Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0005630

Physical Location & Seq

Genomic Coordinates Forward (+)

11717429 .. 11723425

Gene Structure 5997 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG095800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGGGGAAGGGCTACTTGAGAATGAAGACTGACTCGGTTTCCGGCGATTTGATCAATGCCGATTTCAAAGACCTTGCTGCCGCTGCTAAGAAGCTTGCAAGTCATGCCGTCCACCTCGGAAGCTTAGGCTTTGGCACCACTTTTCTTGAATGGGTCGCTTCTTTTGCTGCAATTTATCTGTTGGTCTTGGATCGGACAAACTGGAAAACAAACATCCTCACAGGGCTGTTAATCCCATACATATTCTTTAGCCTTCCTTCACTAATTTTTTCTATCTTCAGGGGAGAAATTGGAAGCTGGATTGCCTTTGTTGCAGTTATCTTGCGACTCTTTTTCCCTAAACGATTCCCAGAATGGGCTGAATTGCCGGCTGCGCTGATTCTTCTAATGGTTGTGGCTCCGAGTTTAATTGCAACCACTGTGAGGGATGACTGGATCAGCGTTGCAGTATGTCTCGTCATTGCAGCTTACTTGTTGCAAGAACACATCCGGGCATCCGGTGGATTCAGAAACGCTTTCACACAACCCAATGGCGTATCAAATACTGTTGGCATAATTTGTCTGTTCATCTACCCTGTTTGGGCGTTGGTCCTCGACATCCTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005886 GO:0006950 GO:0007154 GO:0008150 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009605 GO:0009628 GO:0009631 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0009991 GO:0010033 GO:0010035 GO:0016020 GO:0031668 GO:0033554 GO:0033993 GO:0042221 GO:0042631 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050896 GO:0051716 GO:0070887 GO:0071214 GO:0071229 GO:0071462 GO:0071496 GO:0071944 GO:0097305 GO:0104004 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WCOR413

Protein Analysis

201

Amino Acids

22.14

Weight (kDa)

8.6

Isoelectric Point (pI)

27.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WCOR413	PF05562	8 - 188	1.9e-85	Cold acclimation protein WCOR413

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: OG0005630)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15970 AT2G15970
fragaria_vesca	FvH4_2g07440
malus_domestica	MD00G1150100.v1.1 MD10G1085600.v1.1
prunus_persica	Prupe.8G109700_v2.0.a1 Prupe.8G109700_v2.0.a1
pyrus_communis	pycom10g06690
rosa_chinensis	RchiOBHm_Chr6g0261051 RchiOBHm_Chr6g0261111 RchiOBHm_Chr6g0261481
rosa_laevigata	RLG00000014466
rosa_multiflora	Rmu_sc0003337.1_g000030 Rmu_sc0003337.1_g000034 Rmu_sc0003487.1_g000005 Rmu_sc0005816.1_g000032
rosa_roxburghii	Rroxscaffold_7G00207630
rosa_rugosa	Rorug05G0594500 Rorug05G0594600 Rorug05G0594700 Rorug05G0594700
rosa_samantha	Rh6AG114100 Rh6BG107800 Rh6CG104900 Rh6DG095700 Rh6DG095800
rosa_wichuraiana	Rw6G009730 Rw6G009750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	134
AciI	CCGC	1 cut(s)	81
AclWI	GGATC	2 cut(s)	198, 443
AcuI	CTGAAG	1 cut(s)	262
AfiI	CCNNNNNNNGG	3 cut(s)	355, 423, 580
AgsI	TTSAA	2 cut(s)	67, 149
AluBI	AGCT	4 cut(s)	94, 123, 297, 467
AluI	AGCT	4 cut(s)	94, 123, 297, 467
Alw26I	GTCTC	1 cut(s)	458
AlwI	GGATC	2 cut(s)	198, 443
ApeKI	GCWGC	5 cut(s)	77, 83, 167, 371, 464
AspLEI	GCGC	1 cut(s)	376
AspS9I	GGNCC	1 cut(s)	589
AsuC2I	CCSGG	1 cut(s)	491
AvaII	GGWCC	1 cut(s)	589
BanI	GGYRCC	1 cut(s)	134
BbsI	GAAGAC	1 cut(s)	32
BbvI	GCAGC	5 cut(s)	64, 70, 154, 358, 476
BceAI	ACGGC	1 cut(s)	92
BclI	TGATCA	1 cut(s)	51
BcnI	CCSGG	1 cut(s)	491
BcoDI	GTCTC	1 cut(s)	458
BfmI	CTRYAG	1 cut(s)	602
BisI	GCNGC	6 cut(s)	78, 81, 84, 168, 372, 465
BlsI	GCNGC	6 cut(s)	79, 82, 85, 169, 373, 466
Bme1390I	CCNGG	1 cut(s)	491
Bme18I	GGWCC	1 cut(s)	589
BmgT120I	GGNCC	1 cut(s)	589
BmiI	GGNNCC	2 cut(s)	136, 399
BmrFI	CCNGG	1 cut(s)	491
BmsI	GCATC	1 cut(s)	503
BpiI	GAAGAC	1 cut(s)	32
Bpu10I	CCTNAGC	1 cut(s)	124
BpuEI	CTTGAG	1 cut(s)	37
BpuMI	CCSGG	1 cut(s)	491
BsaJI	CCNNGG	1 cut(s)	115
BsaWI	WCCGGW	1 cut(s)	497
Bsc4I	CCNNNNNNNGG	3 cut(s)	355, 423, 580
Bse118I	RCCGGY	1 cut(s)	367
Bse1I	ACTGG	2 cut(s)	206, 437
Bse3DI	GCAATG	1 cut(s)	459
BseDI	CCNNGG	1 cut(s)	115
BseGI	GGATG	5 cut(s)	213, 433, 486, 494, 597
BseLI	CCNNNNNNNGG	3 cut(s)	355, 423, 580
BseMI	GCAATG	1 cut(s)	459
BseNI	ACTGG	2 cut(s)	206, 437
BseXI	GCAGC	5 cut(s)	64, 70, 154, 358, 476
BshNI	GGYRCC	1 cut(s)	134
BsiSI	CCGG	4 cut(s)	42, 368, 490, 498
BslI	CCNNNNNNNGG	3 cut(s)	355, 423, 580
BsmAI	GTCTC	1 cut(s)	458
Bsp143I	GATC	3 cut(s)	51, 190, 435
BspACI	CCGC	1 cut(s)	81
BspLI	GGNNCC	2 cut(s)	136, 399
BspPI	GGATC	2 cut(s)	198, 443
BspT107I	GGYRCC	1 cut(s)	134
BsrDI	GCAATG	1 cut(s)	459
BsrFI	RCCGGY	1 cut(s)	367
BsrI	ACTGG	2 cut(s)	206, 437
BssAI	RCCGGY	1 cut(s)	367
BssECI	CCNNGG	1 cut(s)	115
BssMI	GATC	3 cut(s)	51, 190, 435
Bst4CI	ACNGT	2 cut(s)	421, 547
BstAPI	GCANNNNNTGC	1 cut(s)	104
BstC8I	GCNNGC	2 cut(s)	96, 369
BstDEI	CTNAG	2 cut(s)	87, 124
BstF5I	GGATG	5 cut(s)	213, 433, 486, 494, 597
BstHHI	GCGC	1 cut(s)	376
BstKTI	GATC	3 cut(s)	54, 193, 438
BstMAI	GTCTC	1 cut(s)	458
BstMBI	GATC	3 cut(s)	51, 190, 435
BstMWI	GCNNNNNNNGC	5 cut(s)	83, 104, 164, 311, 373
BstSCI	CCNGG	1 cut(s)	489
BstSFI	CTRYAG	1 cut(s)	602
BstV1I	GCAGC	5 cut(s)	64, 70, 154, 358, 476
BstV2I	GAAGAC	1 cut(s)	32
BtsCI	GGATG	5 cut(s)	213, 433, 486, 494, 597
BtsIMutI	CAGTG	1 cut(s)	417
Cac8I	GCNNGC	2 cut(s)	96, 369
CfoI	GCGC	1 cut(s)	376
Cfr10I	RCCGGY	1 cut(s)	367
Cfr13I	GGNCC	1 cut(s)	589
CspCI	CAANNNNNGTGG	2 cut(s)	127, 162
CviAII	CATG	1 cut(s)	104
DdeI	CTNAG	2 cut(s)	87, 124
DpnI	GATC	3 cut(s)	53, 192, 437
DpnII	GATC	3 cut(s)	51, 190, 435
Eco47I	GGWCC	1 cut(s)	589
Eco57I	CTGAAG	1 cut(s)	262
FaeI	CATG	1 cut(s)	107
FaiI	YATR	6 cut(s)	105, 238, 242, 451, 554, 604
FalI	AAGNNNNNCTT	1 cut(s)	31
FatI	CATG	1 cut(s)	103
FbaI	TGATCA	1 cut(s)	51
Fnu4HI	GCNGC	6 cut(s)	78, 81, 84, 168, 372, 465
FokI	GGATG	5 cut(s)	200, 440, 473, 481, 584
Fsp4HI	GCNGC	6 cut(s)	78, 81, 84, 168, 372, 465
GlaI	GCGC	1 cut(s)	375
GluI	GCNGC	6 cut(s)	78, 81, 84, 168, 372, 465
HapII	CCGG	4 cut(s)	42, 368, 490, 498
HhaI	GCGC	1 cut(s)	376
Hin1II	CATG	1 cut(s)	107
Hin6I	GCGC	1 cut(s)	374
HinP1I	GCGC	1 cut(s)	374
HindIII	AAGCTT	2 cut(s)	92, 121
HinfI	GANTC	5 cut(s)	32, 327, 345, 379, 504
HpaII	CCGG	4 cut(s)	42, 368, 490, 498
Hpy166II	GTNNAC	1 cut(s)	112
Hpy188I	TCNGA	4 cut(s)	119, 195, 402, 509
Hpy188III	TCNNGA	1 cut(s)	146
Hpy8I	GTNNAC	1 cut(s)	112
HpyAV	CCTTC	2 cut(s)	263, 267
HpyCH4III	ACNGT	2 cut(s)	421, 547
HpyCH4V	TGCA	7 cut(s)	98, 170, 314, 413, 446, 464, 478
HpyF10VI	GCNNNNNNNGC	5 cut(s)	83, 104, 164, 311, 373
HpyF3I	CTNAG	2 cut(s)	87, 124
Hsp92II	CATG	1 cut(s)	107
HspAI	GCGC	1 cut(s)	374
KroI	GCCGGC	1 cut(s)	367
KroNI	GCCGGC	1 cut(s)	369
Ksp22I	TGATCA	1 cut(s)	51
Kzo9I	GATC	3 cut(s)	51, 190, 435
LmnI	GCTCC	1 cut(s)	403
Lsp1109I	GCAGC	5 cut(s)	64, 70, 154, 358, 476
LweI	GCATC	1 cut(s)	503
MalI	GATC	3 cut(s)	53, 192, 437
MboI	GATC	3 cut(s)	51, 190, 435
MboII	GAAGA	3 cut(s)	37, 268, 374
MluCI	AATT	6 cut(s)	171, 264, 288, 362, 408, 555
MlyI	GAGTC	2 cut(s)	26, 321
MnlI	CCTC	4 cut(s)	125, 227, 417, 602
MroNI	GCCGGC	1 cut(s)	367
MseI	TTAA	2 cut(s)	230, 407
MspA1I	CMGCKG	1 cut(s)	83
MspI	CCGG	4 cut(s)	42, 368, 490, 498
MspR9I	CCNGG	1 cut(s)	491
MwoI	GCNNNNNNNGC	5 cut(s)	83, 104, 164, 311, 373
NaeI	GCCGGC	1 cut(s)	369
NciI	CCSGG	1 cut(s)	491
NdeII	GATC	3 cut(s)	51, 190, 435
NgoMIV	GCCGGC	1 cut(s)	367
NlaIII	CATG	1 cut(s)	107
NlaIV	GGNNCC	2 cut(s)	136, 399
PdiI	GCCGGC	1 cut(s)	369
PfeI	GAWTC	3 cut(s)	345, 379, 504
PkrI	GCNGC	6 cut(s)	79, 82, 85, 169, 373, 466
PleI	GAGTC	2 cut(s)	26, 321
PpsI	GAGTC	2 cut(s)	26, 321
PspN4I	GGNNCC	2 cut(s)	136, 399
PspPI	GGNCC	1 cut(s)	589
SaqAI	TTAA	2 cut(s)	230, 407
SatI	GCNGC	6 cut(s)	78, 81, 84, 168, 372, 465
Sau3AI	GATC	3 cut(s)	51, 190, 435
Sau96I	GGNCC	1 cut(s)	589
SchI	GAGTC	2 cut(s)	26, 321
ScrFI	CCNGG	1 cut(s)	491
SetI	ASST	6 cut(s)	75, 96, 117, 125, 299, 469
SfaNI	GCATC	1 cut(s)	503
SfcI	CTRYAG	1 cut(s)	602
SinI	GGWCC	1 cut(s)	589
SmlI	CTYRAG	1 cut(s)	16
SmoI	CTYRAG	1 cut(s)	16
Sse9I	AATT	6 cut(s)	171, 264, 288, 362, 408, 555
SsiI	CCGC	1 cut(s)	81
StyD4I	CCNGG	1 cut(s)	489
TaaI	ACNGT	2 cut(s)	421, 547
TaqI	TCGA	1 cut(s)	594
TasI	AATT	6 cut(s)	171, 264, 288, 362, 408, 555
TauI	GCSGC	1 cut(s)	83
TfiI	GAWTC	3 cut(s)	345, 379, 504
Tru1I	TTAA	2 cut(s)	230, 407
Tru9I	TTAA	2 cut(s)	230, 407
TscAI	CASTG	1 cut(s)	424
TseI	GCWGC	5 cut(s)	77, 83, 167, 371, 464
TspDTI	ATGAA	2 cut(s)	38, 556
TspRI	CASTG	1 cut(s)	424
VpaK11BI	GGWCC	1 cut(s)	589

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