Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0009568

Physical Location & Seq

Genomic Coordinates Forward (+)

8770894 .. 8772676

Gene Structure 1783 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG096700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGCGAGCCTATCACTGTCCTCCACGTCAGCGCAGACCTTCTCTCTCCACCGCAGCAGCACAAGCAAGGTCGTCTCCGCCGCGCCTCTGCTTCAGGCCAGGAAGAAGCTCTTTGGCGTTTTCCCCCGCGCCTCCAGCTCACTCCATTACCATCCACTCAGAGTTTCGATCGGTAGAAACGTTTCGATTAGTGGAAACGATGAGTTGAAGTTGATGAAGAAGAAGACGACGAAGAAGATCAGGAGGGGAATGACTACAGTTTGTTATGCTTTACCTCTCAGAGTCGATACTATCCAGTGGATCGCCACCATCTCATCTGCGATCCTGATGTTTGTGAAAGGAACTGCTGTGCAGAAATCGTTTCTTGTGCCCTTGTTTGCTCTACTAGCACCGGGGGAACTTGAATTGCCATTAGTAGCATGTCTCCTGGTGATTGTTGCTCCACACCAAGTTATGAGACTCAGGGGAAGACAAGAAGGTGCTATTCTTTCCCTAGTCATTGCAGGATATTTGGCTTTTCAGCATTTCTCACGCATTGGAAGCTTGAACCAATCATTTGACCGAGGTTCAATTGTTGCAACCTTAGCCATCATTTGTCTCACTGTTCTGTCATGCTTGCTCCTGTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0007154 GO:0008150 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009507 GO:0009526 GO:0009528 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009605 GO:0009628 GO:0009631 GO:0009706 GO:0009719 GO:0009725 GO:0009737 GO:0009941 GO:0009987 GO:0009991 GO:0010033 GO:0010035 GO:0016020 GO:0016021 GO:0019866 GO:0031090 GO:0031224 GO:0031300 GO:0031301 GO:0031350 GO:0031351 GO:0031352 GO:0031353 GO:0031356 GO:0031357 GO:0031668 GO:0031967 GO:0031969 GO:0031975 GO:0031976 GO:0031984 GO:0033554 GO:0033993 GO:0034357 GO:0042170 GO:0042221 GO:0042631 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051716 GO:0055035 GO:0070417 GO:0070887 GO:0071214 GO:0071229 GO:0071462 GO:0071496 GO:0097305 GO:0104004 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WCOR413

Protein Analysis

209

Amino Acids

22.74

Weight (kDa)

10.66

Isoelectric Point (pI)

38.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WCOR413	PF05562	70 - 131	2e-07	Cold acclimation protein WCOR413
WCOR413	PF05562	131 - 200	2.2e-20	Cold acclimation protein WCOR413

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

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Orthologous Genes (Group: OG0009568)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G29390 AT1G29390 AT1G29395
fragaria_vesca	FvH4_3g06340 FvH4_3g06340
malus_domestica	MD05G1291300.v1.1 MD10G1267000.v1.1 MD13G1187800.v1.1
prunus_persica	Prupe.4G074300_v2.0.a1 Prupe.4G074300_v2.0.a1
pyrus_communis	pycom05g26780 pycom10g22320
rosa_chinensis	RchiOBHm_Chr5g0012971
rosa_laevigata	RLG00000031973
rosa_multiflora	Rmu_sc0010837.1_g000002
rosa_roxburghii	Rroxscaffold_1G00063610
rosa_rugosa	Rorug05G0005600
rosa_samantha	Rh5AG100000 Rh5BG096700 Rh5CG109000 Rh5DG095500
rosa_wichuraiana	Rw5G008740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	83, 129
AciI	CCGC	4 cut(s)	52, 78, 81, 127
AclI	AACGTT	1 cut(s)	180
AclWI	GGATC	2 cut(s)	308, 316
AcuI	CTGAAG	1 cut(s)	77
AgsI	TTSAA	4 cut(s)	208, 404, 547, 570
AjiI	CACGTC	1 cut(s)	27
AjnI	CCWGG	2 cut(s)	98, 426
AluBI	AGCT	3 cut(s)	109, 138, 543
AluI	AGCT	3 cut(s)	109, 138, 543
Alw26I	GTCTC	4 cut(s)	79, 428, 451, 602
AlwI	GGATC	2 cut(s)	308, 316
AoxI	GGCC	1 cut(s)	96
ApeKI	GCWGC	2 cut(s)	54, 57
Asp700I	GAANNNNTTC	1 cut(s)	181
AspLEI	GCGC	3 cut(s)	34, 85, 131
AsuC2I	CCSGG	1 cut(s)	393
AsuHPI	GGTGA	1 cut(s)	442
BaeGI	GKGCMC	1 cut(s)	372
BbsI	GAAGAC	2 cut(s)	230, 475
BbvI	GCAGC	2 cut(s)	66, 69
BccI	CCATC	3 cut(s)	159, 317, 596
BciT130I	CCWGG	2 cut(s)	100, 428
BcnI	CCSGG	1 cut(s)	393
BcoDI	GTCTC	4 cut(s)	79, 428, 451, 602
BfaI	CTAG	2 cut(s)	386, 494
BfmI	CTRYAG	1 cut(s)	255
BisI	GCNGC	3 cut(s)	55, 58, 81
BlsI	GCNGC	3 cut(s)	56, 59, 82
Bme1390I	CCNGG	3 cut(s)	100, 393, 428
BmgBI	CACGTC	1 cut(s)	27
BmrFI	CCNGG	3 cut(s)	100, 393, 428
BpiI	GAAGAC	2 cut(s)	230, 475
BpmI	CTGGAG	1 cut(s)	118
Bpu10I	CCTNAGC	1 cut(s)	583
BpuMI	CCSGG	1 cut(s)	393
BsaJI	CCNNGG	2 cut(s)	392, 562
Bse1I	ACTGG	1 cut(s)	295
Bse3DI	GCAATG	1 cut(s)	498
BseBI	CCWGG	2 cut(s)	100, 428
BseDI	CCNNGG	2 cut(s)	392, 562
BseGI	GGATG	1 cut(s)	151
BseMI	GCAATG	1 cut(s)	498
BseMII	CTCAG	3 cut(s)	172, 292, 475
BseNI	ACTGG	1 cut(s)	295
BseSI	GKGCMC	1 cut(s)	372
BseXI	GCAGC	2 cut(s)	66, 69
BsgI	GTGCAG	1 cut(s)	371
Bsh1236I	CGCG	2 cut(s)	83, 129
Bsh1285I	CGRYCG	1 cut(s)	171
BshFI	GGCC	1 cut(s)	98
BsiEI	CGRYCG	1 cut(s)	171
BsiSI	CCGG	1 cut(s)	392
BsmAI	GTCTC	4 cut(s)	79, 428, 451, 602
BsmBI	CGTCTC	1 cut(s)	79
BsnI	GGCC	1 cut(s)	98
Bsp1286I	GDGCHC	1 cut(s)	372
Bsp143I	GATC	4 cut(s)	168, 237, 300, 321
BspACI	CCGC	4 cut(s)	52, 78, 81, 127
BspANI	GGCC	1 cut(s)	98
BspCNI	CTCAG	3 cut(s)	171, 291, 474
BspFNI	CGCG	2 cut(s)	83, 129
BspPI	GGATC	2 cut(s)	308, 316
BsrDI	GCAATG	1 cut(s)	498
BsrI	ACTGG	1 cut(s)	295
BssECI	CCNNGG	2 cut(s)	392, 562
BssMI	GATC	4 cut(s)	168, 237, 300, 321
Bst2UI	CCWGG	2 cut(s)	100, 428
Bst4CI	ACNGT	3 cut(s)	18, 259, 604
BstC8I	GCNNGC	2 cut(s)	7, 617
BstDEI	CTNAG	4 cut(s)	158, 278, 461, 583
BstF5I	GGATG	1 cut(s)	151
BstFNI	CGCG	2 cut(s)	83, 129
BstHHI	GCGC	3 cut(s)	34, 85, 131
BstKTI	GATC	4 cut(s)	171, 240, 303, 324
BstMAI	GTCTC	4 cut(s)	79, 428, 451, 602
BstMBI	GATC	4 cut(s)	168, 237, 300, 321
BstMCI	CGRYCG	1 cut(s)	171
BstMWI	GCNNNNNNNGC	5 cut(s)	63, 135, 386, 540, 584
BstNI	CCWGG	2 cut(s)	100, 428
BstNSI	RCATGY	1 cut(s)	423
BstSCI	CCNGG	3 cut(s)	98, 391, 426
BstSFI	CTRYAG	1 cut(s)	255
BstSLI	GKGCMC	1 cut(s)	372
BstUI	CGCG	2 cut(s)	83, 129
BstV1I	GCAGC	2 cut(s)	66, 69
BstV2I	GAAGAC	2 cut(s)	230, 475
BsuRI	GGCC	1 cut(s)	98
BtrI	CACGTC	1 cut(s)	27
BtsCI	GGATG	1 cut(s)	151
BtsIMutI	CAGTG	3 cut(s)	14, 302, 600
Cac8I	GCNNGC	2 cut(s)	7, 617
CfoI	GCGC	3 cut(s)	34, 85, 131
CviAII	CATG	2 cut(s)	420, 612
CviJI	RGCY	7 cut(s)	9, 98, 109, 138, 515, 543, 587
CviKI_1	RGCY	7 cut(s)	9, 98, 109, 138, 515, 543, 587
DdeI	CTNAG	4 cut(s)	158, 278, 461, 583
DpnI	GATC	4 cut(s)	170, 239, 302, 323
DpnII	GATC	4 cut(s)	168, 237, 300, 321
EciI	GGCGGA	1 cut(s)	67
Eco57I	CTGAAG	1 cut(s)	77
EcoRII	CCWGG	2 cut(s)	98, 426
Esp3I	CGTCTC	1 cut(s)	79
FaeI	CATG	2 cut(s)	423, 615
FaiI	YATR	4 cut(s)	267, 421, 455, 613
FalI	AAGNNNNNCTT	2 cut(s)	95, 127
FatI	CATG	2 cut(s)	419, 611
FauI	CCCGC	1 cut(s)	134
Fnu4HI	GCNGC	3 cut(s)	55, 58, 81
FokI	GGATG	1 cut(s)	138
Fsp4HI	GCNGC	3 cut(s)	55, 58, 81
FspBI	CTAG	2 cut(s)	386, 494
GlaI	GCGC	3 cut(s)	33, 84, 130
GluI	GCNGC	3 cut(s)	55, 58, 81
GsuI	CTGGAG	1 cut(s)	118
HaeIII	GGCC	1 cut(s)	98
HapII	CCGG	1 cut(s)	392
HhaI	GCGC	3 cut(s)	34, 85, 131
Hin1II	CATG	2 cut(s)	423, 615
Hin6I	GCGC	3 cut(s)	32, 83, 129
HinP1I	GCGC	3 cut(s)	32, 83, 129
HindIII	AAGCTT	1 cut(s)	541
HinfI	GANTC	2 cut(s)	282, 459
HpaII	CCGG	1 cut(s)	392
HphI	GGTGA	1 cut(s)	442
Hpy188I	TCNGA	3 cut(s)	161, 281, 629
Hpy188III	TCNNGA	2 cut(s)	241, 325
Hpy99I	CGWCG	1 cut(s)	232
HpyAV	CCTTC	2 cut(s)	49, 470
HpyCH4III	ACNGT	3 cut(s)	18, 259, 604
HpyCH4IV	ACGT	2 cut(s)	26, 180
HpyCH4V	TGCA	3 cut(s)	352, 503, 578
HpyF10VI	GCNNNNNNNGC	5 cut(s)	63, 135, 386, 540, 584
HpyF3I	CTNAG	4 cut(s)	158, 278, 461, 583
HpySE526I	ACGT	2 cut(s)	26, 180
Hsp92II	CATG	2 cut(s)	423, 615
HspAI	GCGC	3 cut(s)	32, 83, 129
Kzo9I	GATC	4 cut(s)	168, 237, 300, 321
LmnI	GCTCC	2 cut(s)	445, 624
Lsp1109I	GCAGC	2 cut(s)	66, 69
MaeI	CTAG	2 cut(s)	386, 494
MaeII	ACGT	2 cut(s)	26, 180
MalI	GATC	4 cut(s)	170, 239, 302, 323
MboI	GATC	4 cut(s)	168, 237, 300, 321
MboII	GAAGA	7 cut(s)	115, 229, 232, 235, 244, 247, 480
MfeI	CAATTG	1 cut(s)	570
MhlI	GDGCHC	1 cut(s)	372
MluCI	AATT	2 cut(s)	404, 570
MlyI	GAGTC	2 cut(s)	291, 453
MnlI	CCTC	6 cut(s)	31, 96, 142, 237, 285, 557
MroXI	GAANNNNTTC	1 cut(s)	181
MspI	CCGG	1 cut(s)	392
MspR9I	CCNGG	3 cut(s)	100, 393, 428
MunI	CAATTG	1 cut(s)	570
MvaI	CCWGG	2 cut(s)	100, 428
MvnI	CGCG	2 cut(s)	83, 129
MwoI	GCNNNNNNNGC	5 cut(s)	63, 135, 386, 540, 584
NciI	CCSGG	1 cut(s)	393
NdeII	GATC	4 cut(s)	168, 237, 300, 321
NlaIII	CATG	2 cut(s)	423, 615
NspI	RCATGY	1 cut(s)	423
PcsI	WCGNNNNNNNCGW	1 cut(s)	177
PdmI	GAANNNNTTC	1 cut(s)	181
PkrI	GCNGC	3 cut(s)	56, 59, 82
Ple19I	CGATCG	1 cut(s)	171
PleI	GAGTC	2 cut(s)	290, 453
PpsI	GAGTC	2 cut(s)	290, 453
Psp1406I	AACGTT	1 cut(s)	180
Psp6I	CCWGG	2 cut(s)	98, 426
PspGI	CCWGG	2 cut(s)	98, 426
PvuI	CGATCG	1 cut(s)	171
SatI	GCNGC	3 cut(s)	55, 58, 81
Sau3AI	GATC	4 cut(s)	168, 237, 300, 321
SchI	GAGTC	2 cut(s)	291, 453
ScrFI	CCNGG	3 cut(s)	100, 393, 428
SduI	GDGCHC	1 cut(s)	372
SfcI	CTRYAG	1 cut(s)	255
Sse9I	AATT	2 cut(s)	404, 570
SsiI	CCGC	4 cut(s)	52, 78, 81, 127
SspMI	CTAG	2 cut(s)	386, 494
StyD4I	CCNGG	3 cut(s)	98, 391, 426
TaaI	ACNGT	3 cut(s)	18, 259, 604
TaiI	ACGT	2 cut(s)	29, 183
TaqI	TCGA	3 cut(s)	167, 185, 285
TaqII	GACCGA	1 cut(s)	576
TasI	AATT	2 cut(s)	404, 570
TauI	GCSGC	1 cut(s)	83
TscAI	CASTG	3 cut(s)	21, 302, 607
TseI	GCWGC	2 cut(s)	54, 57
TspDTI	ATGAA	1 cut(s)	230
TspRI	CASTG	3 cut(s)	21, 302, 607
XceI	RCATGY	1 cut(s)	423
XmnI	GAANNNNTTC	1 cut(s)	181
XspI	CTAG	2 cut(s)	386, 494

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