411, 722, 937
MluNI	TGGCCA	1 cut(s)	308
MlyI	GAGTC	1 cut(s)	324
MmeI	TCCRAC	1 cut(s)	298
Mox20I	TGGCCA	1 cut(s)	308
MroI	TCCGGA	1 cut(s)	585
MscI	TGGCCA	1 cut(s)	308
MseI	TTAA	3 cut(s)	126, 783, 940
Msp20I	TGGCCA	1 cut(s)	308
MspCI	CTTAAG	1 cut(s)	125
MspI	CCGG	1 cut(s)	586
MspR9I	CCNGG	2 cut(s)	615, 717
MunI	CAATTG	1 cut(s)	411
MvaI	CCWGG	2 cut(s)	615, 717
MwoI	GCNNNNNNNGC	1 cut(s)	224
NdeII	GATC	5 cut(s)	199, 234, 279, 361, 808
NlaIII	CATG	5 cut(s)	170, 298, 538, 655, 901
NlaIV	GGNNCC	1 cut(s)	864
NmuCI	GTSAC	2 cut(s)	172, 881
NspI	RCATGY	1 cut(s)	298
PagI	TCATGA	1 cut(s)	166
PfeI	GAWTC	4 cut(s)	30, 150, 406, 712
PkrI	GCNGC	1 cut(s)	483
PleI	GAGTC	1 cut(s)	323
PpsI	GAGTC	1 cut(s)	323
Psp6I	CCWGG	2 cut(s)	613, 715
PspFI	CCCAGC	2 cut(s)	298, 853
PspGI	CCWGG	2 cut(s)	613, 715
PspN4I	GGNNCC	1 cut(s)	864
PspPI	GGNCC	2 cut(s)	527, 695
PsuI	RGATCY	1 cut(s)	361
RsaI	GTAC	2 cut(s)	286, 916
RsaNI	GTAC	2 cut(s)	285, 915
SalI	GTCGAC	1 cut(s)	50
SaqAI	TTAA	3 cut(s)	126, 783, 940
SatI	GCNGC	1 cut(s)	482
Sau3AI	GATC	5 cut(s)	199, 234, 279, 361, 808
Sau96I	GGNCC	2 cut(s)	527, 695
SchI	GAGTC	1 cut(s)	324
ScrFI	CCNGG	2 cut(s)	615, 717
SinI	GGWCC	2 cut(s)	527, 695
SmlI	CTYRAG	1 cut(s)	125
SmoI	CTYRAG	1 cut(s)	125
Sse9I	AATT	5 cut(s)	6, 84, 411, 722, 937
SspI	AATATT	2 cut(s)	207, 541
SspMI	CTAG	2 cut(s)	47, 507
StyD4I	CCNGG	2 cut(s)	613, 715
TaaI	ACNGT	2 cut(s)	604, 887
TaiI	ACGT	1 cut(s)	645
TaqI	TCGA	5 cut(s)	51, 153, 670, 735, 814
TasI	AATT	5 cut(s)	6, 84, 411, 722, 937
TfiI	GAWTC	4 cut(s)	30, 150, 406, 712
Tru1I	TTAA	3 cut(s)	126, 783, 940
Tru9I	TTAA	3 cut(s)	126, 783, 940
TscAI	CASTG	2 cut(s)	112, 697
TseFI	GTSAC	2 cut(s)	172, 881
TseI	GCWGC	1 cut(s)	481
Tsp45I	GTSAC	2 cut(s)	172, 881
TspDTI	ATGAA	3 cut(s)	22, 551, 559
TspGWI	ACGGA	2 cut(s)	514, 902
TspRI	CASTG	2 cut(s)	112, 697
Vha464I	CTTAAG	1 cut(s)	125
VpaK11BI	GGWCC	2 cut(s)	527, 695
XagI	CCTNNNNNAGG	1 cut(s)	899
XapI	RAATTY	2 cut(s)	6, 722
XceI	RCATGY	1 cut(s)	298
XmiI	GTMKAC	1 cut(s)	51
XspI	CTAG	2 cut(s)	47, 507

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