Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0002493

Physical Location & Seq

Genomic Coordinates Forward (+)

35425260 .. 35431311

Gene Structure 6052 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG298700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1203 bp

ATGATTTCCCTACGAAACTCCCAGCAACTCCCATCTGATATTTTGTATTTTTCTAGACCAAAGTGGCAAGGTGGTCAGTATGATGGTGATGAAAAACATCGACTGGATGCTCTTCGATTAGCGATGGAGCTTGGAGCTGATTACATTGATGTCGAGTTTCAGGTTGCTCATGAATTCATCGACTCCATATATGGAAAGAAGCCTGACAAGTTTAAAGTTATTGTTTCTTCCCACAACTATCAAGATACTCCATCTGTCGAGGATCTCGGAGATCTTGTTGCTAGAATGCAAGCCACTGGAGCTGACATAGTCAGCATCACAACCACTGCCTTGGATATTACTGACGTAGCACGCATTTTTCAGATAACTGTGCATTCTCAAGTCCCAGTAATAGGACTTGCAATGGGTGAGAGGGGCTTGATTTCTCGGATACTCTGCGCAAAATTTGGTGGTTACCTTACTTCTGGTACACTCGATTCAGGAATTGTTTCAGTTCCTGGAGAACCTGCCATCAAGGATATATTACATGTATACAACTTCAGACTGATAAGACCTGGTACAAAACTGTTTGGTGTTATTGGAAAGCCTATCAGCCACAGCAAATCTCCTCTTCTCTACAATGAAGGATTCAAGTCAGTAGGTTTCGATGGAGTTTATCTACATCTTTTGGTAGATGACATTGCAAATTTTCTCCGTACTTACTCATCAACTGACTTTTCTGGATTCAGCGTTGGGATTCCTCACAAGGAAGCTGCAGTAAAGTGCTGTGATGAGGTTGATCCAGTTGCCAAGTCAATAGGAGCTGTTAACTGCATTGTAAGGAGGCCAACTGATGGGAAGTTATTTGGCTTAAATACTGACTATTTTGGGTCTATTTCTGCTATCGAGGATGGACTTCGAGGTTCACATGATAGAGACAATACCACTGGTTCACCTTTAGCTGGTAGGTTGTTTGTTGTCATGGGTGCCGGAGGTGCTGGAAAGGCGCTTGCTTATGGTGCAAAGCAGAAGGGAGCTAGAATTGTTATTGCCAACCGCAAATATGATCGAGCCAGAAAACTTGCAGACGAAGTTGGAGGAGATGCTTTGTCTTTTGCTGAATTAGAAAATTTCCACCCAGAGGACGGCATGGTTCTTGCAAATGCAACATCTGTCGGAATGCAACCGAATATTGATGAGACACCTATTCCTAAGGTTTGCTAG

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

400

Amino Acids

43.27

Weight (kDa)

5.95

Isoelectric Point (pI)

21.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DHquinase_I	PF01487	4 - 178	4.1e-48	Type I 3-dehydroquinase
Shikimate_dh_N	PF08501	192 - 272	4.1e-25	Shikimate dehydrogenase substrate binding domain
Shikimate_DH	PF01488	314 - 371	1.2e-06	Shikimate / quinate 5-dehydrogenase

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)
Acc16I	TGCGCA	1 cut(s)	439
Acc36I	ACCTGC	1 cut(s)	514
AccB1I	GGYRCC	1 cut(s)	965
AccB7I	CCANNNNNTGG	1 cut(s)	833
AccI	GTMKAC	1 cut(s)	531
AciI	CCGC	1 cut(s)	1036
AclWI	GGATC	2 cut(s)	270, 773
AcsI	RAATTY	4 cut(s)	173, 443, 685, 1108
AcuI	CTGAAG	1 cut(s)	523
AfaI	GTAC	3 cut(s)	469, 559, 697
AfiI	CCNNNNNNNGG	5 cut(s)	392, 833, 941, 1120, 1124
AflIII	ACRYGT	1 cut(s)	526
AgsI	TTSAA	1 cut(s)	631
AjnI	CCWGG	2 cut(s)	496, 553
AluBI	AGCT	7 cut(s)	130, 137, 302, 752, 803, 941, 1016
AluI	AGCT	7 cut(s)	130, 137, 302, 752, 803, 941, 1016
Alw26I	GTCTC	2 cut(s)	909, 1172
AlwI	GGATC	2 cut(s)	270, 773
AlwNI	CAGNNNCTG	1 cut(s)	497
AoxI	GGCC	1 cut(s)	824
ApeKI	GCWGC	1 cut(s)	752
ApoI	RAATTY	4 cut(s)	173, 443, 685, 1108
Asp700I	GAANNNNTTC	1 cut(s)	487
AspLEI	GCGC	2 cut(s)	440, 988
AsuHPI	GGTGA	3 cut(s)	98, 419, 924
AxyI	CCTNAGG	1 cut(s)	1191
BanI	GGYRCC	1 cut(s)	965
BbvI	GCAGC	1 cut(s)	739
BccI	CCATC	8 cut(s)	40, 77, 118, 259, 518, 641, 827, 884
BceAI	ACGGC	1 cut(s)	1141
BciT130I	CCWGG	2 cut(s)	498, 555
BciVI	GTATCC	1 cut(s)	423
BcoDI	GTCTC	2 cut(s)	909, 1172
BfaI	CTAG	4 cut(s)	54, 282, 1017, 1201
BfmI	CTRYAG	1 cut(s)	753
BfoI	RGCGCY	1 cut(s)	989
BfuAI	ACCTGC	1 cut(s)	514
BfuI	GTATCC	1 cut(s)	423
BglII	AGATCT	1 cut(s)	271
BisI	GCNGC	1 cut(s)	753
BlsI	GCNGC	1 cut(s)	754
Bme1390I	CCNGG	2 cut(s)	498, 555
BmiI	GGNNCC	1 cut(s)	967
BmrFI	CCNGG	2 cut(s)	498, 555
BmrI	ACTGGG	1 cut(s)	380
BmsI	GCATC	3 cut(s)	97, 324, 1072
BmuI	ACTGGG	1 cut(s)	380
BpmI	CTGGAG	2 cut(s)	318, 519
BpuEI	CTTGAG	1 cut(s)	363
BsaJI	CCNNGG	1 cut(s)	330
BsaXI	ACNNNNNCTCC	2 cut(s)	261, 291
Bsc4I	CCNNNNNNNGG	5 cut(s)	392, 833, 941, 1120, 1124
Bse1I	ACTGG	5 cut(s)	108, 301, 386, 782, 931
Bse21I	CCTNAGG	1 cut(s)	1191
Bse3DI	GCAATG	2 cut(s)	408, 678
BseBI	CCWGG	2 cut(s)	498, 555
BseDI	CCNNGG	1 cut(s)	330
BseGI	GGATG	2 cut(s)	112, 895
BseLI	CCNNNNNNNGG	5 cut(s)	392, 833, 941, 1120, 1124
BseMI	GCAATG	2 cut(s)	408, 678
BseNI	ACTGG	5 cut(s)	108, 301, 386, 782, 931
BseRI	GAGGAG	2 cut(s)	597, 1092
BseXI	GCAGC	1 cut(s)	739
BseYI	CCCAGC	1 cut(s)	21
BshFI	GGCC	1 cut(s)	826
BshNI	GGYRCC	1 cut(s)	965
BsiSI	CCGG	1 cut(s)	969
BslFI	GGGAC	1 cut(s)	368
BslI	CCNNNNNNNGG	5 cut(s)	392, 833, 941, 1120, 1124
BsmAI	GTCTC	2 cut(s)	909, 1172
BsmFI	GGGAC	1 cut(s)	368
BsmI	GAATGC	3 cut(s)	291, 373, 1164
BsnI	GGCC	1 cut(s)	826
Bsp143I	GATC	4 cut(s)	262, 271, 778, 1045
BspACI	CCGC	1 cut(s)	1036
BspANI	GGCC	1 cut(s)	826
BspHI	TCATGA	1 cut(s)	169
BspLI	GGNNCC	1 cut(s)	967
BspMAI	CTGCAG	1 cut(s)	757
BspMI	ACCTGC	1 cut(s)	514
BspPI	GGATC	2 cut(s)	270, 773
BspQI	GCTCTTC	1 cut(s)	117
BspT107I	GGYRCC	1 cut(s)	965
BsrDI	GCAATG	2 cut(s)	408, 678
BsrI	ACTGG	5 cut(s)	108, 301, 386, 782, 931
BssECI	CCNNGG	1 cut(s)	330
BssMI	GATC	4 cut(s)	262, 271, 778, 1045
BssNAI	GTATAC	1 cut(s)	532
BssT1I	CCWWGG	1 cut(s)	330
Bst1107I	GTATAC	1 cut(s)	532
Bst2UI	CCWGG	2 cut(s)	498, 555
Bst4CI	ACNGT	2 cut(s)	370, 567
Bst6I	CTCTTC	2 cut(s)	117, 615
BstC8I	GCNNGC	3 cut(s)	291, 352, 990
BstDEI	CTNAG	1 cut(s)	1191
BstEII	GGTNACC	1 cut(s)	452
BstF5I	GGATG	2 cut(s)	112, 895
BstH2I	RGCGCY	1 cut(s)	989
BstHHI	GCGC	2 cut(s)	440, 988
BstKTI	GATC	4 cut(s)	265, 274, 781, 1048
BstMAI	GTCTC	2 cut(s)	909, 1172
BstMBI	GATC	4 cut(s)	262, 271, 778, 1045
BstMWI	GCNNNNNNNGC	4 cut(s)	299, 974, 983, 998
BstNI	CCWGG	2 cut(s)	498, 555
BstNSI	RCATGY	1 cut(s)	530
BstPI	GGTNACC	1 cut(s)	452
BstSCI	CCNGG	2 cut(s)	496, 553
BstSFI	CTRYAG	1 cut(s)	753
BstV1I	GCAGC	1 cut(s)	739
BstX2I	RGATCY	2 cut(s)	262, 271
BstXI	CCANNNNNNTGG	1 cut(s)	331
BstYI	RGATCY	2 cut(s)	262, 271
BstZ17I	GTATAC	1 cut(s)	532
Bsu36I	CCTNAGG	1 cut(s)	1191
BsuI	GTATCC	1 cut(s)	423
BsuRI	GGCC	1 cut(s)	826
BtgZI	GCGATG	1 cut(s)	137
BtsCI	GGATG	2 cut(s)	112, 895
BtsI	GCAGTG	1 cut(s)	324
BtsIMutI	CAGTG	3 cut(s)	294, 324, 924
BveI	ACCTGC	1 cut(s)	514
Cac8I	GCNNGC	3 cut(s)	291, 352, 990
CaiI	CAGNNNCTG	1 cut(s)	497
CciI	TCATGA	1 cut(s)	169
CfoI	GCGC	2 cut(s)	440, 988
CsiI	ACCWGGT	1 cut(s)	553
Csp6I	GTAC	3 cut(s)	468, 558, 696
CviAII	CATG	5 cut(s)	170, 527, 908, 961, 1129
CviQI	GTAC	3 cut(s)	468, 558, 696
DdeI	CTNAG	1 cut(s)	1191
DpnI	GATC	4 cut(s)	264, 273, 780, 1047
DpnII	GATC	4 cut(s)	262, 271, 778, 1045
DraI	TTTAAA	1 cut(s)	214
Eam1104I	CTCTTC	2 cut(s)	117, 615
EarI	CTCTTC	2 cut(s)	117, 615
Eco130I	CCWWGG	1 cut(s)	330
Eco57I	CTGAAG	1 cut(s)	523
Eco81I	CCTNAGG	1 cut(s)	1191
Eco91I	GGTNACC	1 cut(s)	452
EcoO65I	GGTNACC	1 cut(s)	452
EcoRI	GAATTC	1 cut(s)	173
EcoRII	CCWGG	2 cut(s)	496, 553
EcoT14I	CCWWGG	1 cut(s)	330
ErhI	CCWWGG	1 cut(s)	330
FaeI	CATG	5 cut(s)	173, 530, 911, 964, 1132
FaqI	GGGAC	1 cut(s)	368
FatI	CATG	5 cut(s)	169, 526, 907, 960, 1128
FblI	GTMKAC	1 cut(s)	531
Fnu4HI	GCNGC	1 cut(s)	753
FokI	GGATG	2 cut(s)	119, 902
Fsp4HI	GCNGC	1 cut(s)	753
FspBI	CTAG	4 cut(s)	54, 282, 1017, 1201
FspI	TGCGCA	1 cut(s)	439
GlaI	GCGC	2 cut(s)	439, 987
GluI	GCNGC	1 cut(s)	753
GsaI	CCCAGC	1 cut(s)	25
GsuI	CTGGAG	2 cut(s)	318, 519
HaeII	RGCGCY	1 cut(s)	989
HaeIII	GGCC	1 cut(s)	826
HapII	CCGG	1 cut(s)	969
HhaI	GCGC	2 cut(s)	440, 988
Hin1II	CATG	5 cut(s)	173, 530, 911, 964, 1132
Hin6I	GCGC	2 cut(s)	438, 986
HinP1I	GCGC	2 cut(s)	438, 986
HincII	GTYRAC	1 cut(s)	808
HindII	GTYRAC	1 cut(s)	808
HinfI	GANTC	5 cut(s)	182, 476, 627, 723, 736
HpaI	GTTAAC	1 cut(s)	808
HpaII	CCGG	1 cut(s)	969
HphI	GGTGA	3 cut(s)	98, 419, 924
Hpy166II	GTNNAC	5 cut(s)	470, 532, 808, 905, 932
Hpy188I	TCNGA	6 cut(s)	37, 269, 363, 429, 542, 1157
Hpy188III	TCNNGA	5 cut(s)	54, 170, 242, 480, 720
Hpy8I	GTNNAC	5 cut(s)	470, 532, 808, 905, 932
HpyAV	CCTTC	2 cut(s)	617, 1003
HpyCH4III	ACNGT	2 cut(s)	370, 567
HpyCH4IV	ACGT	1 cut(s)	345
HpyF10VI	GCNNNNNNNGC	4 cut(s)	299, 974, 983, 998
HpyF3I	CTNAG	1 cut(s)	1191
HpySE526I	ACGT	1 cut(s)	345
Hsp92II	CATG	5 cut(s)	173, 530, 911, 964, 1132
HspAI	GCGC	2 cut(s)	438, 986
KspAI	GTTAAC	1 cut(s)	808
Kzo9I	GATC	4 cut(s)	262, 271, 778, 1045
LguI	GCTCTTC	1 cut(s)	117
LmnI	GCTCC	5 cut(s)	127, 134, 299, 800, 1013
Lsp1109I	GCAGC	1 cut(s)	739
LweI	GCATC	3 cut(s)	97, 324, 1072
MabI	ACCWGGT	1 cut(s)	553
MaeI	CTAG	4 cut(s)	54, 282, 1017, 1201
MaeII	ACGT	1 cut(s)	345
MaeIII	GTNAC	1 cut(s)	452
MalI	GATC	4 cut(s)	264, 273, 780, 1047
MboI	GATC	4 cut(s)	262, 271, 778, 1045
MboII	GAAGA	3 cut(s)	104, 219, 602
MflI	RGATCY	2 cut(s)	262, 271
MluCI	AATT	7 cut(s)	173, 443, 483, 685, 1020, 1100, 1108
MlyI	GAGTC	1 cut(s)	176
MmeI	TCCRAC	2 cut(s)	1054, 1135
MroXI	GAANNNNTTC	1 cut(s)	487
MseI	TTAA	3 cut(s)	213, 807, 851
MspI	CCGG	1 cut(s)	969
MspR9I	CCNGG	2 cut(s)	498, 555
Mva1269I	GAATGC	3 cut(s)	291, 373, 1164
MvaI	CCWGG	2 cut(s)	498, 555
MwoI	GCNNNNNNNGC	4 cut(s)	299, 974, 983, 998
NdeII	GATC	4 cut(s)	262, 271, 778, 1045
NlaIII	CATG	5 cut(s)	173, 530, 911, 964, 1132
NlaIV	GGNNCC	1 cut(s)	967
NsbI	TGCGCA	1 cut(s)	439
NspI	RCATGY	1 cut(s)	530
PagI	TCATGA	1 cut(s)	169
PciI	ACATGT	1 cut(s)	526
PciSI	GCTCTTC	1 cut(s)	117
PctI	GAATGC	3 cut(s)	291, 373, 1164
PdmI	GAANNNNTTC	1 cut(s)	487
PfeI	GAWTC	4 cut(s)	476, 627, 723, 736
PflFI	GACNNNGTC	1 cut(s)	308
PflMI	CCANNNNNTGG	1 cut(s)	833
PfoI	TCCNGGA	1 cut(s)	496
PkrI	GCNGC	1 cut(s)	754
PleI	GAGTC	1 cut(s)	176
PpsI	GAGTC	1 cut(s)	176
PscI	ACATGT	1 cut(s)	526
Psp6I	CCWGG	2 cut(s)	496, 553
PspEI	GGTNACC	1 cut(s)	452
PspFI	CCCAGC	1 cut(s)	21
PspGI	CCWGG	2 cut(s)	496, 553
PspN4I	GGNNCC	1 cut(s)	967
PstI	CTGCAG	1 cut(s)	757
PstNI	CAGNNNCTG	1 cut(s)	497
PsuI	RGATCY	2 cut(s)	262, 271
PsyI	GACNNNGTC	1 cut(s)	308
RsaI	GTAC	3 cut(s)	469, 559, 697
RsaNI	GTAC	3 cut(s)	468, 558, 696
SapI	GCTCTTC	1 cut(s)	117
SaqAI	TTAA	3 cut(s)	213, 807, 851
SatI	GCNGC	1 cut(s)	753
Sau3AI	GATC	4 cut(s)	262, 271, 778, 1045
SchI	GAGTC	1 cut(s)	176
ScrFI	CCNGG	2 cut(s)	498, 555
SexAI	ACCWGGT	1 cut(s)	553
SfaNI	GCATC	3 cut(s)	97, 324, 1072
SfcI	CTRYAG	1 cut(s)	753
SmlI	CTYRAG	1 cut(s)	378
SmoI	CTYRAG	1 cut(s)	378
Sse9I	AATT	7 cut(s)	173, 443, 483, 685, 1020, 1100, 1108
SsiI	CCGC	1 cut(s)	1036
SspI	AATATT	1 cut(s)	1171
SspMI	CTAG	4 cut(s)	54, 282, 1017, 1201
StyD4I	CCNGG	2 cut(s)	496, 553
StyI	CCWWGG	1 cut(s)	330
TaaI	ACNGT	2 cut(s)	370, 567
TaiI	ACGT	1 cut(s)	348
TasI	AATT	7 cut(s)	173, 443, 483, 685, 1020, 1100, 1108
TfiI	GAWTC	4 cut(s)	476, 627, 723, 736
Tru1I	TTAA	3 cut(s)	213, 807, 851
Tru9I	TTAA	3 cut(s)	213, 807, 851
TscAI	CASTG	3 cut(s)	301, 331, 931
TseI	GCWGC	1 cut(s)	752
TspDTI	ATGAA	4 cut(s)	105, 166, 186, 636
TspGWI	ACGGA	1 cut(s)	683
TspRI	CASTG	3 cut(s)	301, 331, 931
Tth111I	GACNNNGTC	1 cut(s)	308
Van91I	CCANNNNNTGG	1 cut(s)	833
XapI	RAATTY	4 cut(s)	173, 443, 685, 1108
XbaI	TCTAGA	1 cut(s)	53
XceI	RCATGY	1 cut(s)	530
XmiI	GTMKAC	1 cut(s)	531
XmnI	GAANNNNTTC	1 cut(s)	487
XspI	CTAG	4 cut(s)	54, 282, 1017, 1201

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