Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0021481

Physical Location & Seq

Genomic Coordinates Forward (+)

2429791 .. 2431595

Gene Structure 1805 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00220230.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 150 bp

ATGCTATTATTTATGAACTCAGGCAAATTCATTTTTCTGAAAGTACCTGAGACAAGAAAGGCAATGTTGCCATCTGAAATTGATCAAGTGGCTCAGGATTACAAGGTTCATAGAGATGAAATTTATACAAAGCTGGTTCAGATCATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0000149 GO:0000938 GO:0001894 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005794 GO:0005802 GO:0006810 GO:0006892 GO:0006896 GO:0006996 GO:0007010 GO:0007034 GO:0007041 GO:0008150 GO:0009507 GO:0009536 GO:0009987 GO:0012505 GO:0016020 GO:0016043 GO:0016192 GO:0016197 GO:0016482 GO:0019905 GO:0031090 GO:0031410 GO:0031974 GO:0031981 GO:0031982 GO:0031984 GO:0032501 GO:0032588 GO:0032991 GO:0040008 GO:0042147 GO:0042592 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044431 GO:0044433 GO:0044444 GO:0044446 GO:0044464 GO:0045103 GO:0045104 GO:0046907 GO:0048193 GO:0048471 GO:0048871 GO:0048872 GO:0048873 GO:0050789 GO:0050879 GO:0050881 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0060052 GO:0060249 GO:0065007 GO:0065008 GO:0070013 GO:0071840 GO:0097708 GO:0098588 GO:0098791 GO:0099023

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Vps54

Protein Analysis

49

Amino Acids

5.82

Weight (kDa)

8.09

Isoelectric Point (pI)

28.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Vps54	PF07928	11 - 49	3.6e-07	Vps54-like protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0021481)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr7g0240301
rosa_multiflora	Rmu_sc0007766.1_g000001
rosa_roxburghii	Rroxscaffold_3G00220230 Rroxscaffold_6G00426720
rosa_samantha	Rh1DG116500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	2 cut(s)	26, 120
AfaI	GTAC	1 cut(s)	45
AluBI	AGCT	1 cut(s)	133
AluI	AGCT	1 cut(s)	133
Alw26I	GTCTC	1 cut(s)	44
ApoI	RAATTY	2 cut(s)	26, 120
BccI	CCATC	1 cut(s)	79
BclI	TGATCA	1 cut(s)	82
BcoDI	GTCTC	1 cut(s)	44
Bpu10I	CCTNAGC	1 cut(s)	93
Bse3DI	GCAATG	1 cut(s)	69
BseMI	GCAATG	1 cut(s)	69
BseMII	CTCAG	3 cut(s)	33, 39, 107
BsmAI	GTCTC	1 cut(s)	44
Bsp143I	GATC	2 cut(s)	82, 141
BspCNI	CTCAG	3 cut(s)	32, 40, 106
BsrDI	GCAATG	1 cut(s)	69
BssMI	GATC	2 cut(s)	82, 141
BstDEI	CTNAG	3 cut(s)	19, 48, 93
BstKTI	GATC	2 cut(s)	85, 144
BstMAI	GTCTC	1 cut(s)	44
BstMBI	GATC	2 cut(s)	82, 141
Csp6I	GTAC	1 cut(s)	44
CviAII	CATG	1 cut(s)	145
CviJI	RGCY	2 cut(s)	92, 133
CviKI_1	RGCY	2 cut(s)	92, 133
CviQI	GTAC	1 cut(s)	44
DdeI	CTNAG	3 cut(s)	19, 48, 93
DpnI	GATC	2 cut(s)	84, 143
DpnII	GATC	2 cut(s)	82, 141
FaeI	CATG	1 cut(s)	148
FaiI	YATR	4 cut(s)	14, 111, 126, 146
FatI	CATG	1 cut(s)	144
FbaI	TGATCA	1 cut(s)	82
FspEI	CC	8 cut(s)	6, 44, 60, 74, 80, 84, 89, 119
Hin1II	CATG	1 cut(s)	148
Hpy188I	TCNGA	3 cut(s)	39, 76, 141
Hpy188III	TCNNGA	1 cut(s)	95
HpyF3I	CTNAG	3 cut(s)	19, 48, 93
Hsp92II	CATG	1 cut(s)	148
Ksp22I	TGATCA	1 cut(s)	82
Kzo9I	GATC	2 cut(s)	82, 141
LpnPI	CCDG	4 cut(s)	6, 60, 80, 119
MalI	GATC	2 cut(s)	84, 143
MboI	GATC	2 cut(s)	82, 141
MluCI	AATT	3 cut(s)	26, 78, 120
MslI	CAYNNNNRTG	1 cut(s)	114
NdeII	GATC	2 cut(s)	82, 141
NlaIII	CATG	1 cut(s)	148
RsaI	GTAC	1 cut(s)	45
RsaNI	GTAC	1 cut(s)	44
RseI	CAYNNNNRTG	1 cut(s)	114
Sau3AI	GATC	2 cut(s)	82, 141
SetI	ASST	3 cut(s)	49, 108, 135
SgeI	CNNG	7 cut(s)	33, 59, 66, 98, 107, 115, 146
SmiMI	CAYNNNNRTG	1 cut(s)	114
Sse9I	AATT	3 cut(s)	26, 78, 120
TasI	AATT	3 cut(s)	26, 78, 120
TspDTI	ATGAA	4 cut(s)	19, 29, 98, 132
XapI	RAATTY	2 cut(s)	26, 120

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