Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0004368

Physical Location & Seq

Genomic Coordinates Reverse (-)

1028342 .. 1028737

Gene Structure 396 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG008500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGGAGCCAAACTCTGGTGTATGGGGGGCTCTTTTCAGTTCTTGTAGGGTTTATGGTAATATTGAACTTGGGAAGGCAGTTGCAGAGAGATTATTTGCTTTAGAGCCATCTGATTCCAGAAATTTTATCATGCTATCAAATATGTACTCTGCAGCTGGTTTATGGAGGGATGCTTCAAAGGTGAGGGCTTTGATGAAGGAGAAAGGTCTCGTGAGAACCCCCGGATGCAGTTTTATTGAATATGGAAATAAAATTCATCGCTTTGTTGTGGGTGATCAGTCTCACCCTGAGTCAGATAGGATATATGCCAAGTTGGAAGAAGTGATTGAAAAGATCCGGAAGGCTGGATTTGTGTCTCAAACTGAATTATTCTACATGATGTTGAAGAGGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

131

Amino Acids

14.9

Weight (kDa)

9.17

Isoelectric Point (pI)

53.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
E_motif	PF20431	18 - 80	1.8e-18	E motif
Eplus_motif	PF20430	85 - 112	2.6e-10	E+ motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0004368)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G46050
fragaria_vesca	FvH4_7g14820
malus_domestica	MD01G1066700.v1.1 MD11G1207600.v1.1
pyrus_communis	pycom01g09600 pycom01g22640 pycom17g24510
rosa_chinensis	RchiOBHm_Chr1g0356771 RchiOBHm_Chr1g0356781 RchiOBHm_Chr1g0375691 RchiOBHm_Chr2g0089631 RchiOBHm_Chr4g0418871
rosa_laevigata	RLG00000011901 RLG00000028084
rosa_multiflora	Rmu_co8104928.1_g000001 Rmu_co8368077.1_g000001 Rmu_sc0000517.1_g000030 Rmu_sc0000935.1_g000021 Rmu_sc0002219.1_g000014 Rmu_sc0005718.1_g000009
rosa_roxburghii	Rroxscaffold_4G00299370
rosa_rugosa	Rorug01G0251100
rosa_samantha	Rh1AG265300 Rh1AG265400 Rh1BG232700 Rh1BG232800 Rh1CG248800 Rh1CG248900 Rh1DG260300 Rh4BG214000 Rh6AG008500
rosa_wichuraiana	Rw4G018520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	14
AccIII	TCCGGA	1 cut(s)	336
AclWI	GGATC	1 cut(s)	328
AcsI	RAATTY	2 cut(s)	121, 252
AfaI	GTAC	1 cut(s)	146
AfiI	CCNNNNNNNGG	1 cut(s)	14
AgsI	TTSAA	5 cut(s)	65, 177, 239, 329, 385
AluBI	AGCT	1 cut(s)	155
AluI	AGCT	1 cut(s)	155
Alw26I	GTCTC	3 cut(s)	212, 285, 360
AlwI	GGATC	1 cut(s)	328
Aor13HI	TCCGGA	1 cut(s)	336
ApeKI	GCWGC	1 cut(s)	152
ApoI	RAATTY	2 cut(s)	121, 252
AsuC2I	CCSGG	1 cut(s)	222
AsuHPI	GGTGA	3 cut(s)	193, 275, 284
BanII	GRGCYC	1 cut(s)	31
BauI	CACGAG	1 cut(s)	209
BbvI	GCAGC	1 cut(s)	164
BccI	CCATC	1 cut(s)	115
BclI	TGATCA	1 cut(s)	274
BcnI	CCSGG	1 cut(s)	222
BcoDI	GTCTC	3 cut(s)	212, 285, 360
BfmI	CTRYAG	1 cut(s)	150
BisI	GCNGC	1 cut(s)	153
BlsI	GCNGC	1 cut(s)	154
Bme1390I	CCNGG	1 cut(s)	222
BmiI	GGNNCC	1 cut(s)	6
BmrFI	CCNGG	1 cut(s)	222
BmsI	GCATC	2 cut(s)	160, 215
BplI	GAGNNNNNCTC	1 cut(s)	28
BpuMI	CCSGG	1 cut(s)	222
BsaI	GGTCTC	1 cut(s)	212
BsaJI	CCNNGG	1 cut(s)	220
BsaWI	WCCGGW	1 cut(s)	336
Bsc4I	CCNNNNNNNGG	1 cut(s)	14
BseAI	TCCGGA	1 cut(s)	336
BseDI	CCNNGG	1 cut(s)	220
BseGI	GGATG	2 cut(s)	175, 230
BseLI	CCNNNNNNNGG	1 cut(s)	14
BseMII	CTCAG	1 cut(s)	279
BseXI	GCAGC	1 cut(s)	164
BsiSI	CCGG	2 cut(s)	222, 337
BslI	CCNNNNNNNGG	1 cut(s)	14
BsmAI	GTCTC	3 cut(s)	212, 285, 360
Bso31I	GGTCTC	1 cut(s)	212
Bsp1286I	GDGCHC	1 cut(s)	31
Bsp13I	TCCGGA	1 cut(s)	336
Bsp143I	GATC	2 cut(s)	274, 333
BspCNI	CTCAG	1 cut(s)	280
BspEI	TCCGGA	1 cut(s)	336
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	1 cut(s)	154
BspPI	GGATC	1 cut(s)	328
BspTNI	GGTCTC	1 cut(s)	212
BssECI	CCNNGG	1 cut(s)	220
BssMI	GATC	2 cut(s)	274, 333
BssSI	CACGAG	1 cut(s)	209
Bst2BI	CACGAG	1 cut(s)	209
Bst6I	CTCTTC	1 cut(s)	380
BstDEI	CTNAG	1 cut(s)	288
BstF5I	GGATG	2 cut(s)	175, 230
BstKTI	GATC	2 cut(s)	277, 336
BstMAI	GTCTC	3 cut(s)	212, 285, 360
BstMBI	GATC	2 cut(s)	274, 333
BstSCI	CCNGG	1 cut(s)	220
BstSFI	CTRYAG	1 cut(s)	150
BstV1I	GCAGC	1 cut(s)	164
BstX2I	RGATCY	1 cut(s)	333
BstYI	RGATCY	1 cut(s)	333
BtgZI	GCGATG	1 cut(s)	242
BtsCI	GGATG	2 cut(s)	175, 230
Csp6I	GTAC	1 cut(s)	145
CviAII	CATG	2 cut(s)	130, 376
CviJI	RGCY	6 cut(s)	7, 29, 106, 155, 188, 344
CviKI_1	RGCY	6 cut(s)	7, 29, 106, 155, 188, 344
CviQI	GTAC	1 cut(s)	145
DdeI	CTNAG	1 cut(s)	288
DpnI	GATC	2 cut(s)	276, 335
DpnII	GATC	2 cut(s)	274, 333
Eam1104I	CTCTTC	1 cut(s)	380
EarI	CTCTTC	1 cut(s)	380
Eco24I	GRGCYC	1 cut(s)	31
Eco31I	GGTCTC	1 cut(s)	212
EcoT38I	GRGCYC	1 cut(s)	31
FaeI	CATG	2 cut(s)	133, 379
FaiI	YATR	9 cut(s)	22, 54, 131, 143, 163, 243, 304, 306, 377
FatI	CATG	2 cut(s)	129, 375
FbaI	TGATCA	1 cut(s)	274
Fnu4HI	GCNGC	1 cut(s)	153
FokI	GGATG	2 cut(s)	182, 237
FriOI	GRGCYC	1 cut(s)	31
Fsp4HI	GCNGC	1 cut(s)	153
GluI	GCNGC	1 cut(s)	153
HapII	CCGG	2 cut(s)	222, 337
Hin1II	CATG	2 cut(s)	133, 379
HinfI	GANTC	2 cut(s)	113, 290
HpaII	CCGG	2 cut(s)	222, 337
HphI	GGTGA	3 cut(s)	193, 275, 284
Hpy188I	TCNGA	2 cut(s)	112, 295
Hpy188III	TCNNGA	3 cut(s)	117, 211, 337
HpyAV	CCTTC	3 cut(s)	67, 190, 334
HpyCH4V	TGCA	3 cut(s)	83, 152, 228
HpyF3I	CTNAG	1 cut(s)	288
Hsp92II	CATG	2 cut(s)	133, 379
Kpn2I	TCCGGA	1 cut(s)	336
Ksp22I	TGATCA	1 cut(s)	274
Kzo9I	GATC	2 cut(s)	274, 333
LmnI	GCTCC	1 cut(s)	4
LpnPI	CCDG	6 cut(s)	130, 141, 235, 300, 330, 350
Lsp1109I	GCAGC	1 cut(s)	164
LweI	GCATC	2 cut(s)	160, 215
MalI	GATC	2 cut(s)	276, 335
MboI	GATC	2 cut(s)	274, 333
MboII	GAAGA	1 cut(s)	329
MflI	RGATCY	1 cut(s)	333
MhlI	GDGCHC	1 cut(s)	31
MluCI	AATT	3 cut(s)	121, 252, 365
MlyI	GAGTC	1 cut(s)	299
MmeI	TCCRAC	1 cut(s)	294
MnlI	CCTC	3 cut(s)	159, 177, 381
MroI	TCCGGA	1 cut(s)	336
MspA1I	CMGCKG	1 cut(s)	155
MspI	CCGG	2 cut(s)	222, 337
MspR9I	CCNGG	1 cut(s)	222
NciI	CCSGG	1 cut(s)	222
NdeII	GATC	2 cut(s)	274, 333
NlaIII	CATG	2 cut(s)	133, 379
NlaIV	GGNNCC	1 cut(s)	6
PfeI	GAWTC	1 cut(s)	113
PflMI	CCANNNNNTGG	1 cut(s)	14
PkrI	GCNGC	1 cut(s)	154
PleI	GAGTC	1 cut(s)	298
PpsI	GAGTC	1 cut(s)	298
PspN4I	GGNNCC	1 cut(s)	6
PstI	CTGCAG	1 cut(s)	154
PsuI	RGATCY	1 cut(s)	333
PvuII	CAGCTG	1 cut(s)	155
RsaI	GTAC	1 cut(s)	146
RsaNI	GTAC	1 cut(s)	145
SatI	GCNGC	1 cut(s)	153
Sau3AI	GATC	2 cut(s)	274, 333
SchI	GAGTC	1 cut(s)	299
ScrFI	CCNGG	1 cut(s)	222
SduI	GDGCHC	1 cut(s)	31
SetI	ASST	3 cut(s)	157, 183, 208
SfaNI	GCATC	2 cut(s)	160, 215
SfcI	CTRYAG	1 cut(s)	150
Sse9I	AATT	3 cut(s)	121, 252, 365
SspI	AATATT	1 cut(s)	61
StyD4I	CCNGG	1 cut(s)	220
TasI	AATT	3 cut(s)	121, 252, 365
TatI	WGTACW	1 cut(s)	144
TfiI	GAWTC	1 cut(s)	113
TseI	GCWGC	1 cut(s)	152
TspDTI	ATGAA	2 cut(s)	209, 245
Van91I	CCANNNNNTGG	1 cut(s)	14
XapI	RAATTY	2 cut(s)	121, 252

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