Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001020

Physical Location & Seq

Genomic Coordinates Forward (+)

45900569 .. 45903684

Gene Structure 3116 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG243500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 672 bp

ATGGATCCTGCTGCAGCTATGTCAGTTAATGTGCCATCTTCTCTTGTTAATTGGTTATCAAGCTTAGAAGAGAGTAATTATCTACTGATCCATTTGTCAACTGATCAAGTTTATGAAGGGGTGAAGTCTTTTTACAAGGAAGATGATGAAGTTGTTCCAGTAAATGTTTATGGGAAATCAAAAGTGGCAGCTGAGCAGTTCATTACTGAGAAATGCTCGAACTTTGCAATTTTGAGAAGCAGTATCATCTTTGGGCCACAGACAATCTCACCGGTTTCAAAATCTCTTCCGATTCAGTGGGTTGATGGTGTCCTCTCCAAAGGAAATACAACCGAATTCTTTCATGATGAGTTTCGATGCCCTGTGTATGTAAAGGATGTCATAGCAATCATACTTGCTTTGTCCAAGACATGGATATCAGAGGCTAAGCAAAGAAAATTGCTACTGAATGTTGGTGGACCGGACAGGGTATCCCGTGTTCAAATGGCTGAGACAGTTGCTGATATAAGGGGATACAACCTCTCATTAATTAAATCTGTATCTGCATCATCGGTTGATCGTGGAGTTATGTCTCCTGCTGACATATCCATGGATATAACTAAGCTAGTTCAGACGCTTGGTATTTCTCCTATTTCATTTCGAGATGGTGTCAGATTGACACTTGAACCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RmlD_sub_bind

Protein Analysis

223

Amino Acids

24.53

Weight (kDa)

5.48

Isoelectric Point (pI)

37.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RmlD_sub_bind	PF04321	4 - 221	1.8e-29	RmlD substrate binding domain
Epimerase	PF01370	17 - 136	1.3e-07	NAD dependent epimerase/dehydratase family

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)

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Publication-ready

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Orthologous Genes (Group: OG0001020)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00560 AT4G00560 AT4G00560 AT4G00560
fragaria_vesca	FvH4_7g13560
malus_domestica	MD01G1052100.v1.1 MD07G1128800.v1.1
prunus_persica	Prupe.2G159800_v2.0.a1 Prupe.2G159800_v2.0.a1
pyrus_communis	pycom01g07780 pycom07g12450
rosa_chinensis	RchiOBHm_Chr0c39g0503211 RchiOBHm_Chr0c39g0503281 RchiOBHm_Chr0c39g0503291 RchiOBHm_Chr0c39g0503341 RchiOBHm_Chr1g0353111 RchiOBHm_Chr1g0353131 RchiOBHm_Chr1g0353141 RchiOBHm_Chr1g0353211 RchiOBHm_Chr1g0353241 RchiOBHm_Chr1g0353261 RchiOBHm_Chr1g0353281 RchiOBHm_Chr1g0353321 RchiOBHm_Chr1g0353331
rosa_laevigata	RLG00000009762 RLG00000028278 RLG00000028280 RLG00000028284 RLG00000028286 RLG00000028288
rosa_multiflora	Rmu_sc0001207.1_g000042 Rmu_sc0001207.1_g000081 Rmu_sc0011028.1_g000005
rosa_roxburghii	Rroxscaffold_4G00301960 Rroxscaffold_4G00301980 Rroxscaffold_4G00302000 Rroxscaffold_4G00302020 Rroxscaffold_4G00302040
rosa_rugosa	Rorug01G0233600 Rorug01G0233700 Rorug01G0233800 Rorug01G0234000 Rorug01G0234100 Rorug01G0234100 Rorug01G0234300 Rorug01G0235000
rosa_samantha	Rh1AG247600 Rh1BG020800 Rh1BG217400 Rh1BG217500 Rh1CG231100 Rh1DG243500 Rh1DG243800 Rh7CG311900
rosa_wichuraiana	Rw0G018080 Rw1G021400 Rw1G021430 Rw1G021450 Rw1G021460 Rw1G021530 Rw1G021550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	411
AclWI	GGATC	2 cut(s)	12, 82
AcsI	RAATTY	1 cut(s)	335
AfiI	CCNNNNNNNGG	1 cut(s)	411
AgeI	ACCGGT	1 cut(s)	271
AgsI	TTSAA	3 cut(s)	279, 482, 665
AluBI	AGCT	4 cut(s)	17, 63, 191, 604
AluI	AGCT	4 cut(s)	17, 63, 191, 604
Alw26I	GTCTC	2 cut(s)	485, 576
AlwI	GGATC	2 cut(s)	12, 82
AlwNI	CAGNNNCTG	1 cut(s)	500
AoxI	GGCC	1 cut(s)	254
ApeKI	GCWGC	3 cut(s)	11, 14, 188
ApoI	RAATTY	1 cut(s)	335
AseI	ATTAAT	1 cut(s)	527
AsiGI	ACCGGT	1 cut(s)	271
Asp700I	GAANNNNTTC	2 cut(s)	153, 339
AspS9I	GGNCC	2 cut(s)	254, 458
AsuHPI	GGTGA	2 cut(s)	133, 261
AvaII	GGWCC	1 cut(s)	458
BamHI	GGATCC	1 cut(s)	4
BarI	GAAGNNNNNNTAC	2 cut(s)	116, 148
BbvI	GCAGC	2 cut(s)	26, 200
BccI	CCATC	3 cut(s)	43, 299, 638
BciVI	GTATCC	2 cut(s)	481, 506
BclI	TGATCA	1 cut(s)	103
BcoDI	GTCTC	2 cut(s)	485, 576
BfaI	CTAG	1 cut(s)	605
BfmI	CTRYAG	1 cut(s)	12
BfuI	GTATCC	2 cut(s)	481, 506
BisI	GCNGC	3 cut(s)	12, 15, 189
BlpI	GCTNAGC	2 cut(s)	192, 426
BlsI	GCNGC	3 cut(s)	13, 16, 190
Bme18I	GGWCC	1 cut(s)	458
BmgT120I	GGNCC	2 cut(s)	254, 458
BmiI	GGNNCC	1 cut(s)	6
BmsI	GCATC	2 cut(s)	347, 554
BplI	GAGNNNNNCTC	2 cut(s)	200, 232
Bpu1102I	GCTNAGC	2 cut(s)	192, 426
BsaJI	CCNNGG	1 cut(s)	588
BsaWI	WCCGGW	2 cut(s)	271, 460
Bsc4I	CCNNNNNNNGG	1 cut(s)	411
Bse118I	RCCGGY	1 cut(s)	271
Bse1I	ACTGG	1 cut(s)	158
BseDI	CCNNGG	1 cut(s)	588
BseGI	GGATG	1 cut(s)	382
BseLI	CCNNNNNNNGG	1 cut(s)	411
BseMII	CTCAG	3 cut(s)	183, 198, 480
BseNI	ACTGG	1 cut(s)	158
BseXI	GCAGC	2 cut(s)	26, 200
BshFI	GGCC	1 cut(s)	256
BshTI	ACCGGT	1 cut(s)	271
BsiSI	CCGG	2 cut(s)	272, 461
BslI	CCNNNNNNNGG	1 cut(s)	411
BsmAI	GTCTC	2 cut(s)	485, 576
BsnI	GGCC	1 cut(s)	256
Bsp143I	GATC	4 cut(s)	4, 87, 103, 556
Bsp1720I	GCTNAGC	2 cut(s)	192, 426
Bsp19I	CCATGG	1 cut(s)	588
BspANI	GGCC	1 cut(s)	256
BspCNI	CTCAG	3 cut(s)	184, 199, 481
BspHI	TCATGA	1 cut(s)	343
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	1 cut(s)	16
BspPI	GGATC	2 cut(s)	12, 82
BsrFI	RCCGGY	1 cut(s)	271
BsrI	ACTGG	1 cut(s)	158
BssAI	RCCGGY	1 cut(s)	271
BssECI	CCNNGG	1 cut(s)	588
BssMI	GATC	4 cut(s)	4, 87, 103, 556
BssT1I	CCWWGG	1 cut(s)	588
Bst4CI	ACNGT	2 cut(s)	496, 669
Bst6I	CTCTTC	2 cut(s)	63, 291
BstDEI	CTNAG	6 cut(s)	64, 192, 207, 426, 489, 600
BstDSI	CCRYGG	1 cut(s)	588
BstF5I	GGATG	1 cut(s)	382
BstKTI	GATC	4 cut(s)	7, 90, 106, 559
BstMAI	GTCTC	2 cut(s)	485, 576
BstMBI	GATC	4 cut(s)	4, 87, 103, 556
BstSFI	CTRYAG	1 cut(s)	12
BstV1I	GCAGC	2 cut(s)	26, 200
BstX2I	RGATCY	1 cut(s)	4
BstYI	RGATCY	1 cut(s)	4
BsuI	GTATCC	2 cut(s)	481, 506
BsuRI	GGCC	1 cut(s)	256
BtgI	CCRYGG	1 cut(s)	588
BtsCI	GGATG	1 cut(s)	382
BtsIMutI	CAGTG	1 cut(s)	302
CaiI	CAGNNNCTG	1 cut(s)	500
CciI	TCATGA	1 cut(s)	343
Cfr10I	RCCGGY	1 cut(s)	271
Cfr13I	GGNCC	2 cut(s)	254, 458
CseI	GACGC	1 cut(s)	622
CspAI	ACCGGT	1 cut(s)	271
CviAII	CATG	3 cut(s)	344, 411, 589
CviJI	RGCY	7 cut(s)	17, 63, 191, 256, 425, 488, 604
CviKI_1	RGCY	7 cut(s)	17, 63, 191, 256, 425, 488, 604
DdeI	CTNAG	6 cut(s)	64, 192, 207, 426, 489, 600
DpnI	GATC	4 cut(s)	6, 89, 105, 558
DpnII	GATC	4 cut(s)	4, 87, 103, 556
Eam1104I	CTCTTC	2 cut(s)	63, 291
EarI	CTCTTC	2 cut(s)	63, 291
Eco130I	CCWWGG	1 cut(s)	588
Eco32I	GATATC	1 cut(s)	417
Eco47I	GGWCC	1 cut(s)	458
EcoRI	GAATTC	1 cut(s)	335
EcoRV	GATATC	1 cut(s)	417
EcoT14I	CCWWGG	1 cut(s)	588
ErhI	CCWWGG	1 cut(s)	588
FaeI	CATG	3 cut(s)	347, 414, 592
FatI	CATG	3 cut(s)	343, 410, 588
FbaI	TGATCA	1 cut(s)	103
Fnu4HI	GCNGC	3 cut(s)	12, 15, 189
FokI	GGATG	1 cut(s)	389
Fsp4HI	GCNGC	3 cut(s)	12, 15, 189
FspBI	CTAG	1 cut(s)	605
GluI	GCNGC	3 cut(s)	12, 15, 189
HaeIII	GGCC	1 cut(s)	256
HapII	CCGG	2 cut(s)	272, 461
HgaI	GACGC	1 cut(s)	622
Hin1II	CATG	3 cut(s)	347, 414, 592
HincII	GTYRAC	1 cut(s)	99
HindII	GTYRAC	1 cut(s)	99
HindIII	AAGCTT	1 cut(s)	61
HinfI	GANTC	1 cut(s)	292
HpaII	CCGG	2 cut(s)	272, 461
HphI	GGTGA	2 cut(s)	133, 261
Hpy166II	GTNNAC	2 cut(s)	99, 458
Hpy188I	TCNGA	4 cut(s)	291, 421, 612, 653
Hpy188III	TCNNGA	2 cut(s)	344, 641
Hpy8I	GTNNAC	2 cut(s)	99, 458
HpyAV	CCTTC	1 cut(s)	110
HpyCH4III	ACNGT	2 cut(s)	496, 669
HpyCH4V	TGCA	3 cut(s)	14, 227, 545
HpyF3I	CTNAG	6 cut(s)	64, 192, 207, 426, 489, 600
Hsp92II	CATG	3 cut(s)	347, 414, 592
Ksp22I	TGATCA	1 cut(s)	103
Kzo9I	GATC	4 cut(s)	4, 87, 103, 556
LpnPI	CCDG	7 cut(s)	21, 171, 285, 375, 451, 474, 588
Lsp1109I	GCAGC	2 cut(s)	26, 200
LweI	GCATC	2 cut(s)	347, 554
MaeI	CTAG	1 cut(s)	605
MalI	GATC	4 cut(s)	6, 89, 105, 558
MboI	GATC	4 cut(s)	4, 87, 103, 556
MboII	GAAGA	4 cut(s)	30, 80, 152, 278
MflI	RGATCY	1 cut(s)	4
MluCI	AATT	6 cut(s)	49, 76, 228, 335, 437, 528
MnlI	CCTC	3 cut(s)	323, 415, 530
MroXI	GAANNNNTTC	2 cut(s)	153, 339
MseI	TTAA	4 cut(s)	27, 48, 527, 531
MslI	CAYNNNNRTG	1 cut(s)	587
MspA1I	CMGCKG	1 cut(s)	191
MspI	CCGG	2 cut(s)	272, 461
NcoI	CCATGG	1 cut(s)	588
NdeII	GATC	4 cut(s)	4, 87, 103, 556
NlaIII	CATG	3 cut(s)	347, 414, 592
NlaIV	GGNNCC	1 cut(s)	6
PacI	TTAATTAA	1 cut(s)	531
PagI	TCATGA	1 cut(s)	343
PdmI	GAANNNNTTC	2 cut(s)	153, 339
PfeI	GAWTC	1 cut(s)	292
PflMI	CCANNNNNTGG	1 cut(s)	411
PinAI	ACCGGT	1 cut(s)	271
PkrI	GCNGC	3 cut(s)	13, 16, 190
PshBI	ATTAAT	1 cut(s)	527
PspN4I	GGNNCC	1 cut(s)	6
PspPI	GGNCC	2 cut(s)	254, 458
PsrI	GAACNNNNNNTAC	2 cut(s)	462, 494
PstI	CTGCAG	1 cut(s)	16
PstNI	CAGNNNCTG	1 cut(s)	500
PsuI	RGATCY	1 cut(s)	4
PvuII	CAGCTG	1 cut(s)	191
RseI	CAYNNNNRTG	1 cut(s)	587
SaqAI	TTAA	4 cut(s)	27, 48, 527, 531
SatI	GCNGC	3 cut(s)	12, 15, 189
Sau3AI	GATC	4 cut(s)	4, 87, 103, 556
Sau96I	GGNCC	2 cut(s)	254, 458
SetI	ASST	5 cut(s)	19, 65, 193, 522, 606
SfaNI	GCATC	2 cut(s)	347, 554
SfcI	CTRYAG	1 cut(s)	12
SinI	GGWCC	1 cut(s)	458
SmiMI	CAYNNNNRTG	1 cut(s)	587
Sse9I	AATT	6 cut(s)	49, 76, 228, 335, 437, 528
SspMI	CTAG	1 cut(s)	605
StyI	CCWWGG	1 cut(s)	588
TaaI	ACNGT	2 cut(s)	496, 669
TaqI	TCGA	3 cut(s)	218, 355, 640
TasI	AATT	6 cut(s)	49, 76, 228, 335, 437, 528
TfiI	GAWTC	1 cut(s)	292
Tru1I	TTAA	4 cut(s)	27, 48, 527, 531
Tru9I	TTAA	4 cut(s)	27, 48, 527, 531
TscAI	CASTG	1 cut(s)	302
TseI	GCWGC	3 cut(s)	11, 14, 188
TspDTI	ATGAA	5 cut(s)	129, 162, 190, 332, 624
TspRI	CASTG	1 cut(s)	302
Van91I	CCANNNNNTGG	1 cut(s)	411
VpaK11BI	GGWCC	1 cut(s)	458
VspI	ATTAAT	1 cut(s)	527
XapI	RAATTY	1 cut(s)	335
XmnI	GAANNNNTTC	2 cut(s)	153, 339
XspI	CTAG	1 cut(s)	605

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