Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0009568

Physical Location & Seq

Genomic Coordinates Forward (+)

9226888 .. 9232101

Gene Structure 5214 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG100000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGGCGAGCCTATCACTGTCCTCCACGCCAGCGCAGACCTTCTCTCTCCACCGCAGCAGCACAAGCAAGGTCGTCTCCGCCGCGCCTCTGCTTCAGGCCAGGAAGAAGCTCTTCGGCGTTTTCCCCCGCGCCTCCAGCTCACTCCATTACCATCCACTCAGAGTTTCTATTCGTGGAAACGATGAGTTGAAGTTGATGAAGAAGACGACGAAGAAGAAGATCAGGAGGGGAATGACTACAGTTTGTTATGCTTTACCTCTCAGAGTCGATACTATCCAGTGGATCGCCACCATCTCATCTGCGATCCTGATCTTTGCGAAAGGAACTGCTGTGCAGAAATCGTTTCTTGTGCCCTTGTTTGCTCTACAAGCACCAGGTCACGTCATCTCATGGATTAAGGGTGAATATGGCATCTGGACCGCATTTTTGGCGCTTCTTGTTCGTCTCTTCTTCTTCATTCCTGGGGAACTTGAATTGCCATTAGTAGCATTTCTCCTGGTGATTGTTGCTCCACACCAAGTTATGAGACTCAGGGGAAGACAAGAAGGTGCTATTCTTTCCCTAGTCATTGCAGGATATTTGGCTTTTCAGCATTTCTCACGCATTGGAAGCTTGAACCAATCATTTGACCGAGGTTCAATTGTTGCAACCTTAGCCATCATTTGTCTCACTGTTCTGTCATGCTTGCTCCTGTTCTGA

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

232

Amino Acids

25.58

Weight (kDa)

10.71

Isoelectric Point (pI)

32.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WCOR413	PF05562	63 - 223	9.7e-50	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

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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	5 cut(s)	52, 78, 81, 127, 420
AclWI	GGATC	2 cut(s)	290, 298
AcuI	CTGAAG	1 cut(s)	77
AgsI	TTSAA	4 cut(s)	190, 473, 616, 639
AjiI	CACGTC	1 cut(s)	382
AjnI	CCWGG	4 cut(s)	98, 373, 460, 495
AluBI	AGCT	3 cut(s)	109, 138, 612
AluI	AGCT	3 cut(s)	109, 138, 612
Alw26I	GTCTC	4 cut(s)	79, 449, 520, 671
AlwI	GGATC	2 cut(s)	290, 298
AoxI	GGCC	1 cut(s)	96
ApeKI	GCWGC	2 cut(s)	54, 57
ArsI	GACNNNNNNTTYG	2 cut(s)	409, 441
Asp700I	GAANNNNTTC	1 cut(s)	110
AspLEI	GCGC	4 cut(s)	34, 85, 131, 433
AspS9I	GGNCC	1 cut(s)	417
AsuHPI	GGTGA	2 cut(s)	413, 511
AvaII	GGWCC	1 cut(s)	417
BaeGI	GKGCMC	1 cut(s)	354
BbsI	GAAGAC	2 cut(s)	209, 544
BbvI	GCAGC	2 cut(s)	66, 69
BccI	CCATC	3 cut(s)	159, 299, 665
BciT130I	CCWGG	4 cut(s)	100, 375, 462, 497
BcoDI	GTCTC	4 cut(s)	79, 449, 520, 671
BfaI	CTAG	1 cut(s)	563
BfmI	CTRYAG	1 cut(s)	237
BfoI	RGCGCY	1 cut(s)	434
BisI	GCNGC	3 cut(s)	55, 58, 81
BlsI	GCNGC	3 cut(s)	56, 59, 82
Bme1390I	CCNGG	4 cut(s)	100, 375, 462, 497
Bme18I	GGWCC	1 cut(s)	417
BmgBI	CACGTC	1 cut(s)	382
BmgT120I	GGNCC	1 cut(s)	417
BmrFI	CCNGG	4 cut(s)	100, 375, 462, 497
BmsI	GCATC	1 cut(s)	420
BpiI	GAAGAC	2 cut(s)	209, 544
BpmI	CTGGAG	1 cut(s)	118
Bpu10I	CCTNAGC	1 cut(s)	652
BsaBI	GATNNNNATC	1 cut(s)	308
BsaJI	CCNNGG	2 cut(s)	461, 631
Bse1I	ACTGG	1 cut(s)	277
Bse3DI	GCAATG	1 cut(s)	567
Bse8I	GATNNNNATC	1 cut(s)	308
BseBI	CCWGG	4 cut(s)	100, 375, 462, 497
BseDI	CCNNGG	2 cut(s)	461, 631
BseGI	GGATG	1 cut(s)	151
BseJI	GATNNNNATC	1 cut(s)	308
BseMI	GCAATG	1 cut(s)	567
BseMII	CTCAG	3 cut(s)	172, 274, 544
BseNI	ACTGG	1 cut(s)	277
BseSI	GKGCMC	1 cut(s)	354
BseXI	GCAGC	2 cut(s)	66, 69
BsgI	GTGCAG	1 cut(s)	353
Bsh1236I	CGCG	2 cut(s)	83, 129
BshFI	GGCC	1 cut(s)	98
BsmAI	GTCTC	4 cut(s)	79, 449, 520, 671
BsmBI	CGTCTC	2 cut(s)	79, 449
BsnI	GGCC	1 cut(s)	98
Bsp1286I	GDGCHC	1 cut(s)	354
Bsp143I	GATC	4 cut(s)	219, 282, 303, 309
BspACI	CCGC	5 cut(s)	52, 78, 81, 127, 420
BspANI	GGCC	1 cut(s)	98
BspCNI	CTCAG	3 cut(s)	171, 273, 543
BspFNI	CGCG	2 cut(s)	83, 129
BspPI	GGATC	2 cut(s)	290, 298
BspQI	GCTCTTC	1 cut(s)	116
BsrDI	GCAATG	1 cut(s)	567
BsrI	ACTGG	1 cut(s)	277
BssECI	CCNNGG	2 cut(s)	461, 631
BssMI	GATC	4 cut(s)	219, 282, 303, 309
Bst2UI	CCWGG	4 cut(s)	100, 375, 462, 497
Bst4CI	ACNGT	3 cut(s)	18, 241, 673
Bst6I	CTCTTC	2 cut(s)	116, 452
BstC8I	GCNNGC	3 cut(s)	7, 30, 686
BstDEI	CTNAG	4 cut(s)	158, 260, 530, 652
BstF5I	GGATG	1 cut(s)	151
BstFNI	CGCG	2 cut(s)	83, 129
BstH2I	RGCGCY	1 cut(s)	434
BstHHI	GCGC	4 cut(s)	34, 85, 131, 433
BstKTI	GATC	4 cut(s)	222, 285, 306, 312
BstMAI	GTCTC	4 cut(s)	79, 449, 520, 671
BstMBI	GATC	4 cut(s)	219, 282, 303, 309
BstMWI	GCNNNNNNNGC	6 cut(s)	63, 135, 368, 428, 609, 653
BstNI	CCWGG	4 cut(s)	100, 375, 462, 497
BstSCI	CCNGG	4 cut(s)	98, 373, 460, 495
BstSFI	CTRYAG	1 cut(s)	237
BstSLI	GKGCMC	1 cut(s)	354
BstUI	CGCG	2 cut(s)	83, 129
BstV1I	GCAGC	2 cut(s)	66, 69
BstV2I	GAAGAC	2 cut(s)	209, 544
BsuRI	GGCC	1 cut(s)	98
BtrI	CACGTC	1 cut(s)	382
BtsCI	GGATG	1 cut(s)	151
BtsIMutI	CAGTG	3 cut(s)	14, 284, 669
Cac8I	GCNNGC	3 cut(s)	7, 30, 686
CfoI	GCGC	4 cut(s)	34, 85, 131, 433
Cfr13I	GGNCC	1 cut(s)	417
CsiI	ACCWGGT	1 cut(s)	373
CviAII	CATG	2 cut(s)	390, 681
CviJI	RGCY	7 cut(s)	9, 98, 109, 138, 584, 612, 656
CviKI_1	RGCY	7 cut(s)	9, 98, 109, 138, 584, 612, 656
DdeI	CTNAG	4 cut(s)	158, 260, 530, 652
DpnI	GATC	4 cut(s)	221, 284, 305, 311
DpnII	GATC	4 cut(s)	219, 282, 303, 309
Eam1104I	CTCTTC	2 cut(s)	116, 452
EarI	CTCTTC	2 cut(s)	116, 452
EciI	GGCGGA	1 cut(s)	67
Eco47I	GGWCC	1 cut(s)	417
Eco57I	CTGAAG	1 cut(s)	77
EcoRII	CCWGG	4 cut(s)	98, 373, 460, 495
Esp3I	CGTCTC	2 cut(s)	79, 449
FaeI	CATG	2 cut(s)	393, 684
FaiI	YATR	5 cut(s)	249, 391, 408, 524, 682
FalI	AAGNNNNNCTT	2 cut(s)	95, 127
FatI	CATG	2 cut(s)	389, 680
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	1 cut(s)	563
GlaI	GCGC	4 cut(s)	33, 84, 130, 432
GluI	GCNGC	3 cut(s)	55, 58, 81
GsuI	CTGGAG	1 cut(s)	118
HaeII	RGCGCY	1 cut(s)	434
HaeIII	GGCC	1 cut(s)	98
HhaI	GCGC	4 cut(s)	34, 85, 131, 433
Hin1II	CATG	2 cut(s)	393, 684
Hin6I	GCGC	4 cut(s)	32, 83, 129, 431
HinP1I	GCGC	4 cut(s)	32, 83, 129, 431
HindIII	AAGCTT	1 cut(s)	610
HinfI	GANTC	2 cut(s)	264, 528
HphI	GGTGA	2 cut(s)	413, 511
Hpy188I	TCNGA	3 cut(s)	161, 263, 698
Hpy188III	TCNNGA	3 cut(s)	223, 307, 415
Hpy99I	CGWCG	1 cut(s)	211
HpyAV	CCTTC	2 cut(s)	49, 539
HpyCH4III	ACNGT	3 cut(s)	18, 241, 673
HpyCH4IV	ACGT	1 cut(s)	381
HpyCH4V	TGCA	3 cut(s)	334, 572, 647
HpyF10VI	GCNNNNNNNGC	6 cut(s)	63, 135, 368, 428, 609, 653
HpyF3I	CTNAG	4 cut(s)	158, 260, 530, 652
HpySE526I	ACGT	1 cut(s)	381
Hsp92II	CATG	2 cut(s)	393, 684
HspAI	GCGC	4 cut(s)	32, 83, 129, 431
Kzo9I	GATC	4 cut(s)	219, 282, 303, 309
LguI	GCTCTTC	1 cut(s)	116
LmnI	GCTCC	2 cut(s)	514, 693
Lsp1109I	GCAGC	2 cut(s)	66, 69
LweI	GCATC	1 cut(s)	420
MabI	ACCWGGT	1 cut(s)	373
MaeI	CTAG	1 cut(s)	563
MaeII	ACGT	1 cut(s)	381
MaeIII	GTNAC	1 cut(s)	377
MalI	GATC	4 cut(s)	221, 284, 305, 311
MboI	GATC	4 cut(s)	219, 282, 303, 309
MfeI	CAATTG	1 cut(s)	639
MhlI	GDGCHC	1 cut(s)	354
MluCI	AATT	2 cut(s)	473, 639
MlyI	GAGTC	2 cut(s)	273, 522
MnlI	CCTC	6 cut(s)	31, 96, 142, 219, 267, 626
MroXI	GAANNNNTTC	1 cut(s)	110
MseI	TTAA	1 cut(s)	396
MspR9I	CCNGG	4 cut(s)	100, 375, 462, 497
MunI	CAATTG	1 cut(s)	639
MvaI	CCWGG	4 cut(s)	100, 375, 462, 497
MvnI	CGCG	2 cut(s)	83, 129
MwoI	GCNNNNNNNGC	6 cut(s)	63, 135, 368, 428, 609, 653
NdeII	GATC	4 cut(s)	219, 282, 303, 309
NlaIII	CATG	2 cut(s)	393, 684
NmuCI	GTSAC	1 cut(s)	377
PciSI	GCTCTTC	1 cut(s)	116
PdmI	GAANNNNTTC	1 cut(s)	110
PkrI	GCNGC	3 cut(s)	56, 59, 82
PleI	GAGTC	2 cut(s)	272, 522
PpsI	GAGTC	2 cut(s)	272, 522
Psp6I	CCWGG	4 cut(s)	98, 373, 460, 495
PspGI	CCWGG	4 cut(s)	98, 373, 460, 495
PspPI	GGNCC	1 cut(s)	417
SapI	GCTCTTC	1 cut(s)	116
SaqAI	TTAA	1 cut(s)	396
SatI	GCNGC	3 cut(s)	55, 58, 81
Sau3AI	GATC	4 cut(s)	219, 282, 303, 309
Sau96I	GGNCC	1 cut(s)	417
SchI	GAGTC	2 cut(s)	273, 522
ScrFI	CCNGG	4 cut(s)	100, 375, 462, 497
SduI	GDGCHC	1 cut(s)	354
SexAI	ACCWGGT	1 cut(s)	373
SfaNI	GCATC	1 cut(s)	420
SfcI	CTRYAG	1 cut(s)	237
SinI	GGWCC	1 cut(s)	417
Sse9I	AATT	2 cut(s)	473, 639
SsiI	CCGC	5 cut(s)	52, 78, 81, 127, 420
SspMI	CTAG	1 cut(s)	563
StyD4I	CCNGG	4 cut(s)	98, 373, 460, 495
TaaI	ACNGT	3 cut(s)	18, 241, 673
TaiI	ACGT	1 cut(s)	384
TaqI	TCGA	1 cut(s)	267
TaqII	GACCGA	1 cut(s)	645
TasI	AATT	2 cut(s)	473, 639
TauI	GCSGC	1 cut(s)	83
Tru1I	TTAA	1 cut(s)	396
Tru9I	TTAA	1 cut(s)	396
TscAI	CASTG	3 cut(s)	21, 284, 676
TseFI	GTSAC	1 cut(s)	377
TseI	GCWGC	2 cut(s)	54, 57
Tsp45I	GTSAC	1 cut(s)	377
TspDTI	ATGAA	2 cut(s)	212, 445
TspRI	CASTG	3 cut(s)	21, 284, 676
VpaK11BI	GGWCC	1 cut(s)	417
XmnI	GAANNNNTTC	1 cut(s)	110
XspI	CTAG	1 cut(s)	563

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