Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0012912

Physical Location & Seq

Genomic Coordinates Forward (+)

7266409 .. 7270306

Gene Structure 3898 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG086800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGCAGCTGCCGCCAATAAGGGGTGATGTACTGGATTTGGTGGTGATTGGTTGTGGTCCGGCGGGTCTTGCTCTGGCTGCCGAGTCGGCTAAGTTGGGATTGAAAGTTGGGCTCATTGGCCCTGACCTGCCTTTCACAAACAACTATGGTGTTTGGGAAGATGAATTCAAAGACCTTGGACTAGAAGGGTGTATTGAGCATGTTTGGCAGGACACCATTGTGTATCTTGATGACGAAAGCGACCCCATTTTGTTCGGTCGTGCTTACGGTCGTGTGTGTCGAAATTTGCTCCATGAGGAGCTTTTGAGAAGGTGTGTAGAGTCAGGTGTTTCATACCTTAGTTCAAGGGTGGAGAGTATTGTTGAAGGTAGCAATGGCCATAGCCTTATAGCATGTGAGCATGGTATCAATGTCTCCTCTAGGCTTGCTACTGTTGCATCAGGAGCTGCTTCAGGGAAGCTTTTGCAATATGAGGTGGGTGGTCCAAAGGTCTCTGTCCAAACAGCTTATGGAGTGGAGGTTGAGGTGGAAAGTTATCCATATGATCCCAACCTGATGATTTTCATGGATTATAGAGACTACACAAAACAAAAAGTTTCATGTTTGGAAGCAGAATATCCCACATTTCTTTATGCCATGGCCATGTCCCCAACAAGAATATTCTTTGAGGAAACTTGCTTGGCTTCGAAAGATGCCATGCCTTTTGATTTATTGAAGAAAAAGCTCTTGTCAAGGTTAAAGACATTGGGAATTCGTATTGTAAAAACTTATGAAGAGTTGAAGCATAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0006629 GO:0006720 GO:0006721 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009975 GO:0009987 GO:0016108 GO:0016109 GO:0016114 GO:0016116 GO:0016117 GO:0016122 GO:0016123 GO:0016853 GO:0016860 GO:0042440 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0045435 GO:0046148 GO:0071704 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00906 ko01100 ko01110 map00906 map01100 map01110

Pfam Domains

Protein Families

Lycopene_cycl

Protein Analysis

263

Amino Acids

29.14

Weight (kDa)

5.16

Isoelectric Point (pI)

35.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lycopene_cycl	PF05834	12 - 259	7.4e-87	Lycopene cyclase protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: OG0012912)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G57030
fragaria_vesca	FvH4_1g07950
malus_domestica	MD02G1083500.v1.1
prunus_persica	Prupe.7G205600_v2.0.a1
pyrus_communis	pycom02g06600
rosa_chinensis	RchiOBHm_Chr2g0093831
rosa_laevigata	RLG00000016440
rosa_multiflora	Rmu_co8073952.1_g000001 Rmu_sc0003027.1_g000016 Rmu_sc0006488.1_g000001 Rmu_sc0017523.1_g000003
rosa_roxburghii	Rroxscaffold_2G00147770
rosa_rugosa	Rorug02G0040100
rosa_samantha	Rh2AG086700 Rh2AG086800 Rh2BG087100 Rh2CG089500 Rh2DG085200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	135
AciI	CCGC	2 cut(s)	11, 62
AclWI	GGATC	1 cut(s)	539
AcoI	YGGCCR	2 cut(s)	376, 639
AcsI	RAATTY	3 cut(s)	164, 283, 750
AcuI	CTGAAG	1 cut(s)	435
AfaI	GTAC	1 cut(s)	30
AfiI	CCNNNNNNNGG	1 cut(s)	20
AgsI	TTSAA	6 cut(s)	103, 169, 345, 365, 715, 781
AleI	CACNNNNGTG	1 cut(s)	218
AluBI	AGCT	6 cut(s)	7, 301, 446, 460, 506, 724
AluI	AGCT	6 cut(s)	7, 301, 446, 460, 506, 724
Alw26I	GTCTC	3 cut(s)	418, 496, 570
AlwI	GGATC	1 cut(s)	539
AlwNI	CAGNNNCTG	1 cut(s)	446
AoxI	GGCC	3 cut(s)	118, 376, 639
ApeKI	GCWGC	4 cut(s)	4, 7, 77, 446
ApoI	RAATTY	3 cut(s)	164, 283, 750
AspS9I	GGNCC	3 cut(s)	56, 119, 482
AsuHPI	GGTGA	2 cut(s)	35, 55
AsuII	TTCGAA	1 cut(s)	686
AvaII	GGWCC	2 cut(s)	56, 482
BalI	TGGCCA	2 cut(s)	378, 641
BanII	GRGCYC	1 cut(s)	114
BbvI	GCAGC	3 cut(s)	16, 64, 433
BcoDI	GTCTC	3 cut(s)	418, 496, 570
BfaI	CTAG	2 cut(s)	182, 420
BfuAI	ACCTGC	1 cut(s)	135
BglI	GCCNNNNNGGC	1 cut(s)	86
BisI	GCNGC	5 cut(s)	5, 8, 11, 78, 447
BlsI	GCNGC	5 cut(s)	6, 9, 12, 79, 448
Bme18I	GGWCC	2 cut(s)	56, 482
BmgT120I	GGNCC	3 cut(s)	56, 119, 482
BmsI	GCATC	2 cut(s)	446, 682
Bpu14I	TTCGAA	1 cut(s)	686
BsaI	GGTCTC	1 cut(s)	496
BsaJI	CCNNGG	2 cut(s)	175, 636
BsaXI	ACNNNNNCTCC	2 cut(s)	504, 534
Bsc4I	CCNNNNNNNGG	1 cut(s)	20
Bse1I	ACTGG	1 cut(s)	36
Bse3DI	GCAATG	1 cut(s)	379
BseDI	CCNNGG	2 cut(s)	175, 636
BseLI	CCNNNNNNNGG	1 cut(s)	20
BseMI	GCAATG	1 cut(s)	379
BseNI	ACTGG	1 cut(s)	36
BseRI	GAGGAG	2 cut(s)	311, 406
BseXI	GCAGC	3 cut(s)	16, 64, 433
Bsh1285I	CGRYCG	2 cut(s)	259, 271
BshFI	GGCC	3 cut(s)	120, 378, 641
BsiEI	CGRYCG	2 cut(s)	259, 271
BsiSI	CCGG	1 cut(s)	59
BslFI	GGGAC	1 cut(s)	631
BslI	CCNNNNNNNGG	1 cut(s)	20
BsmAI	GTCTC	3 cut(s)	418, 496, 570
BsmFI	GGGAC	1 cut(s)	631
BsnI	GGCC	3 cut(s)	120, 378, 641
Bso31I	GGTCTC	1 cut(s)	496
Bsp119I	TTCGAA	1 cut(s)	686
Bsp1286I	GDGCHC	1 cut(s)	114
Bsp143I	GATC	1 cut(s)	544
Bsp19I	CCATGG	1 cut(s)	636
BspACI	CCGC	2 cut(s)	11, 62
BspANI	GGCC	3 cut(s)	120, 378, 641
BspMI	ACCTGC	1 cut(s)	135
BspPI	GGATC	1 cut(s)	539
BspT104I	TTCGAA	1 cut(s)	686
BspTNI	GGTCTC	1 cut(s)	496
BsrDI	GCAATG	1 cut(s)	379
BsrI	ACTGG	1 cut(s)	36
BssECI	CCNNGG	2 cut(s)	175, 636
BssMI	GATC	1 cut(s)	544
BssT1I	CCWWGG	2 cut(s)	175, 636
Bst4CI	ACNGT	2 cut(s)	269, 433
Bst6I	CTCTTC	1 cut(s)	768
BstBI	TTCGAA	1 cut(s)	686
BstC8I	GCNNGC	1 cut(s)	426
BstDEI	CTNAG	2 cut(s)	90, 338
BstDSI	CCRYGG	1 cut(s)	636
BstKTI	GATC	1 cut(s)	547
BstMAI	GTCTC	3 cut(s)	418, 496, 570
BstMBI	GATC	1 cut(s)	544
BstMCI	CGRYCG	2 cut(s)	259, 271
BstMWI	GCNNNNNNNGC	7 cut(s)	10, 68, 77, 86, 205, 434, 443
BstNSI	RCATGY	2 cut(s)	203, 396
BstV1I	GCAGC	3 cut(s)	16, 64, 433
BsuRI	GGCC	3 cut(s)	120, 378, 641
BtgI	CCRYGG	1 cut(s)	636
BveI	ACCTGC	1 cut(s)	135
Cac8I	GCNNGC	1 cut(s)	426
CaiI	CAGNNNCTG	1 cut(s)	446
Cfr13I	GGNCC	3 cut(s)	56, 119, 482
Csp6I	GTAC	1 cut(s)	29
CviAII	CATG	9 cut(s)	200, 293, 393, 401, 565, 600, 637, 643, 697
CviQI	GTAC	1 cut(s)	29
DdeI	CTNAG	2 cut(s)	90, 338
DpnI	GATC	1 cut(s)	546
DpnII	GATC	1 cut(s)	544
EaeI	YGGCCR	2 cut(s)	376, 639
Eam1104I	CTCTTC	1 cut(s)	768
EarI	CTCTTC	1 cut(s)	768
Eco130I	CCWWGG	2 cut(s)	175, 636
Eco24I	GRGCYC	1 cut(s)	114
Eco31I	GGTCTC	1 cut(s)	496
Eco47I	GGWCC	2 cut(s)	56, 482
Eco57I	CTGAAG	1 cut(s)	435
EcoRI	GAATTC	2 cut(s)	164, 750
EcoT14I	CCWWGG	2 cut(s)	175, 636
EcoT38I	GRGCYC	1 cut(s)	114
ErhI	CCWWGG	2 cut(s)	175, 636
FaeI	CATG	9 cut(s)	203, 296, 396, 404, 568, 603, 640, 646, 700
FaqI	GGGAC	1 cut(s)	631
FatI	CATG	9 cut(s)	199, 292, 392, 400, 564, 599, 636, 642, 696
FauI	CCCGC	1 cut(s)	55
FauNDI	CATATG	1 cut(s)	541
Fnu4HI	GCNGC	5 cut(s)	5, 8, 11, 78, 447
FriOI	GRGCYC	1 cut(s)	114
Fsp4HI	GCNGC	5 cut(s)	5, 8, 11, 78, 447
FspBI	CTAG	2 cut(s)	182, 420
GluI	GCNGC	5 cut(s)	5, 8, 11, 78, 447
HaeIII	GGCC	3 cut(s)	120, 378, 641
HapII	CCGG	1 cut(s)	59
Hin1II	CATG	9 cut(s)	203, 296, 396, 404, 568, 603, 640, 646, 700
HindIII	AAGCTT	1 cut(s)	458
HinfI	GANTC	2 cut(s)	83, 320
HpaII	CCGG	1 cut(s)	59
HphI	GGTGA	2 cut(s)	35, 55
Hpy188III	TCNNGA	2 cut(s)	227, 441
HpyAV	CCTTC	3 cut(s)	179, 303, 359
HpyCH4III	ACNGT	2 cut(s)	269, 433
HpyCH4V	TGCA	3 cut(s)	4, 437, 466
HpyF10VI	GCNNNNNNNGC	7 cut(s)	10, 68, 77, 86, 205, 434, 443
HpyF3I	CTNAG	2 cut(s)	90, 338
Hsp92II	CATG	9 cut(s)	203, 296, 396, 404, 568, 603, 640, 646, 700
Kzo9I	GATC	1 cut(s)	544
LmnI	GCTCC	3 cut(s)	294, 298, 443
Lsp1109I	GCAGC	3 cut(s)	16, 64, 433
LweI	GCATC	2 cut(s)	446, 682
MaeI	CTAG	2 cut(s)	182, 420
MalI	GATC	1 cut(s)	546
MboI	GATC	1 cut(s)	544
MboII	GAAGA	3 cut(s)	170, 727, 785
MhlI	GDGCHC	1 cut(s)	114
MlsI	TGGCCA	2 cut(s)	378, 641
MluCI	AATT	3 cut(s)	164, 283, 750
MluNI	TGGCCA	2 cut(s)	378, 641
MlyI	GAGTC	2 cut(s)	92, 329
MnlI	CCTC	6 cut(s)	289, 427, 466, 511, 517, 661
Mox20I	TGGCCA	2 cut(s)	378, 641
MscI	TGGCCA	2 cut(s)	378, 641
MseI	TTAA	1 cut(s)	737
MslI	CAYNNNNRTG	2 cut(s)	218, 641
Msp20I	TGGCCA	2 cut(s)	378, 641
MspA1I	CMGCKG	1 cut(s)	7
MspI	CCGG	1 cut(s)	59
MwoI	GCNNNNNNNGC	7 cut(s)	10, 68, 77, 86, 205, 434, 443
NcoI	CCATGG	1 cut(s)	636
NdeI	CATATG	1 cut(s)	541
NdeII	GATC	1 cut(s)	544
NlaIII	CATG	9 cut(s)	203, 296, 396, 404, 568, 603, 640, 646, 700
NmeAIII	GCCGAG	1 cut(s)	106
NspI	RCATGY	2 cut(s)	203, 396
NspV	TTCGAA	1 cut(s)	686
OliI	CACNNNNGTG	1 cut(s)	218
PcsI	WCGNNNNNNNCGW	1 cut(s)	277
PkrI	GCNGC	5 cut(s)	6, 9, 12, 79, 448
PleI	GAGTC	2 cut(s)	91, 328
PpsI	GAGTC	2 cut(s)	91, 328
PspPI	GGNCC	3 cut(s)	56, 119, 482
PstNI	CAGNNNCTG	1 cut(s)	446
PvuII	CAGCTG	1 cut(s)	7
RsaI	GTAC	1 cut(s)	30
RsaNI	GTAC	1 cut(s)	29
RseI	CAYNNNNRTG	2 cut(s)	218, 641
SaqAI	TTAA	1 cut(s)	737
SatI	GCNGC	5 cut(s)	5, 8, 11, 78, 447
Sau3AI	GATC	1 cut(s)	544
Sau96I	GGNCC	3 cut(s)	56, 119, 482
SchI	GAGTC	2 cut(s)	92, 329
SduI	GDGCHC	1 cut(s)	114
SfaNI	GCATC	2 cut(s)	446, 682
SfuI	TTCGAA	1 cut(s)	686
SinI	GGWCC	2 cut(s)	56, 482
SmiMI	CAYNNNNRTG	2 cut(s)	218, 641
Sse9I	AATT	3 cut(s)	164, 283, 750
SsiI	CCGC	2 cut(s)	11, 62
SspI	AATATT	1 cut(s)	660
SspMI	CTAG	2 cut(s)	182, 420
StyI	CCWWGG	2 cut(s)	175, 636
TaaI	ACNGT	2 cut(s)	269, 433
TaqI	TCGA	2 cut(s)	280, 686
TaqII	GACCGA	1 cut(s)	245
TasI	AATT	3 cut(s)	164, 283, 750
TatI	WGTACW	1 cut(s)	28
TauI	GCSGC	1 cut(s)	13
Tru1I	TTAA	1 cut(s)	737
Tru9I	TTAA	1 cut(s)	737
TseI	GCWGC	4 cut(s)	4, 7, 77, 446
TspDTI	ATGAA	5 cut(s)	177, 321, 553, 588, 786
VpaK11BI	GGWCC	2 cut(s)	56, 482
XapI	RAATTY	3 cut(s)	164, 283, 750
XceI	RCATGY	2 cut(s)	203, 396
XcmI	CCANNNNNNNNNTGG	1 cut(s)	506
XspI	CTAG	2 cut(s)	182, 420

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