Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0001203

Physical Location & Seq

Genomic Coordinates Forward (+)

70694866 .. 70697174

Gene Structure 2309 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG511200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 648 bp

ATGGAAGAGAGTAGCAAGTTCAAGAGGATTTGTGTGTTTTGTGGAAGCAACTCTGGCCACAGACAAGTCTTCAGTGATGCAGCTCTTGAGTTGGGCAATGAACTGGTGAAACGGAAGATAGATTTGGTGTATGGTGGAGGGAATGTCGGGTTGATGGGTTTGGTATCCCAGACTGTATTTGATGGAGGTTGCCATGTTCTTGGAGTCATTCCAAAAGCTCTCATGCCTAGAGAGATATCCGGTGAAACTGTTGGAGAAGTTAGAATAGTTAGAGACATGCATGAGCGGAAAGCTTCTATGGCTGAGGAATCTGATGCCTTTATTGCTCTTCCTGGAGGATATGGAACCATGGAAGAGACATTGGAGATGATAACATGGGCCCAACTTGGGATTCATAAAAAGCCGGTCGGTTTGCTGAATGTAGATGGGTACTATAACTCCTTGCTTTCACTATTTGACAATGGTGTTCAAGAAGGATTCATCAAGCCAGGTGCTCGGGATATAATTGTCTCTGCTCCAAACGCTAAAGAACTTATGGTTCAGATGGAGCAATACACTCCTTCCCATCAACATATTGCTTCTCATGAAAGCTGGAAAAGGGCGCAACTTGCTATTTCTCAAGCTTCAAGCCATGAGAACCCAAGGTGA

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

Lysine_decarbox

Protein Analysis

215

Amino Acids

23.57

Weight (kDa)

5.9

Isoelectric Point (pI)

32.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LDcluster4	PF18306	15 - 121	1.7e-12	SLOG cluster4 family
Lysine_decarbox	PF03641	52 - 182	1.3e-46	Possible lysine decarboxylase

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

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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: OG0001203)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G11950 AT5G11950 AT5G11950 AT5G11950 AT5G26140 AT5G26140 AT5G26140
fragaria_vesca	FvH4_2g31610 FvH4_2g31610 FvH4_2g31610 FvH4_2g38680 FvH4_2g38680 FvH4_3g04550 FvH4_3g04550 FvH4_3g04550
malus_domestica	MD03G1005300.v1.1 MD08G1014400.v1.1 MD08G1064800.v1.1 MD11G1007900.v1.1 MD15G1013800.v1.1 MD15G1056800.v1.1
prunus_persica	Prupe.1G367500_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.1G409400_v2.0.a1 Prupe.6G005100_v2.0.a1 Prupe.6G005100_v2.0.a1
pyrus_communis	pycom03g00550 pycom08g01300 pycom08g05310 pycom11g00540 pycom15g01200 pycom15g05320
rosa_chinensis	RchiOBHm_Chr6g0302631 RchiOBHm_Chr6g0311211
rosa_laevigata	RLG00000010427 RLG00000011154
rosa_multiflora	Rmu_co8501517.1_g000001 Rmu_sc0005455.1_g000005
rosa_roxburghii	Rroxscaffold_7G00157900 Rroxscaffold_7G00165490
rosa_rugosa	Rorug06G0315600 Rorug06G0386400 Rorug06G0386500
rosa_samantha	Rh6AG428900 Rh6BG473600 Rh6BG511200 Rh6CG441200 Rh6CG517000 Rh6DG503500
rosa_wichuraiana	Rw6G037120 Rw6G043590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	286
AciI	CCGC	1 cut(s)	286
AcoI	YGGCCR	1 cut(s)	55
AcuI	CTGAAG	1 cut(s)	55
AfaI	GTAC	1 cut(s)	431
AfiI	CCNNNNNNNGG	1 cut(s)	387
AgsI	TTSAA	3 cut(s)	22, 470, 627
AjnI	CCWGG	2 cut(s)	331, 487
AjuI	GAANNNNNNNTTGG	4 cut(s)	107, 139, 375, 407
AluBI	AGCT	5 cut(s)	83, 218, 293, 591, 623
AluI	AGCT	5 cut(s)	83, 218, 293, 591, 623
Alw21I	GWGCWC	1 cut(s)	496
Alw26I	GTCTC	3 cut(s)	267, 350, 514
Ama87I	CYCGRG	1 cut(s)	495
AoxI	GGCC	2 cut(s)	55, 378
ApaI	GGGCCC	1 cut(s)	382
ApeKI	GCWGC	1 cut(s)	80
AspLEI	GCGC	1 cut(s)	604
AspS9I	GGNCC	2 cut(s)	378, 379
AsuHPI	GGTGA	2 cut(s)	118, 254
AvaI	CYCGRG	1 cut(s)	495
BaeGI	GKGCMC	1 cut(s)	382
BalI	TGGCCA	1 cut(s)	57
BanII	GRGCYC	1 cut(s)	382
BbsI	GAAGAC	1 cut(s)	61
Bbv12I	GWGCWC	1 cut(s)	496
BbvCI	CCTCAGC	1 cut(s)	303
BbvI	GCAGC	1 cut(s)	92
BccI	CCATC	5 cut(s)	148, 176, 419, 538, 573
BciT130I	CCWGG	2 cut(s)	333, 489
BciVI	GTATCC	1 cut(s)	175
BcoDI	GTCTC	3 cut(s)	267, 350, 514
BfaI	CTAG	1 cut(s)	228
BfuI	GTATCC	1 cut(s)	175
BisI	GCNGC	1 cut(s)	81
BlsI	GCNGC	1 cut(s)	82
Bme1390I	CCNGG	2 cut(s)	333, 489
BmeT110I	CYCGRG	1 cut(s)	495
BmgT120I	GGNCC	2 cut(s)	378, 379
BmiI	GGNNCC	2 cut(s)	346, 380
BmrFI	CCNGG	2 cut(s)	333, 489
BmsI	GCATC	2 cut(s)	67, 304
BpiI	GAAGAC	1 cut(s)	61
BpmI	CTGGAG	1 cut(s)	354
Bpu10I	CCTNAGC	1 cut(s)	303
BpuEI	CTTGAG	2 cut(s)	107, 603
BsaJI	CCNNGG	2 cut(s)	348, 641
BsaWI	WCCGGW	1 cut(s)	239
BsaXI	ACNNNNNCTCC	4 cut(s)	129, 159, 422, 452
Bsc4I	CCNNNNNNNGG	1 cut(s)	387
Bse118I	RCCGGY	1 cut(s)	403
Bse1I	ACTGG	1 cut(s)	108
Bse3DI	GCAATG	1 cut(s)	103
BseBI	CCWGG	2 cut(s)	333, 489
BseDI	CCNNGG	2 cut(s)	348, 641
BseLI	CCNNNNNNNGG	1 cut(s)	387
BseMI	GCAATG	1 cut(s)	103
BseMII	CTCAG	1 cut(s)	294
BseNI	ACTGG	1 cut(s)	108
BseSI	GKGCMC	1 cut(s)	382
BseXI	GCAGC	1 cut(s)	92
Bsh1285I	CGRYCG	1 cut(s)	408
BshFI	GGCC	2 cut(s)	57, 380
BsiEI	CGRYCG	1 cut(s)	408
BsiHKAI	GWGCWC	1 cut(s)	496
BsiHKCI	CYCGRG	1 cut(s)	495
BsiSI	CCGG	2 cut(s)	240, 404
BslI	CCNNNNNNNGG	1 cut(s)	387
BsmAI	GTCTC	3 cut(s)	267, 350, 514
BsnI	GGCC	2 cut(s)	57, 380
BsoBI	CYCGRG	1 cut(s)	495
Bsp120I	GGGCCC	1 cut(s)	378
Bsp1286I	GDGCHC	2 cut(s)	382, 496
Bsp19I	CCATGG	1 cut(s)	348
BspACI	CCGC	1 cut(s)	286
BspANI	GGCC	2 cut(s)	57, 380
BspCNI	CTCAG	1 cut(s)	295
BspHI	TCATGA	1 cut(s)	583
BspLI	GGNNCC	2 cut(s)	346, 380
BspQI	GCTCTTC	1 cut(s)	333
BsrBI	CCGCTC	1 cut(s)	286
BsrDI	GCAATG	1 cut(s)	103
BsrFI	RCCGGY	1 cut(s)	403
BsrI	ACTGG	1 cut(s)	108
BssAI	RCCGGY	1 cut(s)	403
BssECI	CCNNGG	2 cut(s)	348, 641
BssT1I	CCWWGG	2 cut(s)	348, 641
Bst2UI	CCWGG	2 cut(s)	333, 489
Bst4CI	ACNGT	2 cut(s)	175, 250
Bst6I	CTCTTC	2 cut(s)	333, 348
BstDEI	CTNAG	1 cut(s)	303
BstDSI	CCRYGG	1 cut(s)	348
BstHHI	GCGC	1 cut(s)	604
BstMAI	GTCTC	3 cut(s)	267, 350, 514
BstMCI	CGRYCG	1 cut(s)	408
BstMWI	GCNNNNNNNGC	5 cut(s)	54, 299, 323, 521, 608
BstNI	CCWGG	2 cut(s)	333, 489
BstNSI	RCATGY	1 cut(s)	280
BstSCI	CCNGG	2 cut(s)	331, 487
BstSLI	GKGCMC	1 cut(s)	382
BstV1I	GCAGC	1 cut(s)	92
BstV2I	GAAGAC	1 cut(s)	61
BstXI	CCANNNNNNTGG	1 cut(s)	200
BsuI	GTATCC	1 cut(s)	175
BsuRI	GGCC	2 cut(s)	57, 380
BtgI	CCRYGG	1 cut(s)	348
BtsIMutI	CAGTG	1 cut(s)	79
CciI	TCATGA	1 cut(s)	583
CfoI	GCGC	1 cut(s)	604
Cfr10I	RCCGGY	1 cut(s)	403
Cfr13I	GGNCC	2 cut(s)	378, 379
Csp6I	GTAC	1 cut(s)	430
CviAII	CATG	8 cut(s)	194, 223, 277, 281, 349, 375, 584, 632
CviQI	GTAC	1 cut(s)	430
DdeI	CTNAG	1 cut(s)	303
EaeI	YGGCCR	1 cut(s)	55
Eam1104I	CTCTTC	2 cut(s)	333, 348
EarI	CTCTTC	2 cut(s)	333, 348
Eco130I	CCWWGG	2 cut(s)	348, 641
Eco24I	GRGCYC	1 cut(s)	382
Eco32I	GATATC	1 cut(s)	237
Eco57I	CTGAAG	1 cut(s)	55
Eco88I	CYCGRG	1 cut(s)	495
EcoRII	CCWGG	2 cut(s)	331, 487
EcoRV	GATATC	1 cut(s)	237
EcoT14I	CCWWGG	2 cut(s)	348, 641
EcoT22I	ATGCAT	1 cut(s)	282
EcoT38I	GRGCYC	1 cut(s)	382
ErhI	CCWWGG	2 cut(s)	348, 641
FaeI	CATG	8 cut(s)	197, 226, 280, 284, 352, 378, 587, 635
FatI	CATG	8 cut(s)	193, 222, 276, 280, 348, 374, 583, 631
Fnu4HI	GCNGC	1 cut(s)	81
FriOI	GRGCYC	1 cut(s)	382
Fsp4HI	GCNGC	1 cut(s)	81
FspBI	CTAG	1 cut(s)	228
GlaI	GCGC	1 cut(s)	603
GluI	GCNGC	1 cut(s)	81
GsuI	CTGGAG	1 cut(s)	354
HaeIII	GGCC	2 cut(s)	57, 380
HapII	CCGG	2 cut(s)	240, 404
HhaI	GCGC	1 cut(s)	604
Hin1II	CATG	8 cut(s)	197, 226, 280, 284, 352, 378, 587, 635
Hin6I	GCGC	1 cut(s)	602
HinP1I	GCGC	1 cut(s)	602
HindIII	AAGCTT	2 cut(s)	291, 621
HinfI	GANTC	4 cut(s)	204, 308, 391, 477
HpaII	CCGG	2 cut(s)	240, 404
HphI	GGTGA	2 cut(s)	118, 254
Hpy188I	TCNGA	2 cut(s)	313, 543
Hpy188III	TCNNGA	5 cut(s)	22, 86, 470, 497, 584
HpyAV	CCTTC	2 cut(s)	467, 570
HpyCH4III	ACNGT	2 cut(s)	175, 250
HpyCH4V	TGCA	2 cut(s)	80, 280
HpyF10VI	GCNNNNNNNGC	5 cut(s)	54, 299, 323, 521, 608
HpyF3I	CTNAG	1 cut(s)	303
Hsp92II	CATG	8 cut(s)	197, 226, 280, 284, 352, 378, 587, 635
HspAI	GCGC	1 cut(s)	602
LguI	GCTCTTC	1 cut(s)	333
LmnI	GCTCC	2 cut(s)	520, 547
Lsp1109I	GCAGC	1 cut(s)	92
LweI	GCATC	2 cut(s)	67, 304
MaeI	CTAG	1 cut(s)	228
MbiI	CCGCTC	1 cut(s)	286
MboII	GAAGA	5 cut(s)	17, 61, 127, 320, 365
MhlI	GDGCHC	2 cut(s)	382, 496
MlsI	TGGCCA	1 cut(s)	57
MluCI	AATT	1 cut(s)	504
MluNI	TGGCCA	1 cut(s)	57
MlyI	GAGTC	1 cut(s)	213
MmeI	TCCRAC	1 cut(s)	232
MnlI	CCTC	5 cut(s)	18, 131, 179, 298, 329
Mox20I	TGGCCA	1 cut(s)	57
Mph1103I	ATGCAT	1 cut(s)	282
MscI	TGGCCA	1 cut(s)	57
Msp20I	TGGCCA	1 cut(s)	57
MspI	CCGG	2 cut(s)	240, 404
MspR9I	CCNGG	2 cut(s)	333, 489
MvaI	CCWGG	2 cut(s)	333, 489
MwoI	GCNNNNNNNGC	5 cut(s)	54, 299, 323, 521, 608
NcoI	CCATGG	1 cut(s)	348
NlaIII	CATG	8 cut(s)	197, 226, 280, 284, 352, 378, 587, 635
NlaIV	GGNNCC	2 cut(s)	346, 380
NsiI	ATGCAT	1 cut(s)	282
NspI	RCATGY	1 cut(s)	280
PagI	TCATGA	1 cut(s)	583
PciSI	GCTCTTC	1 cut(s)	333
PfeI	GAWTC	3 cut(s)	308, 391, 477
PfoI	TCCNGGA	1 cut(s)	331
PkrI	GCNGC	1 cut(s)	82
PleI	GAGTC	1 cut(s)	212
PpsI	GAGTC	1 cut(s)	212
Psp6I	CCWGG	2 cut(s)	331, 487
PspGI	CCWGG	2 cut(s)	331, 487
PspN4I	GGNNCC	2 cut(s)	346, 380
PspOMI	GGGCCC	1 cut(s)	378
PspPI	GGNCC	2 cut(s)	378, 379
RsaI	GTAC	1 cut(s)	431
RsaNI	GTAC	1 cut(s)	430
SapI	GCTCTTC	1 cut(s)	333
SatI	GCNGC	1 cut(s)	81
Sau96I	GGNCC	2 cut(s)	378, 379
SchI	GAGTC	1 cut(s)	213
ScrFI	CCNGG	2 cut(s)	333, 489
SduI	GDGCHC	2 cut(s)	382, 496
SetI	ASST	8 cut(s)	85, 190, 220, 295, 493, 593, 625, 647
SfaNI	GCATC	2 cut(s)	67, 304
SmlI	CTYRAG	2 cut(s)	86, 618
SmoI	CTYRAG	2 cut(s)	86, 618
Sse9I	AATT	1 cut(s)	504
SsiI	CCGC	1 cut(s)	286
SspMI	CTAG	1 cut(s)	228
StyD4I	CCNGG	2 cut(s)	331, 487
StyI	CCWWGG	2 cut(s)	348, 641
TaaI	ACNGT	2 cut(s)	175, 250
TasI	AATT	1 cut(s)	504
TfiI	GAWTC	3 cut(s)	308, 391, 477
TscAI	CASTG	1 cut(s)	79
TseI	GCWGC	1 cut(s)	80
TspDTI	ATGAA	4 cut(s)	114, 383, 469, 600
TspGWI	ACGGA	1 cut(s)	127
TspRI	CASTG	1 cut(s)	79
XceI	RCATGY	1 cut(s)	280
XspI	CTAG	1 cut(s)	228
Zsp2I	ATGCAT	1 cut(s)	282

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