Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0008823

Physical Location & Seq

Genomic Coordinates Reverse (-)

4179905 .. 4190266

Gene Structure 10362 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG061200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGGGAGCCATTGAACATATTGTTAGAGCGAAGGAATTTGAAAAGAAAGCGAAGAAGAAGCTCGTTGGATGGAGATTTTTCAATTCTAAAGAATCCAATAAACACAAACAGGCCGCTGAACTCTTCCATGAAGCTGCCCATCATTACAAACTCGCCAGAGCCTGGGATAAAGCTGGGTACACATTGGCAAAGTTGGCCTATTGTCATTTGAAGACTGATAGCAAAGAACAAGCCGCAAAAGCTTTTCTTGATGCTGCGGAGTGTCACAGTAAAACGTGCCTTGCTTACTTAGACAAGGGAGCAAATCTCCTTTGTGTAGCTGGATCGCTTGATAAAGCTGGAGTATGTTGTGAAGAAATTGCGGGGCTGAGGAGTCGTTCTCTGGAGAGATTGGTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000149 GO:0003674 GO:0005483 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005886 GO:0005911 GO:0006810 GO:0006886 GO:0008104 GO:0008150 GO:0009506 GO:0009987 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0016192 GO:0019905 GO:0022411 GO:0030054 GO:0031090 GO:0031201 GO:0032984 GO:0032991 GO:0033036 GO:0034613 GO:0035494 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043624 GO:0043933 GO:0044422 GO:0044424 GO:0044425 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0055044 GO:0061024 GO:0061025 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0071944 GO:0098588 GO:0098796 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko04138 ko04721 map04138 map04721

Pfam Domains

Protein Families

SNAP

Protein Analysis

132

Amino Acids

14.74

Weight (kDa)

9.23

Isoelectric Point (pI)

43.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SNAP	PF14938	9 - 125	7.2e-22	Soluble NSF attachment protein, SNAP

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0008823)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g01080 FvH4_2g25430
rosa_chinensis	RchiOBHm_Chr6g0293641 RchiOBHm_Chr6g0293651
rosa_laevigata	RLG00000011936
rosa_multiflora	Rmu_sc0001792.1_g000037 Rmu_sc0008436.1_g000005 Rmu_sc0040173.1_g000001 Rmu_sc0040173.1_g000002
rosa_roxburghii	Rroxscaffold_7G00174020
rosa_rugosa	Rorug03G0000500 Rorug06G0237000.1
rosa_samantha	Rh2BG013600 Rh2CG020700 Rh3AG060300 Rh3BG062400 Rh3CG061200 Rh3DG062000 Rh6BG357200 Rh6CG363900 Rh6CG364000 Rh6DG350900
rosa_wichuraiana	Rw3G004690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	162
AciI	CCGC	4 cut(s)	114, 234, 257, 362
AclWI	GGATC	1 cut(s)	331
AcsI	RAATTY	1 cut(s)	35
AfaI	GTAC	1 cut(s)	179
AfiI	CCNNNNNNNGG	1 cut(s)	162
AgsI	TTSAA	4 cut(s)	14, 41, 82, 211
AjnI	CCWGG	1 cut(s)	161
AluBI	AGCT	6 cut(s)	61, 134, 173, 242, 320, 338
AluI	AGCT	6 cut(s)	61, 134, 173, 242, 320, 338
AlwI	GGATC	1 cut(s)	331
AlwNI	CAGNNNCTG	1 cut(s)	162
AoxI	GGCC	2 cut(s)	111, 195
ApeKI	GCWGC	2 cut(s)	134, 254
ApoI	RAATTY	1 cut(s)	35
BbsI	GAAGAC	1 cut(s)	218
BbvCI	CCTCAGC	1 cut(s)	368
BbvI	GCAGC	2 cut(s)	121, 241
BccI	CCATC	2 cut(s)	63, 147
BciT130I	CCWGG	1 cut(s)	163
BisI	GCNGC	4 cut(s)	114, 135, 234, 255
BlsI	GCNGC	4 cut(s)	115, 136, 235, 256
Bme1390I	CCNGG	1 cut(s)	163
BmiI	GGNNCC	1 cut(s)	7
BmrFI	CCNGG	1 cut(s)	163
BmsI	GCATC	1 cut(s)	241
BpiI	GAAGAC	1 cut(s)	218
BplI	GAGNNNNNCTC	4 cut(s)	291, 323, 364, 396
BpmI	CTGGAG	1 cut(s)	360
Bpu10I	CCTNAGC	1 cut(s)	368
BsaJI	CCNNGG	1 cut(s)	162
Bsc4I	CCNNNNNNNGG	1 cut(s)	162
BseBI	CCWGG	1 cut(s)	163
BseDI	CCNNGG	1 cut(s)	162
BseGI	GGATG	1 cut(s)	74
BseLI	CCNNNNNNNGG	1 cut(s)	162
BseMII	CTCAG	1 cut(s)	359
BseRI	GAGGAG	1 cut(s)	385
BseXI	GCAGC	2 cut(s)	121, 241
BseYI	CCCAGC	1 cut(s)	173
BshFI	GGCC	2 cut(s)	113, 197
BslI	CCNNNNNNNGG	1 cut(s)	162
BsnI	GGCC	2 cut(s)	113, 197
Bsp143I	GATC	1 cut(s)	323
BspACI	CCGC	4 cut(s)	114, 234, 257, 362
BspANI	GGCC	2 cut(s)	113, 197
BspCNI	CTCAG	1 cut(s)	360
BspLI	GGNNCC	1 cut(s)	7
BspPI	GGATC	1 cut(s)	331
BssECI	CCNNGG	1 cut(s)	162
BssMI	GATC	1 cut(s)	323
Bst2UI	CCWGG	1 cut(s)	163
Bst4CI	ACNGT	1 cut(s)	269
Bst6I	CTCTTC	1 cut(s)	128
BstDEI	CTNAG	2 cut(s)	289, 368
BstF5I	GGATG	1 cut(s)	74
BstKTI	GATC	1 cut(s)	326
BstMBI	GATC	1 cut(s)	323
BstMWI	GCNNNNNNNGC	2 cut(s)	194, 239
BstNI	CCWGG	1 cut(s)	163
BstSCI	CCNGG	1 cut(s)	161
BstV1I	GCAGC	2 cut(s)	121, 241
BstV2I	GAAGAC	1 cut(s)	218
BsuRI	GGCC	2 cut(s)	113, 197
BtsCI	GGATG	1 cut(s)	74
CaiI	CAGNNNCTG	1 cut(s)	162
Csp6I	GTAC	1 cut(s)	178
CviAII	CATG	1 cut(s)	128
CviQI	GTAC	1 cut(s)	178
DdeI	CTNAG	2 cut(s)	289, 368
DpnI	GATC	1 cut(s)	325
DpnII	GATC	1 cut(s)	323
Eam1104I	CTCTTC	1 cut(s)	128
EarI	CTCTTC	1 cut(s)	128
EcoRII	CCWGG	1 cut(s)	161
FaeI	CATG	1 cut(s)	131
FaiI	YATR	3 cut(s)	18, 129, 346
FalI	AAGNNNNNCTT	2 cut(s)	231, 263
FatI	CATG	1 cut(s)	127
FauI	CCCGC	1 cut(s)	355
Fnu4HI	GCNGC	4 cut(s)	114, 135, 234, 255
FokI	GGATG	1 cut(s)	81
Fsp4HI	GCNGC	4 cut(s)	114, 135, 234, 255
GluI	GCNGC	4 cut(s)	114, 135, 234, 255
GsaI	CCCAGC	1 cut(s)	177
GsuI	CTGGAG	1 cut(s)	360
HaeIII	GGCC	2 cut(s)	113, 197
Hin1II	CATG	1 cut(s)	131
HindIII	AAGCTT	1 cut(s)	240
HinfI	GANTC	2 cut(s)	92, 373
Hpy166II	GTNNAC	1 cut(s)	180
Hpy188III	TCNNGA	2 cut(s)	248, 383
Hpy8I	GTNNAC	1 cut(s)	180
HpyAV	CCTTC	1 cut(s)	25
HpyCH4III	ACNGT	1 cut(s)	269
HpyCH4IV	ACGT	1 cut(s)	275
HpyF10VI	GCNNNNNNNGC	2 cut(s)	194, 239
HpyF3I	CTNAG	2 cut(s)	289, 368
HpySE526I	ACGT	1 cut(s)	275
Hsp92II	CATG	1 cut(s)	131
Kzo9I	GATC	1 cut(s)	323
LmnI	GCTCC	2 cut(s)	5, 299
LpnPI	CCDG	8 cut(s)	95, 148, 159, 169, 175, 306, 324, 368
Lsp1109I	GCAGC	2 cut(s)	121, 241
LweI	GCATC	1 cut(s)	241
MaeII	ACGT	1 cut(s)	275
MaeIII	GTNAC	1 cut(s)	263
MalI	GATC	1 cut(s)	325
MboI	GATC	1 cut(s)	323
MboII	GAAGA	5 cut(s)	64, 67, 115, 223, 365
MluCI	AATT	3 cut(s)	35, 82, 357
MlyI	GAGTC	1 cut(s)	382
MmeI	TCCRAC	1 cut(s)	46
MnlI	CCTC	1 cut(s)	363
MspA1I	CMGCKG	1 cut(s)	116
MspR9I	CCNGG	1 cut(s)	163
MvaI	CCWGG	1 cut(s)	163
MwoI	GCNNNNNNNGC	2 cut(s)	194, 239
NdeII	GATC	1 cut(s)	323
NlaIII	CATG	1 cut(s)	131
NlaIV	GGNNCC	1 cut(s)	7
NmuCI	GTSAC	1 cut(s)	263
PfeI	GAWTC	1 cut(s)	92
PflMI	CCANNNNNTGG	1 cut(s)	162
PkrI	GCNGC	4 cut(s)	115, 136, 235, 256
PleI	GAGTC	1 cut(s)	381
PpsI	GAGTC	1 cut(s)	381
Psp6I	CCWGG	1 cut(s)	161
PspFI	CCCAGC	1 cut(s)	173
PspGI	CCWGG	1 cut(s)	161
PspN4I	GGNNCC	1 cut(s)	7
PstNI	CAGNNNCTG	1 cut(s)	162
RsaI	GTAC	1 cut(s)	179
RsaNI	GTAC	1 cut(s)	178
SatI	GCNGC	4 cut(s)	114, 135, 234, 255
Sau3AI	GATC	1 cut(s)	323
SchI	GAGTC	1 cut(s)	382
ScrFI	CCNGG	1 cut(s)	163
SetI	ASST	7 cut(s)	63, 136, 175, 244, 278, 322, 340
SfaNI	GCATC	1 cut(s)	241
Sse9I	AATT	3 cut(s)	35, 82, 357
SsiI	CCGC	4 cut(s)	114, 234, 257, 362
StyD4I	CCNGG	1 cut(s)	161
TaaI	ACNGT	1 cut(s)	269
TaiI	ACGT	1 cut(s)	278
TasI	AATT	3 cut(s)	35, 82, 357
TauI	GCSGC	2 cut(s)	116, 236
TfiI	GAWTC	1 cut(s)	92
TseFI	GTSAC	1 cut(s)	263
TseI	GCWGC	2 cut(s)	134, 254
Tsp45I	GTSAC	1 cut(s)	263
TspDTI	ATGAA	1 cut(s)	144
Van91I	CCANNNNNTGG	1 cut(s)	162
XapI	RAATTY	1 cut(s)	35

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