Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0002493

Physical Location & Seq

Genomic Coordinates Forward (+)

35375453 .. 35381561

Gene Structure 6109 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG298000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1194 bp

ATGAGGAAGAGTTCAACTCTAATTTGTGCTCCGATCGTGGCCGAATCGGTGGCCATGATGGTGGTTGAGATTGGCAGGGCAAAGGCCGCTGGTGCTGACCTTGTGGAGATTCGATTGGACCATTTGAAGGTCTTCAATTGTAATCAAGATGTCAAGACCCTAATTGATCAATCCGCTTTGCCCACTCTTTTCACTTATAGACCAAAGTGGGAAGGTGGTCAGTATGATGGTGATGAAAAGAGCAGACTAGATGCGCTTCGACTAGCTATGGAGTTGGGGGCAGATTACATCGATGTTGAGCTTCAGGTTGCTCAAGAATTTATTGGCTCCATACAAGACAAGAAGCCTGAAAAGCTAAAAATTATTGTTTCTTCTCACAACTATCAAGAAACTCCATCTGTTGAGGCTCTTGGCAATCTTGTTGCAAAAATACAAGCCACTGGAGCTGATATAGTGAAGATTGCAACCTTTGCCTTGGATATCACTGATGTCGCTCGCATTTTTCAAATAACCGTGCATTCTCAAGTCCCAATAATTGGACTTGTAATGGGTGAAAGGGGTTTGATTTCACGGATACTCTGCGCCAAATTTGGTGGTTATCTTACCTTTGGCACAATTGATTCAGGAGCAGTTTCAGCTCCTGGTCAACCTACTATCAAGGATATCTTGCATCTATATAATGTCAGACAGATAGGGCCTGACACAAAAGTGTTCGGTATTATTGGAAAGCCCGTCAGCCACAGCAAATCGCCTATTTTGCATAATGAAGGATTCAAGTCAGTGGGTTTCAATGGAGTTTATGTACATTTGTTGGTGGATGACATTGCCAAATTTCTCAAGACATACTCATCTGCGGATTTTGCTGGTTTCAGTGTTACAATTCCTCACAAGGAAGCTGCACTTAAGTGCTGTGACGAGGTTGATCCAGTTGCAAAGTCAATAGGAGCTATTAATTGCATTATAAGGAGACCGACTGATGGAAAGTTATATGGATTAAATACGGACTACGTCGGGGCTATCTCTGCCATAGAGGATGGACTGCGAGGTTCACTCAACAGTTCCCTTGTAACTGGTTCCCCTTTAGCTGGTAGGCTATTTGTTGTCATAGGTGCCGGAGGTGCTGGCAAGGCCCTTGCTTATGGCGCAAAACAGAAGGGAGCAAGGATTGTGATTGCCAACCGCACCTATGGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004764 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009423 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016053 GO:0016491 GO:0016614 GO:0016616 GO:0019632 GO:0019752 GO:0022414 GO:0032501 GO:0032502 GO:0032787 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043648 GO:0043650 GO:0044237 GO:0044249 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046394 GO:0046417 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0055114 GO:0061458 GO:0071704 GO:1901576 GO:1901615

KEGG Pathways

Metabolic & Signaling

ko00400 ko01100 ko01110 ko01130 ko01230 map00400 map01100 map01110 map01130 map01230

Pfam Domains

Protein Families

DHquinase_I Shikimate_DH Shikimate_dh_N

Protein Analysis

397

Amino Acids

42.47

Weight (kDa)

8.38

Isoelectric Point (pI)

21.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DHquinase_I	PF01487	9 - 226	9.4e-69	Type I 3-dehydroquinase
Shikimate_dh_N	PF08501	240 - 320	4e-27	Shikimate dehydrogenase substrate binding domain

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: OG0002493)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06350
fragaria_vesca	FvH4_1g23213 FvH4_1g23213 FvH4_1g23213 FvH4_1g23232 FvH4_1g23232 FvH4_1g23232
malus_domestica	MD00G1130500.v1.1 MD15G1335600.v1.1
prunus_persica	Prupe.6G166100_v2.0.a1 Prupe.6G166100_v2.0.a1 Prupe.6G166100_v2.0.a1 Prupe.6G166200_v2.0.a1 Prupe.6G166200_v2.0.a1 Prupe.6G166200_v2.0.a1 Prupe.6G166200_v2.0.a1 Prupe.6G166200_v2.0.a1
pyrus_communis	pycom01g04680 pycom01g04700 pycom15g28990
rosa_chinensis	RchiOBHm_Chr2g0117991 RchiOBHm_Chr2g0118061
rosa_laevigata	RLG00000018384 RLG00000018389 RLG00000018397
rosa_multiflora	Rmu_sc0000948.1_g000018 Rmu_sc0000948.1_g000032
rosa_roxburghii	Rroxscaffold_2G00125870 Rroxscaffold_2G00126000 Rroxscaffold_2G00126080 Rroxscaffold_5G00352100
rosa_rugosa	Rorug02G0215100 Rorug02G0215200 Rorug02G0215500.1 Rorug02G0217000
rosa_samantha	Rh2BG283700 Rh2DG280600 Rh2DG298000 Rh2DG298700
rosa_wichuraiana	Rw2G021480 Rw2G021530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	962
AccB1I	GGYRCC	1 cut(s)	1109
AccB7I	CCANNNNNTGG	1 cut(s)	536
AciI	CCGC	4 cut(s)	87, 174, 854, 1180
AclWI	GGATC	1 cut(s)	917
AcoI	YGGCCR	2 cut(s)	39, 51
AcsI	RAATTY	3 cut(s)	317, 587, 830
AcuI	CTGAAG	1 cut(s)	287
AfaI	GTAC	1 cut(s)	804
AfiI	CCNNNNNNNGG	4 cut(s)	127, 536, 977, 1085
AflII	CTTAAG	1 cut(s)	902
AgsI	TTSAA	6 cut(s)	15, 127, 136, 506, 775, 790
AjnI	CCWGG	1 cut(s)	640
AleI	CACNNNNGTG	2 cut(s)	707, 904
AluBI	AGCT	8 cut(s)	266, 301, 355, 446, 638, 896, 947, 1085
AluI	AGCT	8 cut(s)	266, 301, 355, 446, 638, 896, 947, 1085
Alw21I	GWGCWC	1 cut(s)	31
Alw26I	GTCTC	1 cut(s)	961
AlwI	GGATC	1 cut(s)	917
AlwNI	CAGNNNCTG	1 cut(s)	641
AoxI	GGCC	5 cut(s)	39, 51, 84, 695, 1128
ApeKI	GCWGC	1 cut(s)	896
ApoI	RAATTY	3 cut(s)	317, 587, 830
AseI	ATTAAT	1 cut(s)	951
Asp700I	GAANNNNTTC	1 cut(s)	131
AspLEI	GCGC	3 cut(s)	256, 584, 1145
AspS9I	GGNCC	3 cut(s)	118, 695, 1129
AsuHPI	GGTGA	2 cut(s)	242, 563
AvaII	GGWCC	1 cut(s)	118
BalI	TGGCCA	1 cut(s)	53
BanI	GGYRCC	1 cut(s)	1109
BbsI	GAAGAC	1 cut(s)	124
Bbv12I	GWGCWC	1 cut(s)	31
BbvI	GCAGC	1 cut(s)	883
BccI	CCATC	5 cut(s)	52, 221, 403, 971, 1028
BciT130I	CCWGG	1 cut(s)	642
BciVI	GTATCC	1 cut(s)	567
BclI	TGATCA	1 cut(s)	166
BcoDI	GTCTC	1 cut(s)	961
BfaI	CTAG	2 cut(s)	248, 263
BfrI	CTTAAG	1 cut(s)	902
BfuI	GTATCC	1 cut(s)	567
BisI	GCNGC	2 cut(s)	87, 897
BlsI	GCNGC	2 cut(s)	88, 898
Bme1390I	CCNGG	1 cut(s)	642
Bme18I	GGWCC	1 cut(s)	118
BmgT120I	GGNCC	3 cut(s)	118, 695, 1129
BmiI	GGNNCC	3 cut(s)	328, 1075, 1111
BmrFI	CCNGG	1 cut(s)	642
BmsI	GCATC	2 cut(s)	241, 679
BpiI	GAAGAC	1 cut(s)	124
BplI	GAGNNNNNCTC	3 cut(s)	33, 1035, 1067
BpmI	CTGGAG	1 cut(s)	462
BpuEI	CTTGAG	3 cut(s)	297, 507, 821
Bsa29I	ATCGAT	1 cut(s)	291
BsaI	GGTCTC	1 cut(s)	961
BsaJI	CCNNGG	1 cut(s)	474
BsaXI	ACNNNNNCTCC	2 cut(s)	786, 816
Bsc4I	CCNNNNNNNGG	4 cut(s)	127, 536, 977, 1085
Bse1I	ACTGG	3 cut(s)	445, 926, 1075
Bse3DI	GCAATG	1 cut(s)	822
BseBI	CCWGG	1 cut(s)	642
BseCI	ATCGAT	1 cut(s)	291
BseDI	CCNNGG	1 cut(s)	474
BseGI	GGATG	2 cut(s)	823, 1039
BseLI	CCNNNNNNNGG	4 cut(s)	127, 536, 977, 1085
BseMI	GCAATG	1 cut(s)	822
BseNI	ACTGG	3 cut(s)	445, 926, 1075
BseXI	GCAGC	1 cut(s)	883
BsgI	GTGCAG	1 cut(s)	882
Bsh1285I	CGRYCG	1 cut(s)	36
BshFI	GGCC	5 cut(s)	41, 53, 86, 697, 1130
BshNI	GGYRCC	1 cut(s)	1109
BshVI	ATCGAT	1 cut(s)	291
BsiEI	CGRYCG	1 cut(s)	36
BsiHKAI	GWGCWC	1 cut(s)	31
BsiSI	CCGG	1 cut(s)	1113
BslFI	GGGAC	1 cut(s)	512
BslI	CCNNNNNNNGG	4 cut(s)	127, 536, 977, 1085
BsmAI	GTCTC	1 cut(s)	961
BsmFI	GGGAC	1 cut(s)	512
BsmI	GAATGC	1 cut(s)	517
BsnI	GGCC	5 cut(s)	41, 53, 86, 697, 1130
Bso31I	GGTCTC	1 cut(s)	961
Bsp1286I	GDGCHC	1 cut(s)	31
Bsp1407I	TGTACA	1 cut(s)	802
Bsp143I	GATC	3 cut(s)	33, 166, 922
BspACI	CCGC	4 cut(s)	87, 174, 854, 1180
BspANI	GGCC	5 cut(s)	41, 53, 86, 697, 1130
BspDI	ATCGAT	1 cut(s)	291
BspLI	GGNNCC	3 cut(s)	328, 1075, 1111
BspPI	GGATC	1 cut(s)	917
BspT107I	GGYRCC	1 cut(s)	1109
BspTI	CTTAAG	1 cut(s)	902
BspTNI	GGTCTC	1 cut(s)	961
BsrDI	GCAATG	1 cut(s)	822
BsrGI	TGTACA	1 cut(s)	802
BsrI	ACTGG	3 cut(s)	445, 926, 1075
BssECI	CCNNGG	1 cut(s)	474
BssMI	GATC	3 cut(s)	33, 166, 922
BssT1I	CCWWGG	1 cut(s)	474
Bst2UI	CCWGG	1 cut(s)	642
Bst4CI	ACNGT	2 cut(s)	514, 1058
Bst6I	CTCTTC	1 cut(s)	2
BstAFI	CTTAAG	1 cut(s)	902
BstAPI	GCANNNNNTGC	1 cut(s)	470
BstAUI	TGTACA	1 cut(s)	802
BstC8I	GCNNGC	2 cut(s)	496, 1123
BstF5I	GGATG	2 cut(s)	823, 1039
BstHHI	GCGC	3 cut(s)	256, 584, 1145
BstKTI	GATC	3 cut(s)	36, 169, 925
BstMAI	GTCTC	1 cut(s)	961
BstMBI	GATC	3 cut(s)	33, 166, 922
BstMCI	CGRYCG	1 cut(s)	36
BstNI	CCWGG	1 cut(s)	642
BstSCI	CCNGG	1 cut(s)	640
BstV1I	GCAGC	1 cut(s)	883
BstV2I	GAAGAC	1 cut(s)	124
BstXI	CCANNNNNNTGG	1 cut(s)	61
Bsu15I	ATCGAT	1 cut(s)	291
BsuI	GTATCC	1 cut(s)	567
BsuRI	GGCC	5 cut(s)	41, 53, 86, 697, 1130
BsuTUI	ATCGAT	1 cut(s)	291
BtsCI	GGATG	2 cut(s)	823, 1039
BtsIMutI	CAGTG	4 cut(s)	438, 483, 786, 877
Cac8I	GCNNGC	2 cut(s)	496, 1123
CaiI	CAGNNNCTG	1 cut(s)	641
CfoI	GCGC	3 cut(s)	256, 584, 1145
Cfr13I	GGNCC	3 cut(s)	118, 695, 1129
ClaI	ATCGAT	1 cut(s)	291
Csp6I	GTAC	1 cut(s)	803
CspCI	CAANNNNNGTGG	2 cut(s)	574, 609
CviAII	CATG	1 cut(s)	55
CviQI	GTAC	1 cut(s)	803
DpnI	GATC	3 cut(s)	35, 168, 924
DpnII	GATC	3 cut(s)	33, 166, 922
EaeI	YGGCCR	2 cut(s)	39, 51
Eam1104I	CTCTTC	1 cut(s)	2
EarI	CTCTTC	1 cut(s)	2
Eco130I	CCWWGG	1 cut(s)	474
Eco31I	GGTCTC	1 cut(s)	961
Eco32I	GATATC	2 cut(s)	481, 664
Eco47I	GGWCC	1 cut(s)	118
Eco57I	CTGAAG	1 cut(s)	287
EcoO109I	RGGNCCY	2 cut(s)	695, 1129
EcoRII	CCWGG	1 cut(s)	640
EcoRV	GATATC	2 cut(s)	481, 664
EcoT14I	CCWWGG	1 cut(s)	474
ErhI	CCWWGG	1 cut(s)	474
FaeI	CATG	1 cut(s)	58
FalI	AAGNNNNNCTT	4 cut(s)	650, 682, 885, 917
FaqI	GGGAC	1 cut(s)	512
FatI	CATG	1 cut(s)	54
FbaI	TGATCA	1 cut(s)	166
Fnu4HI	GCNGC	2 cut(s)	87, 897
FokI	GGATG	2 cut(s)	830, 1046
Fsp4HI	GCNGC	2 cut(s)	87, 897
FspBI	CTAG	2 cut(s)	248, 263
GlaI	GCGC	3 cut(s)	255, 583, 1144
GluI	GCNGC	2 cut(s)	87, 897
GsuI	CTGGAG	1 cut(s)	462
HaeIII	GGCC	5 cut(s)	41, 53, 86, 697, 1130
HapII	CCGG	1 cut(s)	1113
HhaI	GCGC	3 cut(s)	256, 584, 1145
Hin1II	CATG	1 cut(s)	58
Hin6I	GCGC	3 cut(s)	254, 582, 1143
HinP1I	GCGC	3 cut(s)	254, 582, 1143
HincII	GTYRAC	1 cut(s)	647
HindII	GTYRAC	1 cut(s)	647
HinfI	GANTC	4 cut(s)	44, 109, 620, 771
HpaII	CCGG	1 cut(s)	1113
HphI	GGTGA	2 cut(s)	242, 563
Hpy166II	GTNNAC	2 cut(s)	647, 1049
Hpy188I	TCNGA	2 cut(s)	33, 686
Hpy188III	TCNNGA	6 cut(s)	146, 154, 314, 386, 624, 838
Hpy8I	GTNNAC	2 cut(s)	647, 1049
Hpy99I	CGWCG	1 cut(s)	1013
HpyAV	CCTTC	4 cut(s)	121, 206, 761, 1147
HpyCH4III	ACNGT	2 cut(s)	514, 1058
HpyCH4IV	ACGT	1 cut(s)	1008
HpyCH4V	TGCA	8 cut(s)	425, 464, 517, 670, 760, 899, 932, 957
HpySE526I	ACGT	1 cut(s)	1008
Hsp92II	CATG	1 cut(s)	58
HspAI	GCGC	3 cut(s)	254, 582, 1143
Ksp22I	TGATCA	1 cut(s)	166
Kzo9I	GATC	3 cut(s)	33, 166, 922
LmnI	GCTCC	7 cut(s)	34, 332, 443, 626, 643, 944, 1157
Lsp1109I	GCAGC	1 cut(s)	883
LweI	GCATC	2 cut(s)	241, 679
MaeI	CTAG	2 cut(s)	248, 263
MaeII	ACGT	1 cut(s)	1008
MaeIII	GTNAC	3 cut(s)	874, 911, 1066
MalI	GATC	3 cut(s)	35, 168, 924
MboI	GATC	3 cut(s)	33, 166, 922
MboII	GAAGA	4 cut(s)	19, 124, 363, 469
MfeI	CAATTG	2 cut(s)	136, 615
MhlI	GDGCHC	1 cut(s)	31
MlsI	TGGCCA	1 cut(s)	53
MluNI	TGGCCA	1 cut(s)	53
MnlI	CCTC	6 cut(s)	397, 894, 910, 1024, 1037, 1109
Mox20I	TGGCCA	1 cut(s)	53
MroXI	GAANNNNTTC	1 cut(s)	131
MscI	TGGCCA	1 cut(s)	53
MseI	TTAA	3 cut(s)	903, 951, 995
MslI	CAYNNNNRTG	3 cut(s)	59, 707, 904
Msp20I	TGGCCA	1 cut(s)	53
MspA1I	CMGCKG	1 cut(s)	89
MspCI	CTTAAG	1 cut(s)	902
MspI	CCGG	1 cut(s)	1113
MspR9I	CCNGG	1 cut(s)	642
MunI	CAATTG	2 cut(s)	136, 615
Mva1269I	GAATGC	1 cut(s)	517
MvaI	CCWGG	1 cut(s)	642
NdeII	GATC	3 cut(s)	33, 166, 922
NlaIII	CATG	1 cut(s)	58
NlaIV	GGNNCC	3 cut(s)	328, 1075, 1111
NmuCI	GTSAC	1 cut(s)	911
OliI	CACNNNNGTG	2 cut(s)	707, 904
PctI	GAATGC	1 cut(s)	517
PdmI	GAANNNNTTC	1 cut(s)	131
PfeI	GAWTC	4 cut(s)	44, 109, 620, 771
PflFI	GACNNNGTC	1 cut(s)	1007
PflMI	CCANNNNNTGG	1 cut(s)	536
PkrI	GCNGC	2 cut(s)	88, 898
Ple19I	CGATCG	1 cut(s)	36
PshBI	ATTAAT	1 cut(s)	951
PsiI	TTATAA	1 cut(s)	962
Psp6I	CCWGG	1 cut(s)	640
PspGI	CCWGG	1 cut(s)	640
PspN4I	GGNNCC	3 cut(s)	328, 1075, 1111
PspPI	GGNCC	3 cut(s)	118, 695, 1129
PstNI	CAGNNNCTG	1 cut(s)	641
PsyI	GACNNNGTC	1 cut(s)	1007
PvuI	CGATCG	1 cut(s)	36
RsaI	GTAC	1 cut(s)	804
RsaNI	GTAC	1 cut(s)	803
RseI	CAYNNNNRTG	3 cut(s)	59, 707, 904
SaqAI	TTAA	3 cut(s)	903, 951, 995
SatI	GCNGC	2 cut(s)	87, 897
Sau3AI	GATC	3 cut(s)	33, 166, 922
Sau96I	GGNCC	3 cut(s)	118, 695, 1129
ScrFI	CCNGG	1 cut(s)	642
SduI	GDGCHC	1 cut(s)	31
SfaNI	GCATC	2 cut(s)	241, 679
SinI	GGWCC	1 cut(s)	118
SmiMI	CAYNNNNRTG	3 cut(s)	59, 707, 904
SmlI	CTYRAG	4 cut(s)	312, 522, 836, 902
SmoI	CTYRAG	4 cut(s)	312, 522, 836, 902
SsiI	CCGC	4 cut(s)	87, 174, 854, 1180
SspMI	CTAG	2 cut(s)	248, 263
StyD4I	CCNGG	1 cut(s)	640
StyI	CCWWGG	1 cut(s)	474
TaaI	ACNGT	2 cut(s)	514, 1058
TaiI	ACGT	1 cut(s)	1011
TaqI	TCGA	3 cut(s)	112, 259, 291
TaqII	GACCGA	1 cut(s)	985
TatI	WGTACW	1 cut(s)	802
TauI	GCSGC	1 cut(s)	89
TfiI	GAWTC	4 cut(s)	44, 109, 620, 771
Tru1I	TTAA	3 cut(s)	903, 951, 995
Tru9I	TTAA	3 cut(s)	903, 951, 995
TscAI	CASTG	4 cut(s)	445, 490, 786, 877
TseFI	GTSAC	1 cut(s)	911
TseI	GCWGC	1 cut(s)	896
Tsp45I	GTSAC	1 cut(s)	911
TspDTI	ATGAA	2 cut(s)	249, 780
TspGWI	ACGGA	2 cut(s)	586, 1016
TspRI	CASTG	4 cut(s)	445, 490, 786, 877
Tth111I	GACNNNGTC	1 cut(s)	1007
Van91I	CCANNNNNTGG	1 cut(s)	536
Vha464I	CTTAAG	1 cut(s)	902
VpaK11BI	GGWCC	1 cut(s)	118
VspI	ATTAAT	1 cut(s)	951
XapI	RAATTY	3 cut(s)	317, 587, 830
XmnI	GAANNNNTTC	1 cut(s)	131
XspI	CTAG	2 cut(s)	248, 263

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