Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001856

Physical Location & Seq

Genomic Coordinates Forward (+)

21286731 .. 21291810

Gene Structure 5080 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00017090.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1041 bp

ATGGCAACCAATTCTTCCAATGGGGATCACCAGACTACAACAAAGCCGCCTCCTTTGCCATCCCCTCTGCGTTTTTCCAAATTTTTTCAGTCCAACATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTACTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGGTCATCCCAGATTTGAGCTTATTCGTCATGATGTCACTGAGACATTGTTGGTTGAGGTTGATCGGATATACCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATATAATCCTGTAAAGACAATAAAAACAAATGTGATTGGCACTCTAAACATGCTTGGACTTGCCAAGCGAGTTGGAGCAAGGATTTTGCTGACATCAACTTCAGAGGTATATGGAGATCCCCTTGTGCACCCACAACCTGAAAGCTATTGGGGTAATGTTAACCCAATTGGAGTGAGGAGCTGCTATGACGAGGGCAAGCGTGTTGCTGAGACCTTGATGTTTGATTATCATCGGCAACATGGGATAGAAATACGCATTGCCAGAATCTTCAACACATATGGCCCTCGCATGAATATTGATGATGGGCGTGTAGTGAGCAACTTTATAGCTCAAGCACTTCGAGATGAACCATTGACGGTCCAAAACCCTGGAACTCAAACTCGCAGTTTCTGTTACATCTCTGACATGGTTGATGGCCTCATCCGTCTCATGGAAGGAGAGCACACTGGACCCATAAACATTGGAAACCCAGGTGAATTTACAATGCTTGAACTCGCAGAGACAGTGAAGGAGCTCATCAACCCGCAAGTAGAGATTAAGAGGGTGGAGAACACTCCTGATGATCCAAGACAAAGGAAACCTGACATCGCAAAGGCAAAAGAATTGCTGGGGTGGGAGCCAAAAATAAAGTTGAGGGAAGGTCTGCCTCTAATGGAGGAGGATTTCCGTCTGAGGCTCGGAGCAGCCAAAAAGAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005886 GO:0005975 GO:0005996 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016043 GO:0016829 GO:0016830 GO:0016831 GO:0019321 GO:0022607 GO:0036094 GO:0042732 GO:0042802 GO:0042803 GO:0043167 GO:0043168 GO:0043933 GO:0044085 GO:0044238 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046983 GO:0048037 GO:0048040 GO:0050662 GO:0051259 GO:0051262 GO:0051287 GO:0065003 GO:0070403 GO:0071704 GO:0071840 GO:0071944 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

346

Amino Acids

39.17

Weight (kDa)

7.74

Isoelectric Point (pI)

31.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RmlD_sub_bind	PF04321	33 - 293	1.3e-07	RmlD substrate binding domain
Epimerase	PF01370	35 - 269	3e-47	NAD dependent epimerase/dehydratase family
Polysacc_synt_2	PF02719	35 - 144	2.3e-08	Polysaccharide biosynthesis protein
GDP_Man_Dehyd	PF16363	36 - 330	3.1e-50	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	36 - 187	5e-12	3-beta hydroxysteroid dehydrogenase/isomerase family
NAD_binding_4	PF07993	89 - 205	7.9e-07	Male sterility protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001856)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550
malus_domestica	MD03G1096800.v1.1 MD11G1143300.v1.1
prunus_persica	Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1
pyrus_communis	pycom03g08000 pycom11g09310
rosa_chinensis	RchiOBHm_Chr5g0063761
rosa_laevigata	RLG00000035666
rosa_multiflora	Rmu_sc0002724.1_g000023
rosa_roxburghii	Rroxscaffold_1G00017090 Rroxscaffold_1G00037850 Rroxscaffold_3G00246740
rosa_rugosa	Rorug03G0248000 Rorug05G0359100 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359300 Rorug05G0359400
rosa_samantha	Rh2BG210700 Rh5AG128600 Rh5AG389400 Rh5BG433300 Rh5CG456500 Rh5DG446900 Rh5DG449700 Rh6AG145900
rosa_wichuraiana	Rw4G004490 Rw5G039270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	47, 866
AclWI	GGATC	3 cut(s)	33, 452, 899
AcsI	RAATTY	2 cut(s)	80, 818
AcuI	CTGAAG	1 cut(s)	426
AfiI	CCNNNNNNNGG	1 cut(s)	772
AgsI	TTSAA	2 cut(s)	613, 833
AjnI	CCWGG	3 cut(s)	141, 709, 811
AluBI	AGCT	7 cut(s)	122, 253, 323, 486, 522, 671, 856
AluI	AGCT	7 cut(s)	122, 253, 323, 486, 522, 671, 856
Alw21I	GWGCWC	3 cut(s)	471, 786, 858
Alw26I	GTCTC	4 cut(s)	269, 545, 773, 836
Alw44I	GTGCAC	1 cut(s)	467
AlwI	GGATC	3 cut(s)	33, 452, 899
AlwNI	CAGNNNCTG	1 cut(s)	732
AoxI	GGCC	2 cut(s)	622, 757
ApaLI	GTGCAC	1 cut(s)	467
ApeKI	GCWGC	2 cut(s)	522, 1025
ApoI	RAATTY	2 cut(s)	80, 818
AseI	ATTAAT	1 cut(s)	155
AspS9I	GGNCC	3 cut(s)	623, 700, 791
AsuHPI	GGTGA	3 cut(s)	20, 131, 827
AvaII	GGWCC	2 cut(s)	700, 791
BaeGI	GKGCMC	1 cut(s)	471
BanII	GRGCYC	1 cut(s)	858
Bbv12I	GWGCWC	3 cut(s)	471, 786, 858
BbvI	GCAGC	2 cut(s)	509, 1037
BccI	CCATC	4 cut(s)	67, 315, 638, 749
BciT130I	CCWGG	3 cut(s)	143, 711, 813
BcoDI	GTCTC	4 cut(s)	269, 545, 773, 836
BisI	GCNGC	3 cut(s)	47, 523, 1026
BlsI	GCNGC	3 cut(s)	48, 524, 1027
Bme1390I	CCNGG	3 cut(s)	143, 711, 813
Bme18I	GGWCC	2 cut(s)	700, 791
BmgT120I	GGNCC	3 cut(s)	623, 700, 791
BmiI	GGNNCC	3 cut(s)	208, 793, 960
BmrFI	CCNGG	3 cut(s)	143, 711, 813
BpmI	CTGGAG	1 cut(s)	135
BpuEI	CTTGAG	1 cut(s)	657
BsaBI	GATNNNNATC	1 cut(s)	570
BsaI	GGTCTC	1 cut(s)	545
BsaJI	CCNNGG	3 cut(s)	210, 709, 811
Bsc4I	CCNNNNNNNGG	1 cut(s)	772
Bse1I	ACTGG	3 cut(s)	118, 208, 793
Bse3DI	GCAATG	1 cut(s)	597
Bse8I	GATNNNNATC	1 cut(s)	570
BseBI	CCWGG	3 cut(s)	143, 711, 813
BseDI	CCNNGG	3 cut(s)	210, 709, 811
BseGI	GGATG	3 cut(s)	59, 238, 762
BseJI	GATNNNNATC	1 cut(s)	570
BseLI	CCNNNNNNNGG	1 cut(s)	772
BseMI	GCAATG	1 cut(s)	597
BseMII	CTCAG	3 cut(s)	264, 540, 1004
BseNI	ACTGG	3 cut(s)	118, 208, 793
BseRI	GAGGAG	3 cut(s)	132, 532, 1013
BseSI	GKGCMC	1 cut(s)	471
BseXI	GCAGC	2 cut(s)	509, 1037
BseYI	CCCAGC	2 cut(s)	319, 949
BshFI	GGCC	2 cut(s)	624, 759
BsiHKAI	GWGCWC	3 cut(s)	471, 786, 858
BslI	CCNNNNNNNGG	1 cut(s)	772
BsmAI	GTCTC	4 cut(s)	269, 545, 773, 836
BsmBI	CGTCTC	1 cut(s)	773
BsnI	GGCC	2 cut(s)	624, 759
Bso31I	GGTCTC	1 cut(s)	545
Bsp1286I	GDGCHC	3 cut(s)	471, 786, 858
Bsp143I	GATC	4 cut(s)	25, 295, 457, 904
BspACI	CCGC	2 cut(s)	47, 866
BspANI	GGCC	2 cut(s)	624, 759
BspCNI	CTCAG	3 cut(s)	265, 541, 1005
BspHI	TCATGA	1 cut(s)	262
BspLI	GGNNCC	3 cut(s)	208, 793, 960
BspPI	GGATC	3 cut(s)	33, 452, 899
BspTNI	GGTCTC	1 cut(s)	545
BsrDI	GCAATG	1 cut(s)	597
BsrI	ACTGG	3 cut(s)	118, 208, 793
BssECI	CCNNGG	3 cut(s)	210, 709, 811
BssMI	GATC	4 cut(s)	25, 295, 457, 904
BssT1I	CCWWGG	1 cut(s)	210
Bst2UI	CCWGG	3 cut(s)	143, 711, 813
Bst4CI	ACNGT	2 cut(s)	700, 847
BstC8I	GCNNGC	2 cut(s)	316, 539
BstDEI	CTNAG	3 cut(s)	273, 549, 1013
BstF5I	GGATG	3 cut(s)	59, 238, 762
BstKTI	GATC	4 cut(s)	28, 298, 460, 907
BstMAI	GTCTC	4 cut(s)	269, 545, 773, 836
BstMBI	GATC	4 cut(s)	25, 295, 457, 904
BstMWI	GCNNNNNNNGC	2 cut(s)	55, 320
BstNI	CCWGG	3 cut(s)	143, 711, 813
BstNSI	RCATGY	2 cut(s)	318, 394
BstSCI	CCNGG	3 cut(s)	141, 709, 811
BstSLI	GKGCMC	1 cut(s)	471
BstV1I	GCAGC	2 cut(s)	509, 1037
BstX2I	RGATCY	1 cut(s)	457
BstXI	CCANNNNNNTGG	1 cut(s)	710
BstYI	RGATCY	1 cut(s)	457
BsuRI	GGCC	2 cut(s)	624, 759
BtgZI	GCGATG	1 cut(s)	913
BtsCI	GGATG	3 cut(s)	59, 238, 762
BtsIMutI	CAGTG	4 cut(s)	201, 270, 786, 852
Cac8I	GCNNGC	2 cut(s)	316, 539
CaiI	CAGNNNCTG	1 cut(s)	732
CciI	TCATGA	1 cut(s)	262
Cfr13I	GGNCC	3 cut(s)	623, 700, 791
CsiI	ACCWGGT	1 cut(s)	141
CviAII	CATG	8 cut(s)	97, 263, 315, 391, 581, 631, 748, 772
DdeI	CTNAG	3 cut(s)	273, 549, 1013
DpnI	GATC	4 cut(s)	27, 297, 459, 906
DpnII	GATC	4 cut(s)	25, 295, 457, 904
Ecl136II	GAGCTC	1 cut(s)	856
Eco130I	CCWWGG	1 cut(s)	210
Eco24I	GRGCYC	1 cut(s)	858
Eco31I	GGTCTC	1 cut(s)	545
Eco47I	GGWCC	2 cut(s)	700, 791
Eco53kI	GAGCTC	1 cut(s)	856
Eco57I	CTGAAG	1 cut(s)	426
EcoICRI	GAGCTC	1 cut(s)	856
EcoRII	CCWGG	3 cut(s)	141, 709, 811
EcoT14I	CCWWGG	1 cut(s)	210
EcoT38I	GRGCYC	1 cut(s)	858
ErhI	CCWWGG	1 cut(s)	210
Esp3I	CGTCTC	1 cut(s)	773
FaeI	CATG	8 cut(s)	100, 266, 318, 394, 584, 634, 751, 775
FatI	CATG	8 cut(s)	96, 262, 314, 390, 580, 630, 747, 771
FauI	CCCGC	1 cut(s)	873
FauNDI	CATATG	1 cut(s)	619
Fnu4HI	GCNGC	3 cut(s)	47, 523, 1026
FokI	GGATG	3 cut(s)	46, 225, 749
FriOI	GRGCYC	1 cut(s)	858
Fsp4HI	GCNGC	3 cut(s)	47, 523, 1026
GluI	GCNGC	3 cut(s)	47, 523, 1026
GsaI	CCCAGC	2 cut(s)	323, 953
GsuI	CTGGAG	1 cut(s)	135
HaeIII	GGCC	2 cut(s)	624, 759
Hin1II	CATG	8 cut(s)	100, 266, 318, 394, 584, 634, 751, 775
HincII	GTYRAC	2 cut(s)	148, 502
HindII	GTYRAC	2 cut(s)	148, 502
HinfI	GANTC	3 cut(s)	102, 126, 606
HpaI	GTTAAC	1 cut(s)	502
HphI	GGTGA	3 cut(s)	20, 131, 827
Hpy166II	GTNNAC	3 cut(s)	148, 469, 502
Hpy188I	TCNGA	5 cut(s)	300, 445, 745, 1014, 1022
Hpy188III	TCNNGA	3 cut(s)	263, 683, 899
Hpy8I	GTNNAC	3 cut(s)	148, 469, 502
HpyAV	CCTTC	3 cut(s)	770, 844, 974
HpyCH4III	ACNGT	2 cut(s)	700, 847
HpyCH4V	TGCA	2 cut(s)	314, 469
HpyF10VI	GCNNNNNNNGC	2 cut(s)	55, 320
HpyF3I	CTNAG	3 cut(s)	273, 549, 1013
Hsp92II	CATG	8 cut(s)	100, 266, 318, 394, 584, 634, 751, 775
KspAI	GTTAAC	1 cut(s)	502
Kzo9I	GATC	4 cut(s)	25, 295, 457, 904
LmnI	GCTCC	7 cut(s)	119, 212, 416, 519, 853, 958, 1022
Lsp1109I	GCAGC	2 cut(s)	509, 1037
MabI	ACCWGGT	1 cut(s)	141
MaeIII	GTNAC	3 cut(s)	109, 268, 734
MalI	GATC	4 cut(s)	27, 297, 459, 906
MboI	GATC	4 cut(s)	25, 295, 457, 904
MboII	GAAGA	2 cut(s)	6, 601
MfeI	CAATTG	1 cut(s)	507
MflI	RGATCY	1 cut(s)	457
MhlI	GDGCHC	3 cut(s)	471, 786, 858
MluCI	AATT	6 cut(s)	10, 80, 330, 507, 818, 944
MmeI	TCCRAC	2 cut(s)	117, 394
MseI	TTAA	4 cut(s)	155, 222, 501, 879
MspR9I	CCNGG	3 cut(s)	143, 711, 813
MunI	CAATTG	1 cut(s)	507
MvaI	CCWGG	3 cut(s)	143, 711, 813
MwoI	GCNNNNNNNGC	2 cut(s)	55, 320
NdeI	CATATG	1 cut(s)	619
NdeII	GATC	4 cut(s)	25, 295, 457, 904
NlaIII	CATG	8 cut(s)	100, 266, 318, 394, 584, 634, 751, 775
NlaIV	GGNNCC	3 cut(s)	208, 793, 960
NmuCI	GTSAC	1 cut(s)	268
NspI	RCATGY	2 cut(s)	318, 394
PaeI	GCATGC	1 cut(s)	318
PagI	TCATGA	1 cut(s)	262
PfeI	GAWTC	3 cut(s)	102, 126, 606
PkrI	GCNGC	3 cut(s)	48, 524, 1027
PshBI	ATTAAT	1 cut(s)	155
Psp124BI	GAGCTC	1 cut(s)	858
Psp6I	CCWGG	3 cut(s)	141, 709, 811
PspFI	CCCAGC	2 cut(s)	319, 949
PspGI	CCWGG	3 cut(s)	141, 709, 811
PspN4I	GGNNCC	3 cut(s)	208, 793, 960
PspPI	GGNCC	3 cut(s)	623, 700, 791
PstNI	CAGNNNCTG	1 cut(s)	732
PsuI	RGATCY	1 cut(s)	457
SacI	GAGCTC	1 cut(s)	858
SaqAI	TTAA	4 cut(s)	155, 222, 501, 879
SatI	GCNGC	3 cut(s)	47, 523, 1026
Sau3AI	GATC	4 cut(s)	25, 295, 457, 904
Sau96I	GGNCC	3 cut(s)	623, 700, 791
ScrFI	CCNGG	3 cut(s)	143, 711, 813
SduI	GDGCHC	3 cut(s)	471, 786, 858
SexAI	ACCWGGT	1 cut(s)	141
SinI	GGWCC	2 cut(s)	700, 791
SmlI	CTYRAG	1 cut(s)	672
SmoI	CTYRAG	1 cut(s)	672
SphI	GCATGC	1 cut(s)	318
Sse9I	AATT	6 cut(s)	10, 80, 330, 507, 818, 944
SsiI	CCGC	2 cut(s)	47, 866
SspI	AATATT	1 cut(s)	637
SstI	GAGCTC	1 cut(s)	858
StyD4I	CCNGG	3 cut(s)	141, 709, 811
StyI	CCWWGG	1 cut(s)	210
TaaI	ACNGT	2 cut(s)	700, 847
TaqI	TCGA	1 cut(s)	682
TasI	AATT	6 cut(s)	10, 80, 330, 507, 818, 944
TauI	GCSGC	1 cut(s)	49
TfiI	GAWTC	3 cut(s)	102, 126, 606
Tru1I	TTAA	4 cut(s)	155, 222, 501, 879
Tru9I	TTAA	4 cut(s)	155, 222, 501, 879
TscAI	CASTG	4 cut(s)	208, 277, 793, 852
TseFI	GTSAC	1 cut(s)	268
TseI	GCWGC	2 cut(s)	522, 1025
Tsp45I	GTSAC	1 cut(s)	268
TspDTI	ATGAA	4 cut(s)	118, 180, 647, 702
TspGWI	ACGGA	2 cut(s)	755, 998
TspRI	CASTG	4 cut(s)	208, 277, 793, 852
VneI	GTGCAC	1 cut(s)	467
VpaK11BI	GGWCC	2 cut(s)	700, 791
VspI	ATTAAT	1 cut(s)	155
XapI	RAATTY	2 cut(s)	80, 818
XceI	RCATGY	2 cut(s)	318, 394

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