Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0001989

Physical Location & Seq

Genomic Coordinates Reverse (-)

48403255 .. 48416037

Gene Structure 12783 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG287900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGAATATGAATCTCAATTTCATTCTGGATTTGGCCTGGGTTGGTAACGTTGCTTTCAATAACAAAACAAGACGTTTATGCTTCAGCAAGAAGAAGAGCGGCGCCGTTTCGGCCGAAATTGAAACCAGTGAGCGAGTGGGGCTTATAGATGAGGCTAAGAGCAGAAAGAAGAATGAGGTGCTTGTGGTTCCTTACGAATTCTTACACATGTCTACTGATGTTGAGAAAATTGAGGAGATGCTGGACAAGCTTGTTCAATGGAGTATAAAGTCAACAATGGAAATTTTTGATGGGTTGACATCTCTTGACTTAATTGTTAATCAAATTGAGTCTCTCAATTCTAAGTATCACTGCAGTGTTCCTTTGGTCCTTGTGAACACAGATAGTACACATGAAAATACGCTGGAGCATGCTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGATACTACAAGATCATTCAATATGATTTACACCAAGAACACAGAACCACAGGCACATATTGCAACTAAAGCATTCAAGAACACAACTTATGAAGAAATTCAAAGTAGAATAAAGGAAACTGCAAAAACACCACTGACTACTTACAGATTCATTGTGACCCGTCAAAGAATGCATCAAGGTACCATCAGAAGCATTTCGTACACATTCTACAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000313 GO:0000314 GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005759 GO:0005761 GO:0005763 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0015935 GO:0019538 GO:0031974 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0070013 GO:0071704 GO:0098798 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko00040 ko00052 ko00500 ko00520 ko01100 ko01130 ko03010 map00040 map00052 map00500 map00520 map01100 map01130 map03010

Pfam Domains

Protein Families

Ribosomal_S2 UDPGP

Protein Analysis

231

Amino Acids

26.75

Weight (kDa)

6.19

Isoelectric Point (pI)

45.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UDPGP	PF01704	89 - 138	8.4e-11	UTP--glucose-1-phosphate uridylyltransferase
Plant_NMP1	PF06694	131 - 181	8.1e-15	Plant nuclear matrix protein 1 (NMP1)

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: OG0001989)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19450 AT1G75220
fragaria_vesca	FvH4_2g39720 FvH4_2g39720
malus_domestica	MD08G1030900.v1.1 MD15G1026400.v1.1
prunus_persica	Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1
pyrus_communis	pycom08g02430 pycom15g02240
rosa_chinensis	RchiOBHm_Chr2g0113321 RchiOBHm_Chr6g0286231 RchiOBHm_Chr6g0301141
rosa_laevigata	RLG00000011274 RLG00000023030 RLG00000029784
rosa_multiflora	Rmu_sc0000163.1_g000001 Rmu_sc0003433.1_g000002
rosa_roxburghii	Rroxscaffold_172G00445490 Rroxscaffold_1G00005260 Rroxscaffold_2G00122730 Rroxscaffold_6G00422220 Rroxscaffold_7G00167120
rosa_rugosa	Rorug02G0291400 Rorug06G0302000
rosa_samantha	Rh1CG067500 Rh1DG072300 Rh2BG617500 Rh2CG245100 Rh3DG215300 Rh4AG195000 Rh4BG151200 Rh5DG350800 Rh6AG287900 Rh6AG415200 Rh6BG422100 Rh6CG295000 Rh6CG429700 Rh6DG287000 Rh6DG415000 Rh7DG331600
rosa_wichuraiana	Rw3G027690 Rw4G014840 Rw5G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	659
AccB1I	GGYRCC	2 cut(s)	101, 659
AccBSI	CCGCTC	1 cut(s)	99
AccI	GTMKAC	1 cut(s)	212
AciI	CCGC	1 cut(s)	99
AclI	AACGTT	1 cut(s)	48
AcoI	YGGCCR	1 cut(s)	111
AcsI	RAATTY	3 cut(s)	197, 282, 576
AcuI	CTGAAG	1 cut(s)	67
AcyI	GRCGYC	1 cut(s)	102
AfaI	GTAC	3 cut(s)	388, 661, 680
AfiI	CCNNNNNNNGG	1 cut(s)	427
AflIII	ACRYGT	1 cut(s)	207
AgsI	TTSAA	6 cut(s)	58, 122, 257, 499, 556, 581
AjnI	CCWGG	1 cut(s)	35
AleI	CACNNNNGTG	1 cut(s)	354
AluBI	AGCT	2 cut(s)	250, 693
AluI	AGCT	2 cut(s)	250, 693
Alw26I	GTCTC	1 cut(s)	336
AoxI	GGCC	2 cut(s)	33, 111
ApoI	RAATTY	3 cut(s)	197, 282, 576
Asp700I	GAANNNNTTC	3 cut(s)	474, 576, 673
Asp718I	GGTACC	1 cut(s)	659
AspLEI	GCGC	1 cut(s)	104
AspS9I	GGNCC	1 cut(s)	367
AvaII	GGWCC	1 cut(s)	367
BanI	GGYRCC	2 cut(s)	101, 659
BccI	CCATC	2 cut(s)	284, 671
BceAI	ACGGC	1 cut(s)	89
BciT130I	CCWGG	1 cut(s)	37
BcoDI	GTCTC	1 cut(s)	336
BfaI	CTAG	1 cut(s)	479
BfmI	CTRYAG	2 cut(s)	352, 688
BfoI	RGCGCY	1 cut(s)	105
BglI	GCCNNNNNGGC	1 cut(s)	110
BisI	GCNGC	1 cut(s)	100
BlsI	GCNGC	1 cut(s)	101
Bme1390I	CCNGG	1 cut(s)	37
Bme18I	GGWCC	1 cut(s)	367
BmgT120I	GGNCC	1 cut(s)	367
BmiI	GGNNCC	3 cut(s)	103, 189, 661
BmrFI	CCNGG	1 cut(s)	37
BmsI	GCATC	2 cut(s)	228, 661
BpmI	CTGGAG	1 cut(s)	425
BsaHI	GRCGYC	1 cut(s)	102
BsaJI	CCNNGG	1 cut(s)	36
Bsc4I	CCNNNNNNNGG	1 cut(s)	427
Bse1I	ACTGG	1 cut(s)	126
BseBI	CCWGG	1 cut(s)	37
BseDI	CCNNGG	1 cut(s)	36
BseLI	CCNNNNNNNGG	1 cut(s)	427
BseNI	ACTGG	1 cut(s)	126
BseRI	GAGGAG	2 cut(s)	248, 443
BseX3I	CGGCCG	1 cut(s)	111
Bsh1285I	CGRYCG	1 cut(s)	114
BshFI	GGCC	2 cut(s)	35, 113
BshNI	GGYRCC	2 cut(s)	101, 659
BsiEI	CGRYCG	1 cut(s)	114
BslI	CCNNNNNNNGG	1 cut(s)	427
BsmAI	GTCTC	1 cut(s)	336
BsmI	GAATGC	2 cut(s)	551, 654
BsnI	GGCC	2 cut(s)	35, 113
Bsp143I	GATC	1 cut(s)	491
BspACI	CCGC	1 cut(s)	99
BspANI	GGCC	2 cut(s)	35, 113
BspLI	GGNNCC	3 cut(s)	103, 189, 661
BspMAI	CTGCAG	1 cut(s)	356
BspQI	GCTCTTC	1 cut(s)	89
BspT107I	GGYRCC	2 cut(s)	101, 659
BsrBI	CCGCTC	1 cut(s)	99
BsrI	ACTGG	1 cut(s)	126
BssECI	CCNNGG	1 cut(s)	36
BssMI	GATC	1 cut(s)	491
BssNI	GRCGYC	1 cut(s)	102
Bst2UI	CCWGG	1 cut(s)	37
Bst6I	CTCTTC	1 cut(s)	89
BstACI	GRCGYC	1 cut(s)	102
BstAPI	GCANNNNNTGC	1 cut(s)	539
BstC8I	GCNNGC	1 cut(s)	411
BstDEI	CTNAG	2 cut(s)	156, 342
BstH2I	RGCGCY	1 cut(s)	105
BstHHI	GCGC	1 cut(s)	104
BstKTI	GATC	1 cut(s)	494
BstMAI	GTCTC	1 cut(s)	336
BstMBI	GATC	1 cut(s)	491
BstMCI	CGRYCG	1 cut(s)	114
BstMWI	GCNNNNNNNGC	5 cut(s)	110, 139, 247, 539, 548
BstNI	CCWGG	1 cut(s)	37
BstNSI	RCATGY	2 cut(s)	211, 413
BstSCI	CCNGG	1 cut(s)	35
BstSFI	CTRYAG	2 cut(s)	352, 688
BstZI	CGGCCG	1 cut(s)	111
BsuRI	GGCC	2 cut(s)	35, 113
BtsI	GCAGTG	2 cut(s)	349, 361
BtsIMutI	CAGTG	4 cut(s)	133, 349, 361, 611
Cac8I	GCNNGC	1 cut(s)	411
CfoI	GCGC	1 cut(s)	104
Cfr13I	GGNCC	1 cut(s)	367
Csp6I	GTAC	3 cut(s)	387, 660, 679
CviAII	CATG	3 cut(s)	208, 392, 410
CviJI	RGCY	6 cut(s)	35, 113, 142, 155, 250, 693
CviKI_1	RGCY	6 cut(s)	35, 113, 142, 155, 250, 693
CviQI	GTAC	3 cut(s)	387, 660, 679
DdeI	CTNAG	2 cut(s)	156, 342
DinI	GGCGCC	1 cut(s)	103
DpnI	GATC	1 cut(s)	493
DpnII	GATC	1 cut(s)	491
EaeI	YGGCCR	1 cut(s)	111
EagI	CGGCCG	1 cut(s)	111
Eam1104I	CTCTTC	1 cut(s)	89
EarI	CTCTTC	1 cut(s)	89
EclXI	CGGCCG	1 cut(s)	111
Eco47I	GGWCC	1 cut(s)	367
Eco52I	CGGCCG	1 cut(s)	111
Eco57I	CTGAAG	1 cut(s)	67
EcoRI	GAATTC	1 cut(s)	197
EcoRII	CCWGG	1 cut(s)	35
EcoT22I	ATGCAT	1 cut(s)	654
EgeI	GGCGCC	1 cut(s)	103
EheI	GGCGCC	1 cut(s)	103
FaeI	CATG	3 cut(s)	211, 395, 413
FatI	CATG	3 cut(s)	207, 391, 409
FblI	GTMKAC	1 cut(s)	212
Fnu4HI	GCNGC	1 cut(s)	100
Fsp4HI	GCNGC	1 cut(s)	100
FspBI	CTAG	1 cut(s)	479
GlaI	GCGC	1 cut(s)	103
GluI	GCNGC	1 cut(s)	100
GsuI	CTGGAG	1 cut(s)	425
HaeII	RGCGCY	1 cut(s)	105
HaeIII	GGCC	2 cut(s)	35, 113
HhaI	GCGC	1 cut(s)	104
Hin1I	GRCGYC	1 cut(s)	102
Hin1II	CATG	3 cut(s)	211, 395, 413
Hin6I	GCGC	1 cut(s)	102
HinP1I	GCGC	1 cut(s)	102
HincII	GTYRAC	2 cut(s)	273, 297
HindII	GTYRAC	2 cut(s)	273, 297
HindIII	AAGCTT	1 cut(s)	248
HinfI	GANTC	5 cut(s)	10, 329, 446, 470, 627
Hpy166II	GTNNAC	7 cut(s)	213, 273, 297, 376, 389, 461, 681
Hpy188I	TCNGA	1 cut(s)	668
Hpy188III	TCNNGA	5 cut(s)	26, 305, 450, 479, 556
Hpy8I	GTNNAC	7 cut(s)	213, 273, 297, 376, 389, 461, 681
HpyCH4IV	ACGT	2 cut(s)	48, 73
HpyCH4V	TGCA	5 cut(s)	354, 437, 542, 602, 652
HpyF10VI	GCNNNNNNNGC	5 cut(s)	110, 139, 247, 539, 548
HpyF3I	CTNAG	2 cut(s)	156, 342
HpySE526I	ACGT	2 cut(s)	48, 73
Hsp92I	GRCGYC	1 cut(s)	102
Hsp92II	CATG	3 cut(s)	211, 395, 413
HspAI	GCGC	1 cut(s)	102
KasI	GGCGCC	1 cut(s)	101
KpnI	GGTACC	1 cut(s)	663
Kzo9I	GATC	1 cut(s)	491
LguI	GCTCTTC	1 cut(s)	89
LmnI	GCTCC	1 cut(s)	406
LpnPI	CCDG	9 cut(s)	11, 22, 49, 139, 227, 389, 435, 463, 515
LweI	GCATC	2 cut(s)	228, 661
MaeI	CTAG	1 cut(s)	479
MaeII	ACGT	2 cut(s)	48, 73
MaeIII	GTNAC	2 cut(s)	44, 634
MalI	GATC	1 cut(s)	493
MbiI	CCGCTC	1 cut(s)	99
MboI	GATC	1 cut(s)	491
MboII	GAAGA	4 cut(s)	103, 106, 181, 584
MluCI	AATT	9 cut(s)	16, 117, 197, 228, 282, 312, 324, 337, 576
Mly113I	GGCGCC	1 cut(s)	102
MlyI	GAGTC	1 cut(s)	338
MnlI	CCTC	5 cut(s)	145, 169, 226, 421, 433
Mph1103I	ATGCAT	1 cut(s)	654
MroXI	GAANNNNTTC	3 cut(s)	474, 576, 673
MseI	TTAA	2 cut(s)	311, 318
MslI	CAYNNNNRTG	1 cut(s)	354
MspR9I	CCNGG	1 cut(s)	37
Mva1269I	GAATGC	2 cut(s)	551, 654
MvaI	CCWGG	1 cut(s)	37
MwoI	GCNNNNNNNGC	5 cut(s)	110, 139, 247, 539, 548
NarI	GGCGCC	1 cut(s)	102
NdeII	GATC	1 cut(s)	491
NlaIII	CATG	3 cut(s)	211, 395, 413
NlaIV	GGNNCC	3 cut(s)	103, 189, 661
NmuCI	GTSAC	1 cut(s)	634
NsiI	ATGCAT	1 cut(s)	654
NspI	RCATGY	2 cut(s)	211, 413
OliI	CACNNNNGTG	1 cut(s)	354
PaeI	GCATGC	1 cut(s)	413
PciI	ACATGT	1 cut(s)	207
PciSI	GCTCTTC	1 cut(s)	89
PctI	GAATGC	2 cut(s)	551, 654
PdmI	GAANNNNTTC	3 cut(s)	474, 576, 673
PfeI	GAWTC	4 cut(s)	10, 446, 470, 627
PkrI	GCNGC	1 cut(s)	101
PleI	GAGTC	1 cut(s)	337
PluTI	GGCGCC	1 cut(s)	105
PpsI	GAGTC	1 cut(s)	337
PscI	ACATGT	1 cut(s)	207
Psp1406I	AACGTT	1 cut(s)	48
Psp6I	CCWGG	1 cut(s)	35
PspGI	CCWGG	1 cut(s)	35
PspN4I	GGNNCC	3 cut(s)	103, 189, 661
PspPI	GGNCC	1 cut(s)	367
PstI	CTGCAG	1 cut(s)	356
RsaI	GTAC	3 cut(s)	388, 661, 680
RsaNI	GTAC	3 cut(s)	387, 660, 679
RseI	CAYNNNNRTG	1 cut(s)	354
SapI	GCTCTTC	1 cut(s)	89
SaqAI	TTAA	2 cut(s)	311, 318
SatI	GCNGC	1 cut(s)	100
Sau3AI	GATC	1 cut(s)	491
Sau96I	GGNCC	1 cut(s)	367
SchI	GAGTC	1 cut(s)	338
ScrFI	CCNGG	1 cut(s)	37
SetI	ASST	7 cut(s)	51, 76, 180, 252, 444, 661, 695
SfaNI	GCATC	2 cut(s)	228, 661
SfcI	CTRYAG	2 cut(s)	352, 688
SfoI	GGCGCC	1 cut(s)	103
SinI	GGWCC	1 cut(s)	367
SmiMI	CAYNNNNRTG	1 cut(s)	354
SphI	GCATGC	1 cut(s)	413
Sse9I	AATT	9 cut(s)	16, 117, 197, 228, 282, 312, 324, 337, 576
SsiI	CCGC	1 cut(s)	99
SspDI	GGCGCC	1 cut(s)	101
SspMI	CTAG	1 cut(s)	479
StyD4I	CCNGG	1 cut(s)	35
TaiI	ACGT	2 cut(s)	51, 76
TasI	AATT	9 cut(s)	16, 117, 197, 228, 282, 312, 324, 337, 576
TatI	WGTACW	1 cut(s)	386
TauI	GCSGC	1 cut(s)	102
TfiI	GAWTC	4 cut(s)	10, 446, 470, 627
Tru1I	TTAA	2 cut(s)	311, 318
Tru9I	TTAA	2 cut(s)	311, 318
TscAI	CASTG	4 cut(s)	133, 356, 361, 618
TseFI	GTSAC	1 cut(s)	634
Tsp45I	GTSAC	1 cut(s)	634
TspDTI	ATGAA	6 cut(s)	10, 17, 23, 408, 585, 619
TspRI	CASTG	4 cut(s)	133, 356, 361, 618
VpaK11BI	GGWCC	1 cut(s)	367
XapI	RAATTY	3 cut(s)	197, 282, 576
XbaI	TCTAGA	1 cut(s)	478
XceI	RCATGY	2 cut(s)	211, 413
XcmI	CCANNNNNNNNNTGG	1 cut(s)	133
XmiI	GTMKAC	1 cut(s)	212
XmnI	GAANNNNTTC	3 cut(s)	474, 576, 673
XspI	CTAG	1 cut(s)	479
Zsp2I	ATGCAT	1 cut(s)	654

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