Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0002673

Physical Location & Seq

Genomic Coordinates Reverse (-)

79964471 .. 79977341

Gene Structure 12871 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG565400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 219 bp

ATGGAGAGTATTCGATGTGAAAGGCCAGCTGAAGATTTTATTAATTTGACAGGACGCTCAGGGCGTATATGGGGAGTGGCAATGAGATCTACAGGCGGCTGCGTGAAGCCTATATTTATTTCAATTGGTCACCGCATTTCGCTTGATGCTGCCATCAAAATTGTAAAACTTACTTGCAAGTATCGTGTCATCGTGTGCCAGAGCCTATCCGGCAGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000287 GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0003727 GO:0003824 GO:0004518 GO:0004519 GO:0004520 GO:0004521 GO:0004536 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0016888 GO:0016891 GO:0016893 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046872 GO:0050896 GO:0051716 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140097 GO:0140098 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Endonuclease_5

Protein Analysis

72

Amino Acids

7.97

Weight (kDa)

9.94

Isoelectric Point (pI)

22.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Endonuclease_5	PF04493	10 - 62	1.7e-10	Endonuclease V

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002673)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G31150 AT4G31150 AT4G31150 AT4G31150
fragaria_vesca	FvH4_2g30570 FvH4_2g30570 FvH4_2g30570 FvH4_2g30570
malus_domestica	MD08G1132300.v1.1
prunus_persica	Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1 Prupe.1G463600_v2.0.a1
pyrus_communis	pycom08g11070
rosa_chinensis	RchiOBHm_Chr6g0312441 RchiOBHm_Chr6g0312501
rosa_laevigata	RLG00000010323 RLG00000010328
rosa_multiflora	Rmu_sc0008363.1_g000018
rosa_roxburghii	Rroxscaffold_1G00063820 Rroxscaffold_2G00098010 Rroxscaffold_7G00156790
rosa_rugosa	Rorug06G0395800 Rorug06G0396000
rosa_samantha	Rh4DG302300 Rh5CG565400 Rh6AG513200 Rh6BG524000 Rh6CG529500 Rh6DG514200 Rh6DG515300
rosa_wichuraiana	Rw6G044610 Rw6G044630 Rw6G044680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	204
Acc36I	ACCTGC	1 cut(s)	204
AciI	CCGC	2 cut(s)	96, 133
AcuI	CTGAAG	1 cut(s)	51
AgsI	TTSAA	1 cut(s)	123
AluBI	AGCT	1 cut(s)	29
AluI	AGCT	1 cut(s)	29
AoxI	GGCC	1 cut(s)	23
ApeKI	GCWGC	2 cut(s)	99, 149
AseI	ATTAAT	1 cut(s)	42
AsuHPI	GGTGA	1 cut(s)	122
BbvI	GCAGC	2 cut(s)	86, 136
BccI	CCATC	1 cut(s)	161
BfmI	CTRYAG	1 cut(s)	90
BfuAI	ACCTGC	1 cut(s)	204
BglI	GCCNNNNNGGC	1 cut(s)	210
BglII	AGATCT	1 cut(s)	86
BisI	GCNGC	3 cut(s)	97, 100, 150
BlsI	GCNGC	3 cut(s)	98, 101, 151
BmsI	GCATC	1 cut(s)	136
Bpu10I	CCTNAGC	1 cut(s)	58
Bse3DI	GCAATG	1 cut(s)	87
BseMI	GCAATG	1 cut(s)	87
BseMII	CTCAG	1 cut(s)	72
BseXI	GCAGC	2 cut(s)	86, 136
BshFI	GGCC	1 cut(s)	25
BsiSI	CCGG	1 cut(s)	210
BsnI	GGCC	1 cut(s)	25
Bsp143I	GATC	1 cut(s)	86
BspACI	CCGC	2 cut(s)	96, 133
BspANI	GGCC	1 cut(s)	25
BspCNI	CTCAG	1 cut(s)	71
BspMI	ACCTGC	1 cut(s)	204
BsrDI	GCAATG	1 cut(s)	87
BssMI	GATC	1 cut(s)	86
BstC8I	GCNNGC	1 cut(s)	27
BstDEI	CTNAG	1 cut(s)	58
BstEII	GGTNACC	1 cut(s)	128
BstKTI	GATC	1 cut(s)	89
BstMBI	GATC	1 cut(s)	86
BstMWI	GCNNNNNNNGC	1 cut(s)	210
BstPI	GGTNACC	1 cut(s)	128
BstSFI	CTRYAG	1 cut(s)	90
BstV1I	GCAGC	2 cut(s)	86, 136
BstX2I	RGATCY	1 cut(s)	86
BstYI	RGATCY	1 cut(s)	86
BsuRI	GGCC	1 cut(s)	25
BveI	ACCTGC	1 cut(s)	204
Cac8I	GCNNGC	1 cut(s)	27
CseI	GACGC	1 cut(s)	63
CviJI	RGCY	5 cut(s)	25, 29, 99, 109, 204
CviKI_1	RGCY	5 cut(s)	25, 29, 99, 109, 204
DdeI	CTNAG	1 cut(s)	58
DpnI	GATC	1 cut(s)	88
DpnII	GATC	1 cut(s)	86
Eco57I	CTGAAG	1 cut(s)	51
Eco91I	GGTNACC	1 cut(s)	128
EcoO65I	GGTNACC	1 cut(s)	128
FaiI	YATR	3 cut(s)	68, 70, 113
Fnu4HI	GCNGC	3 cut(s)	97, 100, 150
Fsp4HI	GCNGC	3 cut(s)	97, 100, 150
GluI	GCNGC	3 cut(s)	97, 100, 150
HaeIII	GGCC	1 cut(s)	25
HapII	CCGG	1 cut(s)	210
HgaI	GACGC	1 cut(s)	63
HpaII	CCGG	1 cut(s)	210
HphI	GGTGA	1 cut(s)	122
HpyCH4V	TGCA	1 cut(s)	177
HpyF10VI	GCNNNNNNNGC	1 cut(s)	210
HpyF3I	CTNAG	1 cut(s)	58
Kzo9I	GATC	1 cut(s)	86
LpnPI	CCDG	6 cut(s)	36, 39, 45, 78, 199, 212
Lsp1109I	GCAGC	2 cut(s)	86, 136
LweI	GCATC	1 cut(s)	136
MaeIII	GTNAC	1 cut(s)	128
MalI	GATC	1 cut(s)	88
MboI	GATC	1 cut(s)	86
MboII	GAAGA	1 cut(s)	44
MfeI	CAATTG	1 cut(s)	123
MflI	RGATCY	1 cut(s)	86
MluCI	AATT	3 cut(s)	43, 123, 159
MseI	TTAA	1 cut(s)	42
MspA1I	CMGCKG	1 cut(s)	29
MspI	CCGG	1 cut(s)	210
MunI	CAATTG	1 cut(s)	123
MwoI	GCNNNNNNNGC	1 cut(s)	210
NdeII	GATC	1 cut(s)	86
NmuCI	GTSAC	1 cut(s)	128
PaqCI	CACCTGC	1 cut(s)	204
PcsI	WCGNNNNNNNCGW	1 cut(s)	61
PkrI	GCNGC	3 cut(s)	98, 101, 151
PshBI	ATTAAT	1 cut(s)	42
PspEI	GGTNACC	1 cut(s)	128
PsuI	RGATCY	1 cut(s)	86
PvuII	CAGCTG	1 cut(s)	29
SaqAI	TTAA	1 cut(s)	42
SatI	GCNGC	3 cut(s)	97, 100, 150
Sau3AI	GATC	1 cut(s)	86
SetI	ASST	2 cut(s)	31, 218
SfaNI	GCATC	1 cut(s)	136
SfcI	CTRYAG	1 cut(s)	90
Sse9I	AATT	3 cut(s)	43, 123, 159
SsiI	CCGC	2 cut(s)	96, 133
TaqI	TCGA	1 cut(s)	13
TasI	AATT	3 cut(s)	43, 123, 159
TauI	GCSGC	1 cut(s)	99
Tru1I	TTAA	1 cut(s)	42
Tru9I	TTAA	1 cut(s)	42
TseFI	GTSAC	1 cut(s)	128
TseI	GCWGC	2 cut(s)	99, 149
Tsp45I	GTSAC	1 cut(s)	128
VspI	ATTAAT	1 cut(s)	42

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