Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002413

Physical Location & Seq

Genomic Coordinates Forward (+)

10539957 .. 10543185

Gene Structure 3229 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00289940.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGGCTACTAATGGAGAACATGCTTCTACCAAACCGCCTCCAACCCCCTCTCCTCTAAGGAATGCCAAATTCTTTCAGGCAAATATGAGAATTTTGGTTACTGGAGGAGCTGGATTCATTGGCTCTCACCTAGTCGACAAGCTGATGGAAAACGAGAAGAATGAGGTAATTGTTGCAGATAACTACTTCACTGGCTCAAAGGACAACCTTAAGAAATGGATTGGTCATCCAAGATTCGAGCTTATTCGTCATGATGTCACCGAGCCATTGCTGGTGGAGGTTGATCAAATATTCCATCTTGCTTGCCCTGCTTCTCCGATCTTCTACAAACACAATCCAGTAAAGACAATAAAGACAAATGTGATCGGTACATTGAACATGCTGGGACTGGCCAAGCGAGTCGGAGCGAGGATTTTGCTCACTTCTACTTCGGAGGTGTATGGAGATCCTCTTATTCACCCTCAGGTTGAGAGCTACTGGGGAAATGTGAATCCAATTGGAGTTAGGAGTTGCTATGATGAGGGAAAGCGAGTGGCTGAAACATTGATGTTTGATTATCACAGGCAGCACGGCATAGAGATACGGATTGCTAGGATTTTCAACACTTATGGACCTCGCATGAATATTGATGATGGCCGTGTCGTCAGTAACTTCATAGCCCAAGCTATCCGGAATGACCCCTTGACTGTTCAAGCACCTGGAACACAGACAAGGAGTTTCTGCTACGTCTCTGACATGGTTGATGGCCTTATTCGACTTATGGAAGGCGACAACACTGGTCCAATCAACATTGGGAATCCAGGTGAATTTACAATGCTCGAACTCGCAGAGAATGTCAAGGAGCTTATCAATCCTAAGGTGGAGATTAAAATGGTTGAAAACACACCTGATGATCCTCGACAGAGGAAGCCTGACATCTCAAAAGCAAAGGAGTTGCTGGGATGGGAACCAAAGGTCAAGTTGCGTGACGGTCTGCCCCTCATGGAGGATGATTTCCGTACAAGACTTGGTGTCCCCAGAAATTAA

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

341

Amino Acids

38.32

Weight (kDa)

7.13

Isoelectric Point (pI)

28.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RmlD_sub_bind	PF04321	29 - 292	2.7e-07	RmlD substrate binding domain
Epimerase	PF01370	31 - 265	1.5e-45	NAD dependent epimerase/dehydratase family
Polysacc_synt_2	PF02719	31 - 138	9.2e-08	Polysaccharide biosynthesis protein
GDP_Man_Dehyd	PF16363	32 - 326	1.4e-49	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	32 - 184	1.1e-12	3-beta hydroxysteroid dehydrogenase/isomerase family
NAD_binding_4	PF07993	87 - 201	3.5e-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)

Image

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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)	135
AccIII	TCCGGA	1 cut(s)	669
AciI	CCGC	1 cut(s)	35
AclWI	GGATC	2 cut(s)	440, 887
AcoI	YGGCCR	2 cut(s)	390, 634
AcsI	RAATTY	3 cut(s)	68, 90, 806
AfaI	GTAC	2 cut(s)	370, 1000
AfiI	CCNNNNNNNGG	1 cut(s)	985
AflII	CTTAAG	1 cut(s)	209
AgsI	TTSAA	4 cut(s)	376, 601, 692, 878
AhdI	GACNNNNNGTC	1 cut(s)	1010
AjnI	CCWGG	2 cut(s)	697, 799
AluBI	AGCT	6 cut(s)	110, 142, 241, 474, 665, 844
AluI	AGCT	6 cut(s)	110, 142, 241, 474, 665, 844
Alw26I	GTCTC	1 cut(s)	733
AlwI	GGATC	2 cut(s)	440, 887
Aor13HI	TCCGGA	1 cut(s)	669
AoxI	GGCC	3 cut(s)	390, 634, 745
ApeKI	GCWGC	1 cut(s)	565
ApoI	RAATTY	3 cut(s)	68, 90, 806
AspS9I	GGNCC	2 cut(s)	611, 779
AsuHPI	GGTGA	4 cut(s)	119, 250, 449, 815
AvaII	GGWCC	2 cut(s)	611, 779
AxyI	CCTNAGG	2 cut(s)	462, 855
BalI	TGGCCA	1 cut(s)	392
BbvI	GCAGC	1 cut(s)	577
BccI	CCATC	5 cut(s)	139, 303, 626, 737, 936
BceAI	ACGGC	2 cut(s)	586, 621
BcgI	CGANNNNNNTGC	2 cut(s)	397, 431
BciT130I	CCWGG	2 cut(s)	699, 801
BclI	TGATCA	1 cut(s)	283
BcoDI	GTCTC	1 cut(s)	733
BfaI	CTAG	2 cut(s)	131, 591
BfrI	CTTAAG	1 cut(s)	209
BisI	GCNGC	1 cut(s)	566
BlsI	GCNGC	1 cut(s)	567
Bme1390I	CCNGG	2 cut(s)	699, 801
Bme18I	GGWCC	2 cut(s)	611, 779
BmeRI	GACNNNNNGTC	1 cut(s)	1010
BmgT120I	GGNCC	2 cut(s)	611, 779
BmiI	GGNNCC	1 cut(s)	948
BmrFI	CCNGG	2 cut(s)	699, 801
BmrI	ACTGGG	1 cut(s)	487
BmuI	ACTGGG	1 cut(s)	487
BpmI	CTGGAG	1 cut(s)	123
BsaWI	WCCGGW	1 cut(s)	669
BsaXI	ACNNNNNCTCC	2 cut(s)	34, 64
Bsc4I	CCNNNNNNNGG	1 cut(s)	985
Bse1I	ACTGG	6 cut(s)	106, 196, 338, 393, 482, 781
Bse21I	CCTNAGG	2 cut(s)	462, 855
Bse3DI	GCAATG	1 cut(s)	266
BseAI	TCCGGA	1 cut(s)	669
BseBI	CCWGG	2 cut(s)	699, 801
BseGI	GGATG	3 cut(s)	226, 947, 994
BseLI	CCNNNNNNNGG	1 cut(s)	985
BseMI	GCAATG	1 cut(s)	266
BseMII	CTCAG	1 cut(s)	476
BseNI	ACTGG	6 cut(s)	106, 196, 338, 393, 482, 781
BseRI	GAGGAG	2 cut(s)	42, 120
BseXI	GCAGC	1 cut(s)	577
BseYI	CCCAGC	2 cut(s)	382, 937
BshFI	GGCC	3 cut(s)	392, 636, 747
BsiSI	CCGG	1 cut(s)	670
BslFI	GGGAC	2 cut(s)	399, 998
BslI	CCNNNNNNNGG	1 cut(s)	985
BsmAI	GTCTC	1 cut(s)	733
BsmBI	CGTCTC	1 cut(s)	733
BsmFI	GGGAC	2 cut(s)	399, 998
BsmI	GAATGC	1 cut(s)	67
BsnI	GGCC	3 cut(s)	392, 636, 747
Bsp13I	TCCGGA	1 cut(s)	669
Bsp143I	GATC	5 cut(s)	283, 318, 363, 445, 892
BspACI	CCGC	1 cut(s)	35
BspANI	GGCC	3 cut(s)	392, 636, 747
BspCNI	CTCAG	1 cut(s)	475
BspEI	TCCGGA	1 cut(s)	669
BspHI	TCATGA	1 cut(s)	250
BspLI	GGNNCC	1 cut(s)	948
BspPI	GGATC	2 cut(s)	440, 887
BspTI	CTTAAG	1 cut(s)	209
BsrDI	GCAATG	1 cut(s)	266
BsrI	ACTGG	6 cut(s)	106, 196, 338, 393, 482, 781
BssMI	GATC	5 cut(s)	283, 318, 363, 445, 892
Bst2UI	CCWGG	2 cut(s)	699, 801
Bst4CI	ACNGT	2 cut(s)	688, 971
BstAFI	CTTAAG	1 cut(s)	209
BstC8I	GCNNGC	1 cut(s)	304
BstDEI	CTNAG	3 cut(s)	56, 462, 855
BstENI	CCTNNNNNAGG	1 cut(s)	983
BstF5I	GGATG	3 cut(s)	226, 947, 994
BstKTI	GATC	5 cut(s)	286, 321, 366, 448, 895
BstMAI	GTCTC	1 cut(s)	733
BstMBI	GATC	5 cut(s)	283, 318, 363, 445, 892
BstMWI	GCNNNNNNNGC	1 cut(s)	308
BstNI	CCWGG	2 cut(s)	699, 801
BstNSI	RCATGY	2 cut(s)	23, 382
BstSCI	CCNGG	2 cut(s)	697, 799
BstV1I	GCAGC	1 cut(s)	577
BstX2I	RGATCY	1 cut(s)	445
BstYI	RGATCY	1 cut(s)	445
Bsu36I	CCTNAGG	2 cut(s)	462, 855
BsuRI	GGCC	3 cut(s)	392, 636, 747
BtsCI	GGATG	3 cut(s)	226, 947, 994
BtsIMutI	CAGTG	2 cut(s)	189, 774
Cac8I	GCNNGC	1 cut(s)	304
CciI	TCATGA	1 cut(s)	250
Cfr13I	GGNCC	2 cut(s)	611, 779
Csp6I	GTAC	2 cut(s)	369, 999
CviAII	CATG	6 cut(s)	20, 251, 379, 619, 736, 982
CviQI	GTAC	2 cut(s)	369, 999
DdeI	CTNAG	3 cut(s)	56, 462, 855
DpnI	GATC	5 cut(s)	285, 320, 365, 447, 894
DpnII	GATC	5 cut(s)	283, 318, 363, 445, 892
DriI	GACNNNNNGTC	1 cut(s)	1010
EaeI	YGGCCR	2 cut(s)	390, 634
Eam1105I	GACNNNNNGTC	1 cut(s)	1010
Eco47I	GGWCC	2 cut(s)	611, 779
Eco81I	CCTNAGG	2 cut(s)	462, 855
EcoNI	CCTNNNNNAGG	1 cut(s)	983
EcoRII	CCWGG	2 cut(s)	697, 799
Esp3I	CGTCTC	1 cut(s)	733
FaeI	CATG	6 cut(s)	23, 254, 382, 622, 739, 985
FaqI	GGGAC	2 cut(s)	399, 998
FatI	CATG	6 cut(s)	19, 250, 378, 618, 735, 981
FbaI	TGATCA	1 cut(s)	283
FblI	GTMKAC	1 cut(s)	135
Fnu4HI	GCNGC	1 cut(s)	566
FokI	GGATG	3 cut(s)	213, 954, 1001
Fsp4HI	GCNGC	1 cut(s)	566
FspBI	CTAG	2 cut(s)	131, 591
GluI	GCNGC	1 cut(s)	566
GsaI	CCCAGC	2 cut(s)	386, 941
GsuI	CTGGAG	1 cut(s)	123
HaeIII	GGCC	3 cut(s)	392, 636, 747
HapII	CCGG	1 cut(s)	670
Hin1II	CATG	6 cut(s)	23, 254, 382, 622, 739, 985
HincII	GTYRAC	1 cut(s)	136
HindII	GTYRAC	1 cut(s)	136
HinfI	GANTC	5 cut(s)	114, 234, 399, 490, 796
HpaII	CCGG	1 cut(s)	670
HphI	GGTGA	4 cut(s)	119, 250, 449, 815
Hpy166II	GTNNAC	1 cut(s)	136
Hpy188I	TCNGA	4 cut(s)	318, 404, 433, 733
Hpy188III	TCNNGA	2 cut(s)	251, 670
Hpy8I	GTNNAC	1 cut(s)	136
HpyAV	CCTTC	1 cut(s)	758
HpyCH4III	ACNGT	2 cut(s)	688, 971
HpyCH4IV	ACGT	1 cut(s)	726
HpyCH4V	TGCA	1 cut(s)	176
HpyF10VI	GCNNNNNNNGC	1 cut(s)	308
HpyF3I	CTNAG	3 cut(s)	56, 462, 855
HpySE526I	ACGT	1 cut(s)	726
Hsp92II	CATG	6 cut(s)	23, 254, 382, 622, 739, 985
Kpn2I	TCCGGA	1 cut(s)	669
Ksp22I	TGATCA	1 cut(s)	283
Kzo9I	GATC	5 cut(s)	283, 318, 363, 445, 892
LmnI	GCTCC	3 cut(s)	107, 404, 841
Lsp1109I	GCAGC	1 cut(s)	577
MaeI	CTAG	2 cut(s)	131, 591
MaeII	ACGT	1 cut(s)	726
MaeIII	GTNAC	4 cut(s)	97, 256, 647, 965
MalI	GATC	5 cut(s)	285, 320, 365, 447, 894
MboI	GATC	5 cut(s)	283, 318, 363, 445, 892
MboII	GAAGA	2 cut(s)	169, 313
MfeI	CAATTG	1 cut(s)	495
MflI	RGATCY	1 cut(s)	445
MlsI	TGGCCA	1 cut(s)	392
MluCI	AATT	6 cut(s)	68, 90, 168, 495, 806, 1021
MluNI	TGGCCA	1 cut(s)	392
MlyI	GAGTC	1 cut(s)	408
MmeI	TCCRAC	2 cut(s)	65, 382
Mox20I	TGGCCA	1 cut(s)	392
MroI	TCCGGA	1 cut(s)	669
MscI	TGGCCA	1 cut(s)	392
MseI	TTAA	3 cut(s)	210, 867, 1024
Msp20I	TGGCCA	1 cut(s)	392
MspCI	CTTAAG	1 cut(s)	209
MspI	CCGG	1 cut(s)	670
MspR9I	CCNGG	2 cut(s)	699, 801
MunI	CAATTG	1 cut(s)	495
Mva1269I	GAATGC	1 cut(s)	67
MvaI	CCWGG	2 cut(s)	699, 801
MwoI	GCNNNNNNNGC	1 cut(s)	308
NdeII	GATC	5 cut(s)	283, 318, 363, 445, 892
NlaIII	CATG	6 cut(s)	23, 254, 382, 622, 739, 985
NlaIV	GGNNCC	1 cut(s)	948
NmuCI	GTSAC	2 cut(s)	256, 965
NspI	RCATGY	2 cut(s)	23, 382
PagI	TCATGA	1 cut(s)	250
PctI	GAATGC	1 cut(s)	67
PfeI	GAWTC	4 cut(s)	114, 234, 490, 796
PkrI	GCNGC	1 cut(s)	567
PleI	GAGTC	1 cut(s)	407
PpsI	GAGTC	1 cut(s)	407
Psp6I	CCWGG	2 cut(s)	697, 799
PspFI	CCCAGC	2 cut(s)	382, 937
PspGI	CCWGG	2 cut(s)	697, 799
PspN4I	GGNNCC	1 cut(s)	948
PspPI	GGNCC	2 cut(s)	611, 779
PsuI	RGATCY	1 cut(s)	445
RsaI	GTAC	2 cut(s)	370, 1000
RsaNI	GTAC	2 cut(s)	369, 999
SalI	GTCGAC	1 cut(s)	134
SaqAI	TTAA	3 cut(s)	210, 867, 1024
SatI	GCNGC	1 cut(s)	566
Sau3AI	GATC	5 cut(s)	283, 318, 363, 445, 892
Sau96I	GGNCC	2 cut(s)	611, 779
SchI	GAGTC	1 cut(s)	408
ScrFI	CCNGG	2 cut(s)	699, 801
SinI	GGWCC	2 cut(s)	611, 779
SmlI	CTYRAG	1 cut(s)	209
SmoI	CTYRAG	1 cut(s)	209
Sse9I	AATT	6 cut(s)	68, 90, 168, 495, 806, 1021
SsiI	CCGC	1 cut(s)	35
SspI	AATATT	2 cut(s)	291, 625
SspMI	CTAG	2 cut(s)	131, 591
StyD4I	CCNGG	2 cut(s)	697, 799
TaaI	ACNGT	2 cut(s)	688, 971
TaiI	ACGT	1 cut(s)	729
TaqI	TCGA	5 cut(s)	135, 237, 754, 819, 898
TasI	AATT	6 cut(s)	68, 90, 168, 495, 806, 1021
TfiI	GAWTC	4 cut(s)	114, 234, 490, 796
Tru1I	TTAA	3 cut(s)	210, 867, 1024
Tru9I	TTAA	3 cut(s)	210, 867, 1024
TscAI	CASTG	2 cut(s)	196, 781
TseFI	GTSAC	2 cut(s)	256, 965
TseI	GCWGC	1 cut(s)	565
Tsp45I	GTSAC	2 cut(s)	256, 965
TspDTI	ATGAA	3 cut(s)	106, 635, 643
TspGWI	ACGGA	2 cut(s)	598, 986
TspRI	CASTG	2 cut(s)	196, 781
Vha464I	CTTAAG	1 cut(s)	209
VpaK11BI	GGWCC	2 cut(s)	611, 779
XagI	CCTNNNNNAGG	1 cut(s)	983
XapI	RAATTY	3 cut(s)	68, 90, 806
XceI	RCATGY	2 cut(s)	23, 382
XmiI	GTMKAC	1 cut(s)	135
XspI	CTAG	2 cut(s)	131, 591

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