Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003128

Physical Location & Seq

Genomic Coordinates Reverse (-)

60719106 .. 60719835

Gene Structure 730 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG389600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 537 bp

ATGGCGTCGGCGGCGGGGAGAGTAGATCTGGACGGCAAGCCGATAAAGCCGATGACGATATGCATGATCGGAGCCGGAGGGTTCATTGGGTCCCACCTCTGCGAGAAGCTGATGGCGGAGACGCCGCACAAGGTTCTAGCCCTAGACGTGTACAATGACAAGATCAAGCACCTGCTGGAGCCATCGGACGGTCATCCTTGGTCCGATCGCATCCAGTTCCACCGCCTCAACATCAAGCACGACTCGCGCCTCGAAGGCCTCATCAAGACCTCAGATCTGACCATCAATCTCGCCGCGATCTGTACTCCGGCCGACTACAACACGCGCCCGCTGGACACTATCTACAGTAACTTCATCGATGCCTTGCCTGTGGTGAAGTACTGTTCTGAAAACAACAAGCGCTTGATTCACTTTTCGACTTGTGAAGTGTATGGGAAGACCATTGGAAGCTTTCTTCCTAAAGATAGCCCTCTTCGTCAGGTAGCCTCTCCCTTTCTTTCTCTTTTCTTTATATCCTTGTTTCATTTTGCATCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009225 GO:0009226 GO:0009987 GO:0016829 GO:0016830 GO:0016831 GO:0018130 GO:0019438 GO:0034641 GO:0034654 GO:0036094 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048037 GO:0048040 GO:0048046 GO:0050662 GO:0051287 GO:0055086 GO:0071704 GO:0097159 GO:1901135 GO:1901137 GO:1901265 GO:1901360 GO:1901362 GO:1901363 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

Epimerase

Protein Analysis

178

Amino Acids

19.83

Weight (kDa)

7.7

Isoelectric Point (pI)

29.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	20 - 149	1.5e-23	NAD dependent epimerase/dehydratase family
Sacchrp_dh_NADP	PF03435	20 - 98	6.9e-06	Saccharopine dehydrogenase NADP binding domain
Polysacc_synt_2	PF02719	21 - 140	1e-06	Polysaccharide biosynthesis protein
3Beta_HSD	PF01073	22 - 146	8.1e-07	3-beta hydroxysteroid dehydrogenase/isomerase family
GDP_Man_Dehyd	PF16363	24 - 147	4.6e-14	GDP-mannose 4,6 dehydratase

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: OG0003128)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08200
fragaria_vesca	FvH4_3g30060 FvH4_3g30060 FvH4_3g30060 FvH4_3g30060
malus_domestica	MD03G1131500.v1.1 MD03G1131900.v1.1 MD03G1161900.v1.1 MD11G1154500.v1.1 MD11G1215900.v1.1 MD16G1216600.v1.1 MD16G1216800.v1.1
prunus_persica	Prupe.6G116900_v2.0.a1 Prupe.6G116900_v2.0.a1 Prupe.6G116900_v2.0.a1
pyrus_communis	pycom11g12600 pycom11g12610
rosa_chinensis	RchiOBHm_Chr5g0055821
rosa_laevigata	RLG00000002609 RLG00000035011
rosa_multiflora	Rmu_sc0003306.1_g000005 Rmu_sc0003500.1_g000032 Rmu_sc0003500.1_g000033 Rmu_sc0007802.1_g000009
rosa_roxburghii	Rroxscaffold_1G00024520 Rroxscaffold_1G00052150
rosa_rugosa	Rorug05G0295000
rosa_samantha	Rh5AG192800 Rh5AG365900 Rh5BG190400 Rh5BG376600 Rh5CG399600 Rh5DG192100 Rh5DG389500 Rh5DG389600 Rh7BG106200
rosa_wichuraiana	Rw5G034330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	180
Acc36I	ACCTGC	1 cut(s)	180
AccII	CGCG	3 cut(s)	247, 296, 325
AciI	CCGC	7 cut(s)	11, 14, 116, 125, 223, 294, 329
AcoI	YGGCCR	1 cut(s)	309
AcyI	GRCGYC	2 cut(s)	5, 122
AfaI	GTAC	3 cut(s)	152, 304, 380
AfeI	AGCGCT	1 cut(s)	401
AfiI	CCNNNNNNNGG	1 cut(s)	188
AflIII	ACRYGT	1 cut(s)	147
AjiI	CACGTC	1 cut(s)	148
AluBI	AGCT	2 cut(s)	109, 450
AluI	AGCT	2 cut(s)	109, 450
Alw26I	GTCTC	1 cut(s)	113
Aor51HI	AGCGCT	1 cut(s)	401
AoxI	GGCC	2 cut(s)	256, 309
AspLEI	GCGC	3 cut(s)	249, 327, 402
AspS9I	GGNCC	2 cut(s)	90, 201
AsuHPI	GGTGA	1 cut(s)	385
AvaII	GGWCC	2 cut(s)	90, 201
BbsI	GAAGAC	1 cut(s)	443
BccI	CCATC	3 cut(s)	106, 190, 290
BceAI	ACGGC	1 cut(s)	49
BcoDI	GTCTC	1 cut(s)	113
BfaI	CTAG	2 cut(s)	137, 143
BfmI	CTRYAG	1 cut(s)	343
BfoI	RGCGCY	1 cut(s)	403
BfuAI	ACCTGC	1 cut(s)	180
BglI	GCCNNNNNGGC	1 cut(s)	255
BglII	AGATCT	2 cut(s)	25, 274
BisI	GCNGC	3 cut(s)	12, 125, 294
BlsI	GCNGC	3 cut(s)	13, 126, 295
BmcAI	AGTACT	1 cut(s)	380
Bme18I	GGWCC	2 cut(s)	90, 201
BmgBI	CACGTC	1 cut(s)	148
BmgT120I	GGNCC	2 cut(s)	90, 201
BmiI	GGNNCC	4 cut(s)	73, 91, 92, 180
BmsI	GCATC	2 cut(s)	219, 349
BpiI	GAAGAC	1 cut(s)	443
BpmI	CTGGAG	1 cut(s)	197
Bsa29I	ATCGAT	1 cut(s)	357
BsaHI	GRCGYC	2 cut(s)	5, 122
BsaJI	CCNNGG	1 cut(s)	197
Bsc4I	CCNNNNNNNGG	1 cut(s)	188
Bse1I	ACTGG	1 cut(s)	214
BseCI	ATCGAT	1 cut(s)	357
BseDI	CCNNGG	1 cut(s)	197
BseGI	GGATG	2 cut(s)	193, 210
BseLI	CCNNNNNNNGG	1 cut(s)	188
BseMII	CTCAG	1 cut(s)	285
BseNI	ACTGG	1 cut(s)	214
BseX3I	CGGCCG	1 cut(s)	309
Bsh1236I	CGCG	3 cut(s)	247, 296, 325
Bsh1285I	CGRYCG	2 cut(s)	208, 312
BshFI	GGCC	2 cut(s)	258, 311
BshVI	ATCGAT	1 cut(s)	357
BsiEI	CGRYCG	2 cut(s)	208, 312
BsiSI	CCGG	2 cut(s)	75, 308
BslFI	GGGAC	1 cut(s)	76
BslI	CCNNNNNNNGG	1 cut(s)	188
BsmAI	GTCTC	1 cut(s)	113
BsmBI	CGTCTC	1 cut(s)	113
BsmFI	GGGAC	1 cut(s)	76
BsnI	GGCC	2 cut(s)	258, 311
Bsp1407I	TGTACA	1 cut(s)	150
Bsp143I	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
BspACI	CCGC	7 cut(s)	11, 14, 116, 125, 223, 294, 329
BspANI	GGCC	2 cut(s)	258, 311
BspCNI	CTCAG	1 cut(s)	284
BspDI	ATCGAT	1 cut(s)	357
BspFNI	CGCG	3 cut(s)	247, 296, 325
BspLI	GGNNCC	4 cut(s)	73, 91, 92, 180
BspMI	ACCTGC	1 cut(s)	180
BsrGI	TGTACA	1 cut(s)	150
BsrI	ACTGG	1 cut(s)	214
BssECI	CCNNGG	1 cut(s)	197
BssMI	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
BssNI	GRCGYC	2 cut(s)	5, 122
BssT1I	CCWWGG	1 cut(s)	197
Bst4CI	ACNGT	3 cut(s)	191, 347, 383
Bst6I	CTCTTC	1 cut(s)	477
BstACI	GRCGYC	2 cut(s)	5, 122
BstAUI	TGTACA	1 cut(s)	150
BstC8I	GCNNGC	2 cut(s)	38, 329
BstDEI	CTNAG	1 cut(s)	271
BstF5I	GGATG	2 cut(s)	193, 210
BstFNI	CGCG	3 cut(s)	247, 296, 325
BstH2I	RGCGCY	1 cut(s)	403
BstHHI	GCGC	3 cut(s)	249, 327, 402
BstKTI	GATC	6 cut(s)	28, 69, 165, 208, 277, 300
BstMAI	GTCTC	1 cut(s)	113
BstMBI	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
BstMCI	CGRYCG	2 cut(s)	208, 312
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 46, 244, 255
BstSFI	CTRYAG	1 cut(s)	343
BstUI	CGCG	3 cut(s)	247, 296, 325
BstV2I	GAAGAC	1 cut(s)	443
BstX2I	RGATCY	2 cut(s)	25, 274
BstYI	RGATCY	2 cut(s)	25, 274
BstZI	CGGCCG	1 cut(s)	309
Bsu15I	ATCGAT	1 cut(s)	357
BsuRI	GGCC	2 cut(s)	258, 311
BsuTUI	ATCGAT	1 cut(s)	357
BtrI	CACGTC	1 cut(s)	148
BtsCI	GGATG	2 cut(s)	193, 210
BveI	ACCTGC	1 cut(s)	180
Cac8I	GCNNGC	2 cut(s)	38, 329
CfoI	GCGC	3 cut(s)	249, 327, 402
Cfr13I	GGNCC	2 cut(s)	90, 201
ClaI	ATCGAT	1 cut(s)	357
CseI	GACGC	1 cut(s)	130
Csp6I	GTAC	3 cut(s)	151, 303, 379
CviAII	CATG	1 cut(s)	64
CviQI	GTAC	3 cut(s)	151, 303, 379
DdeI	CTNAG	1 cut(s)	271
DpnI	GATC	6 cut(s)	27, 68, 164, 207, 276, 299
DpnII	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
EaeI	YGGCCR	1 cut(s)	309
EagI	CGGCCG	1 cut(s)	309
Eam1104I	CTCTTC	1 cut(s)	477
EarI	CTCTTC	1 cut(s)	477
EciI	GGCGGA	1 cut(s)	131
EclXI	CGGCCG	1 cut(s)	309
Eco130I	CCWWGG	1 cut(s)	197
Eco147I	AGGCCT	1 cut(s)	258
Eco47I	GGWCC	2 cut(s)	90, 201
Eco47III	AGCGCT	1 cut(s)	401
Eco52I	CGGCCG	1 cut(s)	309
EcoO109I	RGGNCCY	1 cut(s)	90
EcoT14I	CCWWGG	1 cut(s)	197
EcoT22I	ATGCAT	1 cut(s)	65
ErhI	CCWWGG	1 cut(s)	197
Esp3I	CGTCTC	1 cut(s)	113
FaeI	CATG	1 cut(s)	67
FaiI	YATR	5 cut(s)	61, 65, 432, 512, 535
FaqI	GGGAC	1 cut(s)	76
FatI	CATG	1 cut(s)	63
FauI	CCCGC	2 cut(s)	7, 336
Fnu4HI	GCNGC	3 cut(s)	12, 125, 294
FokI	GGATG	2 cut(s)	180, 197
Fsp4HI	GCNGC	3 cut(s)	12, 125, 294
FspBI	CTAG	2 cut(s)	137, 143
GlaI	GCGC	3 cut(s)	248, 326, 401
GluI	GCNGC	3 cut(s)	12, 125, 294
GsuI	CTGGAG	1 cut(s)	197
HaeII	RGCGCY	1 cut(s)	403
HaeIII	GGCC	2 cut(s)	258, 311
HapII	CCGG	2 cut(s)	75, 308
HgaI	GACGC	1 cut(s)	130
HhaI	GCGC	3 cut(s)	249, 327, 402
Hin1I	GRCGYC	2 cut(s)	5, 122
Hin1II	CATG	1 cut(s)	67
Hin6I	GCGC	3 cut(s)	247, 325, 400
HinP1I	GCGC	3 cut(s)	247, 325, 400
HindIII	AAGCTT	1 cut(s)	448
HinfI	GANTC	2 cut(s)	242, 406
HpaII	CCGG	2 cut(s)	75, 308
HphI	GGTGA	1 cut(s)	385
Hpy166II	GTNNAC	1 cut(s)	151
Hpy188I	TCNGA	6 cut(s)	71, 187, 205, 274, 279, 388
Hpy188III	TCNNGA	2 cut(s)	29, 265
Hpy8I	GTNNAC	1 cut(s)	151
Hpy99I	CGWCG	1 cut(s)	10
HpyAV	CCTTC	1 cut(s)	248
HpyCH4III	ACNGT	3 cut(s)	191, 347, 383
HpyCH4IV	ACGT	1 cut(s)	147
HpyCH4V	TGCA	2 cut(s)	63, 530
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 46, 244, 255
HpyF3I	CTNAG	1 cut(s)	271
HpySE526I	ACGT	1 cut(s)	147
Hsp92I	GRCGYC	2 cut(s)	5, 122
Hsp92II	CATG	1 cut(s)	67
HspAI	GCGC	3 cut(s)	247, 325, 400
KflI	GGGWCCC	1 cut(s)	90
Kzo9I	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
LmnI	GCTCC	2 cut(s)	71, 178
LpnPI	CCDG	9 cut(s)	14, 88, 161, 185, 227, 317, 321, 381, 464
LweI	GCATC	2 cut(s)	219, 349
MaeI	CTAG	2 cut(s)	137, 143
MaeII	ACGT	1 cut(s)	147
MaeIII	GTNAC	1 cut(s)	347
MalI	GATC	6 cut(s)	27, 68, 164, 207, 276, 299
MboI	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
MboII	GAAGA	3 cut(s)	446, 448, 464
MflI	RGATCY	2 cut(s)	25, 274
MlyI	GAGTC	1 cut(s)	236
MnlI	CCTC	8 cut(s)	71, 107, 236, 260, 269, 280, 480, 496
Mph1103I	ATGCAT	1 cut(s)	65
MspA1I	CMGCKG	1 cut(s)	331
MspI	CCGG	2 cut(s)	75, 308
MvnI	CGCG	3 cut(s)	247, 296, 325
MwoI	GCNNNNNNNGC	4 cut(s)	11, 46, 244, 255
NdeII	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
NlaIII	CATG	1 cut(s)	67
NlaIV	GGNNCC	4 cut(s)	73, 91, 92, 180
NsiI	ATGCAT	1 cut(s)	65
PaqCI	CACCTGC	1 cut(s)	180
PceI	AGGCCT	1 cut(s)	258
PfeI	GAWTC	1 cut(s)	406
PkrI	GCNGC	3 cut(s)	13, 126, 295
Ple19I	CGATCG	1 cut(s)	208
PleI	GAGTC	1 cut(s)	236
PpsI	GAGTC	1 cut(s)	236
PpuMI	RGGWCCY	1 cut(s)	90
Psp5II	RGGWCCY	1 cut(s)	90
PspN4I	GGNNCC	4 cut(s)	73, 91, 92, 180
PspPI	GGNCC	2 cut(s)	90, 201
PspPPI	RGGWCCY	1 cut(s)	90
PsuI	RGATCY	2 cut(s)	25, 274
PvuI	CGATCG	1 cut(s)	208
RsaI	GTAC	3 cut(s)	152, 304, 380
RsaNI	GTAC	3 cut(s)	151, 303, 379
SatI	GCNGC	3 cut(s)	12, 125, 294
Sau3AI	GATC	6 cut(s)	25, 66, 162, 205, 274, 297
Sau96I	GGNCC	2 cut(s)	90, 201
ScaI	AGTACT	1 cut(s)	380
SchI	GAGTC	1 cut(s)	236
SetI	ASST	8 cut(s)	99, 111, 135, 150, 174, 272, 452, 483
SfaNI	GCATC	2 cut(s)	219, 349
SfcI	CTRYAG	1 cut(s)	343
SinI	GGWCC	2 cut(s)	90, 201
SseBI	AGGCCT	1 cut(s)	258
SsiI	CCGC	7 cut(s)	11, 14, 116, 125, 223, 294, 329
SspMI	CTAG	2 cut(s)	137, 143
StuI	AGGCCT	1 cut(s)	258
StyI	CCWWGG	1 cut(s)	197
TaaI	ACNGT	3 cut(s)	191, 347, 383
TaiI	ACGT	1 cut(s)	150
TaqI	TCGA	3 cut(s)	252, 357, 416
TatI	WGTACW	3 cut(s)	150, 302, 378
TauI	GCSGC	3 cut(s)	14, 127, 296
TfiI	GAWTC	1 cut(s)	406
TspDTI	ATGAA	3 cut(s)	73, 343, 512
VpaK11BI	GGWCC	2 cut(s)	90, 201
XspI	CTAG	2 cut(s)	137, 143
ZrmI	AGTACT	1 cut(s)	380
Zsp2I	ATGCAT	1 cut(s)	65

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