Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0005141

Physical Location & Seq

Genomic Coordinates Reverse (-)

60016537 .. 60018488

Gene Structure 1952 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00379710.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 573 bp

ATGCCGCGGAAAAGCAGAGAAAAACTGTACGGCTCTAAGTCCAAGTCTCAAAGTGACTTGCTTCCCAGAATTGGAGGGCTATCAAAATTTCCTACTCACGAGCTAGACGAGCCGAATATATCCTTGCTCAAGCTCGGCTCGTTTATCTTACGAGCACAAGCCGAACGAGCTAAAATCGAGCCGAATACGAGTCGAACACGAGCTATATCGAGCCTACTTACAGCCCTACTTATCCTTACCAAAATATCACTCGACTCTCTCCAATGGCGTCCAATACGTCTCGACCTCTCGCATTGTCATCGCGGGAGCCGCCGGATCCACGACGAGTCAAGACTCAACTTGCCACAGAGGACATCGGTCTTCCGTAAGATCATCCCTCCGCTCACCAAGTACTCGCCGGAGATCATTTTGCTGATTGTGTCGAATGCGGTACGAATCGAAGATGGTGAGTTCGAAATCGGCGACCACCGGAGAGTATTCGTTGCGATTTCTCGCATTGAGCAGCCGGCGATGTTCTACCGTAAGGCCGACAAGCTTCGGAAGGTCTCTAAGCTCTTCCTTTATACTCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00010 ko00270 ko00620 ko00640 ko01100 ko01110 ko01120 ko01130 ko04922 map00010 map00270 map00620 map00640 map01100 map01110 map01120 map01130 map04922

Pfam Domains

Protein Families

Ldh_1_C Ldh_1_N

Protein Analysis

190

Amino Acids

21.93

Weight (kDa)

10.58

Isoelectric Point (pI)

58.53

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005141)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G17260
fragaria_vesca	FvH4_5g00090
malus_domestica	MD16G1010900.v1.1
prunus_persica	Prupe.1G339800_v2.0.a1 Prupe.5G072700_v2.0.a1 Prupe.6G054700_v2.0.a1
pyrus_communis	pycom06g05170 pycom16g01070
rosa_chinensis	RchiOBHm_Chr4g0406091 RchiOBHm_Chr4g0445541 RchiOBHm_Chr7g0202841
rosa_laevigata	RLG00000003568 RLG00000005731
rosa_multiflora	Rmu_co8326923.1_g000001 Rmu_ssc0000253.1_g000006
rosa_roxburghii	Rroxscaffold_3G00254220 Rroxscaffold_5G00379710 Rroxscaffold_5G00386020
rosa_rugosa	Rorug04G0362400 Rorug07G0073400.1
rosa_samantha	Rh4AG423800 Rh4BG435800 Rh4CG450500 Rh4DG432100 Rh7AG201200 Rh7BG201500 Rh7CG212600 Rh7DG208200
rosa_wichuraiana	Rw4G036320 Rw7G017600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	382
AccII	CGCG	2 cut(s)	7, 303
AciI	CCGC	6 cut(s)	5, 7, 303, 310, 380, 428
AclWI	GGATC	2 cut(s)	310, 323
AcsI	RAATTY	1 cut(s)	86
AcyI	GRCGYC	1 cut(s)	268
AfaI	GTAC	3 cut(s)	29, 392, 432
AfiI	CCNNNNNNNGG	1 cut(s)	71
AluBI	AGCT	6 cut(s)	103, 133, 170, 203, 535, 553
AluI	AGCT	6 cut(s)	103, 133, 170, 203, 535, 553
Alw21I	GWGCWC	1 cut(s)	157
Alw26I	GTCTC	3 cut(s)	51, 284, 550
AlwI	GGATC	2 cut(s)	310, 323
AoxI	GGCC	1 cut(s)	525
ApeKI	GCWGC	1 cut(s)	502
ApoI	RAATTY	1 cut(s)	86
AsuHPI	GGTGA	2 cut(s)	376, 458
AsuII	TTCGAA	1 cut(s)	453
BamHI	GGATCC	1 cut(s)	315
BauI	CACGAG	2 cut(s)	98, 198
BbsI	GAAGAC	1 cut(s)	352
Bbv12I	GWGCWC	1 cut(s)	157
BbvI	GCAGC	1 cut(s)	514
BccI	CCATC	1 cut(s)	437
BceAI	ACGGC	1 cut(s)	46
BcgI	CGANNNNNNTGC	2 cut(s)	281, 315
BcoDI	GTCTC	3 cut(s)	51, 284, 550
BfaI	CTAG	1 cut(s)	104
BisI	GCNGC	3 cut(s)	5, 310, 503
BlsI	GCNGC	3 cut(s)	6, 311, 504
BmcAI	AGTACT	1 cut(s)	392
BmiI	GGNNCC	2 cut(s)	308, 317
BoxI	GACNNNNGTC	1 cut(s)	356
BpiI	GAAGAC	1 cut(s)	352
Bpu14I	TTCGAA	1 cut(s)	453
BpuEI	CTTGAG	1 cut(s)	113
BsaHI	GRCGYC	1 cut(s)	268
BsaI	GGTCTC	1 cut(s)	550
BsaJI	CCNNGG	1 cut(s)	5
BsaWI	WCCGGW	1 cut(s)	468
Bsc4I	CCNNNNNNNGG	1 cut(s)	71
Bse118I	RCCGGY	1 cut(s)	505
BseDI	CCNNGG	1 cut(s)	5
BseGI	GGATG	1 cut(s)	372
BseLI	CCNNNNNNNGG	1 cut(s)	71
BseXI	GCAGC	1 cut(s)	514
Bsh1236I	CGCG	2 cut(s)	7, 303
BshFI	GGCC	1 cut(s)	527
BsiHKAI	GWGCWC	1 cut(s)	157
BsiSI	CCGG	4 cut(s)	313, 398, 469, 506
BslI	CCNNNNNNNGG	1 cut(s)	71
BsmAI	GTCTC	3 cut(s)	51, 284, 550
BsmBI	CGTCTC	1 cut(s)	284
BsmI	GAATGC	1 cut(s)	430
BsnI	GGCC	1 cut(s)	527
Bso31I	GGTCTC	1 cut(s)	550
Bsp119I	TTCGAA	1 cut(s)	453
Bsp1286I	GDGCHC	1 cut(s)	157
Bsp143I	GATC	3 cut(s)	315, 369, 402
BspACI	CCGC	6 cut(s)	5, 7, 303, 310, 380, 428
BspANI	GGCC	1 cut(s)	527
BspFNI	CGCG	2 cut(s)	7, 303
BspLI	GGNNCC	2 cut(s)	308, 317
BspPI	GGATC	2 cut(s)	310, 323
BspQI	GCTCTTC	1 cut(s)	560
BspT104I	TTCGAA	1 cut(s)	453
BspTNI	GGTCTC	1 cut(s)	550
BsrBI	CCGCTC	1 cut(s)	382
BsrFI	RCCGGY	1 cut(s)	505
BssAI	RCCGGY	1 cut(s)	505
BssECI	CCNNGG	1 cut(s)	5
BssMI	GATC	3 cut(s)	315, 369, 402
BssNI	GRCGYC	1 cut(s)	268
BssSI	CACGAG	2 cut(s)	98, 198
Bst2BI	CACGAG	2 cut(s)	98, 198
Bst4CI	ACNGT	2 cut(s)	27, 521
Bst6I	CTCTTC	1 cut(s)	560
BstACI	GRCGYC	1 cut(s)	268
BstBI	TTCGAA	1 cut(s)	453
BstC8I	GCNNGC	1 cut(s)	507
BstDEI	CTNAG	2 cut(s)	36, 549
BstDSI	CCRYGG	1 cut(s)	5
BstF5I	GGATG	1 cut(s)	372
BstFNI	CGCG	2 cut(s)	7, 303
BstKTI	GATC	3 cut(s)	318, 372, 405
BstMAI	GTCTC	3 cut(s)	51, 284, 550
BstMBI	GATC	3 cut(s)	315, 369, 402
BstMWI	GCNNNNNNNGC	3 cut(s)	109, 167, 309
BstPAI	GACNNNNGTC	1 cut(s)	356
BstUI	CGCG	2 cut(s)	7, 303
BstV1I	GCAGC	1 cut(s)	514
BstV2I	GAAGAC	1 cut(s)	352
BstX2I	RGATCY	1 cut(s)	315
BstYI	RGATCY	1 cut(s)	315
BsuRI	GGCC	1 cut(s)	527
BtgI	CCRYGG	1 cut(s)	5
BtgZI	GCGATG	2 cut(s)	284, 524
BtsCI	GGATG	1 cut(s)	372
Cac8I	GCNNGC	1 cut(s)	507
Cfr10I	RCCGGY	1 cut(s)	505
Cfr42I	CCGCGG	1 cut(s)	8
CseI	GACGC	1 cut(s)	257
Csp6I	GTAC	3 cut(s)	28, 391, 431
CviQI	GTAC	3 cut(s)	28, 391, 431
DdeI	CTNAG	2 cut(s)	36, 549
DpnI	GATC	3 cut(s)	317, 371, 404
DpnII	GATC	3 cut(s)	315, 369, 402
Eam1104I	CTCTTC	1 cut(s)	560
EarI	CTCTTC	1 cut(s)	560
Eco31I	GGTCTC	1 cut(s)	550
Esp3I	CGTCTC	1 cut(s)	284
FaiI	YATR	3 cut(s)	119, 206, 564
FauI	CCCGC	1 cut(s)	296
Fnu4HI	GCNGC	3 cut(s)	5, 310, 503
FokI	GGATG	1 cut(s)	359
Fsp4HI	GCNGC	3 cut(s)	5, 310, 503
FspBI	CTAG	1 cut(s)	104
GluI	GCNGC	3 cut(s)	5, 310, 503
HaeIII	GGCC	1 cut(s)	527
HapII	CCGG	4 cut(s)	313, 398, 469, 506
HgaI	GACGC	1 cut(s)	257
Hin1I	GRCGYC	1 cut(s)	268
HindIII	AAGCTT	1 cut(s)	533
HinfI	GANTC	5 cut(s)	190, 254, 326, 333, 435
HpaII	CCGG	4 cut(s)	313, 398, 469, 506
HphI	GGTGA	2 cut(s)	376, 458
Hpy188I	TCNGA	1 cut(s)	540
Hpy188III	TCNNGA	3 cut(s)	98, 281, 330
Hpy99I	CGWCG	1 cut(s)	326
HpyAV	CCTTC	1 cut(s)	535
HpyCH4III	ACNGT	2 cut(s)	27, 521
HpyCH4IV	ACGT	1 cut(s)	277
HpyF10VI	GCNNNNNNNGC	3 cut(s)	109, 167, 309
HpyF3I	CTNAG	2 cut(s)	36, 549
HpySE526I	ACGT	1 cut(s)	277
Hsp92I	GRCGYC	1 cut(s)	268
KroI	GCCGGC	1 cut(s)	505
KroNI	GCCGGC	1 cut(s)	507
KspI	CCGCGG	1 cut(s)	8
Kzo9I	GATC	3 cut(s)	315, 369, 402
LguI	GCTCTTC	1 cut(s)	560
LmnI	GCTCC	1 cut(s)	306
LpnPI	CCDG	5 cut(s)	79, 326, 411, 482, 519
Lsp1109I	GCAGC	1 cut(s)	514
MaeI	CTAG	1 cut(s)	104
MaeII	ACGT	1 cut(s)	277
MaeIII	GTNAC	1 cut(s)	53
MalI	GATC	3 cut(s)	317, 371, 404
MbiI	CCGCTC	1 cut(s)	382
MboI	GATC	3 cut(s)	315, 369, 402
MboII	GAAGA	3 cut(s)	352, 452, 547
MflI	RGATCY	1 cut(s)	315
MhlI	GDGCHC	1 cut(s)	157
MluCI	AATT	2 cut(s)	69, 86
MlyI	GAGTC	4 cut(s)	199, 248, 327, 335
MnlI	CCTC	4 cut(s)	68, 296, 342, 387
MroNI	GCCGGC	1 cut(s)	505
MspA1I	CMGCKG	1 cut(s)	7
MspI	CCGG	4 cut(s)	313, 398, 469, 506
Mva1269I	GAATGC	1 cut(s)	430
MvnI	CGCG	2 cut(s)	7, 303
MwoI	GCNNNNNNNGC	3 cut(s)	109, 167, 309
NaeI	GCCGGC	1 cut(s)	507
NdeII	GATC	3 cut(s)	315, 369, 402
NgoMIV	GCCGGC	1 cut(s)	505
NlaIV	GGNNCC	2 cut(s)	308, 317
NmeAIII	GCCGAG	1 cut(s)	114
NmuCI	GTSAC	1 cut(s)	53
NspV	TTCGAA	1 cut(s)	453
PciSI	GCTCTTC	1 cut(s)	560
PcsI	WCGNNNNNNNCGW	2 cut(s)	105, 459
PctI	GAATGC	1 cut(s)	430
PdiI	GCCGGC	1 cut(s)	507
PfeI	GAWTC	1 cut(s)	435
PkrI	GCNGC	3 cut(s)	6, 311, 504
PleI	GAGTC	4 cut(s)	198, 248, 327, 334
PpsI	GAGTC	4 cut(s)	198, 248, 327, 334
PshAI	GACNNNNGTC	1 cut(s)	356
PspN4I	GGNNCC	2 cut(s)	308, 317
PsuI	RGATCY	1 cut(s)	315
RsaI	GTAC	3 cut(s)	29, 392, 432
RsaNI	GTAC	3 cut(s)	28, 391, 431
SacII	CCGCGG	1 cut(s)	8
SapI	GCTCTTC	1 cut(s)	560
SatI	GCNGC	3 cut(s)	5, 310, 503
Sau3AI	GATC	3 cut(s)	315, 369, 402
ScaI	AGTACT	1 cut(s)	392
SchI	GAGTC	4 cut(s)	199, 248, 327, 335
SduI	GDGCHC	1 cut(s)	157
SetI	ASST	9 cut(s)	105, 135, 172, 205, 280, 288, 537, 546, 555
Sfr303I	CCGCGG	1 cut(s)	8
SfuI	TTCGAA	1 cut(s)	453
SgrBI	CCGCGG	1 cut(s)	8
SmlI	CTYRAG	1 cut(s)	128
SmoI	CTYRAG	1 cut(s)	128
Sse9I	AATT	2 cut(s)	69, 86
SsiI	CCGC	6 cut(s)	5, 7, 303, 310, 380, 428
SspMI	CTAG	1 cut(s)	104
TaaI	ACNGT	2 cut(s)	27, 521
TaiI	ACGT	1 cut(s)	280
TaqI	TCGA	8 cut(s)	177, 193, 209, 252, 282, 422, 438, 453
TaqII	GACCGA	1 cut(s)	346
TasI	AATT	2 cut(s)	69, 86
TatI	WGTACW	1 cut(s)	390
TauI	GCSGC	2 cut(s)	7, 312
TfiI	GAWTC	1 cut(s)	435
TseFI	GTSAC	1 cut(s)	53
TseI	GCWGC	1 cut(s)	502
Tsp45I	GTSAC	1 cut(s)	53
TspGWI	ACGGA	1 cut(s)	353
XapI	RAATTY	1 cut(s)	86
XspI	CTAG	1 cut(s)	104
ZrmI	AGTACT	1 cut(s)	392

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