Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0009737

Physical Location & Seq

Genomic Coordinates Reverse (-)

38038510 .. 38039305

Gene Structure 796 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG200100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGCCGGTTTCCGACGCTGCCCGTGACGTTATTCTCAGGTTGGATGGTGATTACCTCACACATGGTGTCTTGTGCCTCCCGTATCATCTTCTCAAACTGCGTCCAGACGGAGTTGGCGACGACGACTCACGGATGAAAGTTTTGAGCTTTTCTGTCTCCGGCATCTCTTTCTCGATGACGGCGCATCACGGAGTAAGGGAGGGGGTGTTCGTCATCGTCGGTGACAAGTCATGTGACCAGACTAGTAGTAGGCCCTGGTGTGGAAGTCCATGGTTAGATAATCTCAAAATTGTAAACATGATCATGAACTCATTTATAAAGTCCACAAATCAAAAGGCTGAGCAGAGTAAGACAATGGTTCAAGAGAGATATCGTGACATTAAAAAGTTAGATTTTGCAAAGAAGCATATAACAAACCACCATAGCTGCTCTTCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0000938 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005794 GO:0006810 GO:0006890 GO:0006950 GO:0006970 GO:0007009 GO:0008150 GO:0009266 GO:0009408 GO:0009628 GO:0009987 GO:0010256 GO:0010286 GO:0012505 GO:0016020 GO:0016043 GO:0016192 GO:0016197 GO:0016482 GO:0031090 GO:0031410 GO:0031982 GO:0031984 GO:0032991 GO:0042147 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044431 GO:0044433 GO:0044444 GO:0044446 GO:0044464 GO:0046907 GO:0048193 GO:0050896 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0061024 GO:0071840 GO:0097708 GO:0098588 GO:0098791 GO:0099023

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Vps53_N

Protein Analysis

145

Amino Acids

16.3

Weight (kDa)

8.71

Isoelectric Point (pI)

33.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Vps53_N	PF04100	103 - 139	1.1e-07	Vps53, N-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0009737)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0159391 RchiOBHm_Chr3g0487301
rosa_laevigata	RLG00000011507 RLG00000029402
rosa_roxburghii	Rroxscaffold_4G00312630 Rroxscaffold_7G00166790 Rroxscaffold_7G00169590 Rroxscaffold_7G00206080
rosa_rugosa	Rorug06G0002000
rosa_samantha	Rh1AG200100 Rh1AG205000 Rh1AG242200 Rh1CG185000 Rh2BG555400 Rh3AG249400 Rh4AG107400 Rh4CG107100 Rh6AG218000 Rh6DG091600 Rh7CG262100 Rh7DG252700
rosa_wichuraiana	Rw1G021230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	317
AdeI	CACNNNGTG	1 cut(s)	65
AfiI	CCNNNNNNNGG	1 cut(s)	260
AgsI	TTSAA	1 cut(s)	362
AhlI	ACTAGT	1 cut(s)	242
AjnI	CCWGG	1 cut(s)	254
AloI	GAACNNNNNNTCC	2 cut(s)	191, 223
AluBI	AGCT	2 cut(s)	147, 426
AluI	AGCT	2 cut(s)	147, 426
Alw26I	GTCTC	1 cut(s)	160
AoxI	GGCC	1 cut(s)	251
ApeKI	GCWGC	2 cut(s)	17, 426
AspLEI	GCGC	1 cut(s)	184
AspS9I	GGNCC	1 cut(s)	252
AsuHPI	GGTGA	2 cut(s)	59, 233
BbvI	GCAGC	2 cut(s)	4, 413
BccI	CCATC	1 cut(s)	38
BceAI	ACGGC	1 cut(s)	195
BciT130I	CCWGG	1 cut(s)	256
BclI	TGATCA	1 cut(s)	300
BcoDI	GTCTC	1 cut(s)	160
BcuI	ACTAGT	1 cut(s)	242
BfaI	CTAG	1 cut(s)	243
BisI	GCNGC	2 cut(s)	18, 427
BlpI	GCTNAGC	1 cut(s)	339
BlsI	GCNGC	2 cut(s)	19, 428
Bme1390I	CCNGG	1 cut(s)	256
BmgT120I	GGNCC	1 cut(s)	252
BmrFI	CCNGG	1 cut(s)	256
BmsI	GCATC	2 cut(s)	171, 193
Bpu1102I	GCTNAGC	1 cut(s)	339
BsaJI	CCNNGG	2 cut(s)	254, 269
BsaXI	ACNNNNNCTCC	2 cut(s)	191, 221
Bsc4I	CCNNNNNNNGG	1 cut(s)	260
Bse118I	RCCGGY	1 cut(s)	4
BseBI	CCWGG	1 cut(s)	256
BseDI	CCNNGG	2 cut(s)	254, 269
BseGI	GGATG	2 cut(s)	49, 138
BseLI	CCNNNNNNNGG	1 cut(s)	260
BseMII	CTCAG	2 cut(s)	49, 330
BseXI	GCAGC	2 cut(s)	4, 413
BshFI	GGCC	1 cut(s)	253
BsiSI	CCGG	2 cut(s)	5, 159
BslI	CCNNNNNNNGG	1 cut(s)	260
BsmAI	GTCTC	1 cut(s)	160
BsnI	GGCC	1 cut(s)	253
Bsp143I	GATC	1 cut(s)	300
Bsp1720I	GCTNAGC	1 cut(s)	339
Bsp19I	CCATGG	1 cut(s)	269
BspANI	GGCC	1 cut(s)	253
BspCNI	CTCAG	2 cut(s)	48, 331
BspHI	TCATGA	1 cut(s)	303
BsrFI	RCCGGY	1 cut(s)	4
BssAI	RCCGGY	1 cut(s)	4
BssECI	CCNNGG	2 cut(s)	254, 269
BssMI	GATC	1 cut(s)	300
BssT1I	CCWWGG	1 cut(s)	269
Bst2UI	CCWGG	1 cut(s)	256
BstDEI	CTNAG	2 cut(s)	35, 339
BstDSI	CCRYGG	1 cut(s)	269
BstF5I	GGATG	2 cut(s)	49, 138
BstHHI	GCGC	1 cut(s)	184
BstKTI	GATC	1 cut(s)	303
BstMAI	GTCTC	1 cut(s)	160
BstMBI	GATC	1 cut(s)	300
BstNI	CCWGG	1 cut(s)	256
BstSCI	CCNGG	1 cut(s)	254
BstV1I	GCAGC	2 cut(s)	4, 413
BsuRI	GGCC	1 cut(s)	253
BtgI	CCRYGG	1 cut(s)	269
BtsCI	GGATG	2 cut(s)	49, 138
CciI	TCATGA	1 cut(s)	303
CfoI	GCGC	1 cut(s)	184
Cfr10I	RCCGGY	1 cut(s)	4
Cfr13I	GGNCC	1 cut(s)	252
CseI	GACGC	2 cut(s)	23, 89
CviAII	CATG	5 cut(s)	62, 231, 270, 298, 304
CviJI	RGCY	4 cut(s)	147, 253, 338, 426
CviKI_1	RGCY	4 cut(s)	147, 253, 338, 426
DdeI	CTNAG	2 cut(s)	35, 339
DpnI	GATC	1 cut(s)	302
DpnII	GATC	1 cut(s)	300
DraIII	CACNNNGTG	1 cut(s)	65
Eco130I	CCWWGG	1 cut(s)	269
Eco32I	GATATC	1 cut(s)	371
EcoO109I	RGGNCCY	1 cut(s)	252
EcoRII	CCWGG	1 cut(s)	254
EcoRV	GATATC	1 cut(s)	371
EcoT14I	CCWWGG	1 cut(s)	269
ErhI	CCWWGG	1 cut(s)	269
FaeI	CATG	5 cut(s)	65, 234, 273, 301, 307
FatI	CATG	5 cut(s)	61, 230, 269, 297, 303
FbaI	TGATCA	1 cut(s)	300
Fnu4HI	GCNGC	2 cut(s)	18, 427
FokI	GGATG	2 cut(s)	56, 145
Fsp4HI	GCNGC	2 cut(s)	18, 427
FspBI	CTAG	1 cut(s)	243
GlaI	GCGC	1 cut(s)	183
GluI	GCNGC	2 cut(s)	18, 427
HaeIII	GGCC	1 cut(s)	253
HapII	CCGG	2 cut(s)	5, 159
HgaI	GACGC	2 cut(s)	23, 89
HhaI	GCGC	1 cut(s)	184
Hin1II	CATG	5 cut(s)	65, 234, 273, 301, 307
Hin6I	GCGC	1 cut(s)	182
HinP1I	GCGC	1 cut(s)	182
HinfI	GANTC	1 cut(s)	125
HpaII	CCGG	2 cut(s)	5, 159
HphI	GGTGA	2 cut(s)	59, 233
Hpy166II	GTNNAC	2 cut(s)	295, 324
Hpy188I	TCNGA	1 cut(s)	13
Hpy188III	TCNNGA	5 cut(s)	104, 172, 304, 362, 374
Hpy8I	GTNNAC	2 cut(s)	295, 324
Hpy99I	CGWCG	4 cut(s)	17, 122, 125, 221
HpyCH4IV	ACGT	1 cut(s)	27
HpyCH4V	TGCA	1 cut(s)	398
HpyF3I	CTNAG	2 cut(s)	35, 339
HpySE526I	ACGT	1 cut(s)	27
Hsp92II	CATG	5 cut(s)	65, 234, 273, 301, 307
HspAI	GCGC	1 cut(s)	182
Ksp22I	TGATCA	1 cut(s)	300
Kzo9I	GATC	1 cut(s)	300
LpnPI	CCDG	7 cut(s)	18, 22, 117, 172, 241, 251, 268
Lsp1109I	GCAGC	2 cut(s)	4, 413
LweI	GCATC	2 cut(s)	171, 193
MaeI	CTAG	1 cut(s)	243
MaeII	ACGT	1 cut(s)	27
MaeIII	GTNAC	4 cut(s)	23, 221, 233, 374
MalI	GATC	1 cut(s)	302
MboI	GATC	1 cut(s)	300
MboII	GAAGA	2 cut(s)	80, 423
MluCI	AATT	1 cut(s)	288
MlyI	GAGTC	1 cut(s)	119
MmeI	TCCRAC	2 cut(s)	21, 36
MnlI	CCTC	3 cut(s)	65, 86, 193
MseI	TTAA	1 cut(s)	381
MslI	CAYNNNNRTG	1 cut(s)	302
MspI	CCGG	2 cut(s)	5, 159
MspR9I	CCNGG	1 cut(s)	256
MvaI	CCWGG	1 cut(s)	256
NcoI	CCATGG	1 cut(s)	269
NdeII	GATC	1 cut(s)	300
NlaIII	CATG	5 cut(s)	65, 234, 273, 301, 307
NmuCI	GTSAC	4 cut(s)	23, 221, 233, 374
PagI	TCATGA	1 cut(s)	303
PcsI	WCGNNNNNNNCGW	1 cut(s)	114
PkrI	GCNGC	2 cut(s)	19, 428
PleI	GAGTC	1 cut(s)	119
PpsI	GAGTC	1 cut(s)	119
PsiI	TTATAA	1 cut(s)	317
Psp6I	CCWGG	1 cut(s)	254
PspGI	CCWGG	1 cut(s)	254
PspPI	GGNCC	1 cut(s)	252
RseI	CAYNNNNRTG	1 cut(s)	302
SaqAI	TTAA	1 cut(s)	381
SatI	GCNGC	2 cut(s)	18, 427
Sau3AI	GATC	1 cut(s)	300
Sau96I	GGNCC	1 cut(s)	252
SchI	GAGTC	1 cut(s)	119
ScrFI	CCNGG	1 cut(s)	256
SetI	ASST	5 cut(s)	30, 41, 57, 149, 428
SfaNI	GCATC	2 cut(s)	171, 193
SmiMI	CAYNNNNRTG	1 cut(s)	302
SpeI	ACTAGT	1 cut(s)	242
Sse9I	AATT	1 cut(s)	288
SspMI	CTAG	1 cut(s)	243
StyD4I	CCNGG	1 cut(s)	254
StyI	CCWWGG	1 cut(s)	269
TaiI	ACGT	1 cut(s)	30
TaqI	TCGA	1 cut(s)	173
TasI	AATT	1 cut(s)	288
Tru1I	TTAA	1 cut(s)	381
Tru9I	TTAA	1 cut(s)	381
TseFI	GTSAC	4 cut(s)	23, 221, 233, 374
TseI	GCWGC	2 cut(s)	17, 426
Tsp45I	GTSAC	4 cut(s)	23, 221, 233, 374
TspDTI	ATGAA	3 cut(s)	149, 320, 423
TspGWI	ACGGA	3 cut(s)	123, 145, 204
XspI	CTAG	1 cut(s)	243

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