Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Reverse (-)

10856066 .. 10856404

Gene Structure 339 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG098200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 339 bp

ATGAACGAGGCAGATGACTTGCTTGAGAAGATACTGCGTAAGGGTGTTCTGCCAGATCTTGTGATGTTCAATGCCTTGATTGATGGTCATTGTGCTAATGGGAATATGGAGCGTGCATTTTCGCTTTTGAGGGAGATGGATAAAATGAAGGTTCATCCAGATGAAGTGACTTACAATACCCTAATGCAAGGGCGTTGCAGGGCAGGGAAAGTTGAGGAAGCTCGAGAACTCCTGGATGAGATGAAGAGAAGGGGAATTAAGCCTGATTACATTAGTTACAACACCCTCATTAGTGGACATAATAAACGAGGTGATATGAATGATGCCTTCAAAGTTTGA

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:0005737 GO:0005739 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:0044444 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

PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

112

Amino Acids

12.86

Weight (kDa)

6.29

Isoelectric Point (pI)

19.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	7 - 63	2.9e-11	Pentatricopeptide repeat domain
PPR_long	PF17177	8 - 108	9.3e-09	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	14 - 46	2.4e-12	PPR repeat
TPR_24	PF23276	15 - 111	4.4e-10	Fungal tetratrico peptide repeats
PPR_2	PF13041	18 - 66	8.4e-18	PPR repeat family
PPR	PF01535	21 - 50	1.6e-08	PPR repeat
PPR_3	PF13812	41 - 98	6e-13	Pentatricopeptide repeat domain
PPR_1	PF12854	51 - 82	5.2e-14	PPR repeat
PPR_2	PF13041	53 - 99	1.6e-19	PPR repeat family
PPR	PF01535	56 - 86	3.5e-10	PPR repeat
PPR_3	PF13812	77 - 112	2e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	84 - 112	7.4e-08	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0000571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15630
fragaria_vesca	FvH4_2g07360
malus_domestica	MD02G1234600.v1.1
prunus_persica	Prupe.8G019300_v2.0.a1
pyrus_communis	pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis	RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata	RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora	Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa	Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha	Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana	Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AgsI	TTSAA	2 cut(s)	70, 331
AjnI	CCWGG	1 cut(s)	231
AluBI	AGCT	1 cut(s)	221
AluI	AGCT	1 cut(s)	221
Ama87I	CYCGRG	1 cut(s)	222
AsuHPI	GGTGA	1 cut(s)	323
AvaI	CYCGRG	1 cut(s)	222
BccI	CCATC	2 cut(s)	77, 130
BciT130I	CCWGG	1 cut(s)	233
BglII	AGATCT	1 cut(s)	55
Bme1390I	CCNGG	1 cut(s)	233
BmeT110I	CYCGRG	1 cut(s)	222
BmrFI	CCNGG	1 cut(s)	233
BmsI	GCATC	1 cut(s)	313
BpuEI	CTTGAG	1 cut(s)	44
BseBI	CCWGG	1 cut(s)	233
BseGI	GGATG	2 cut(s)	154, 241
BsiHKCI	CYCGRG	1 cut(s)	222
BsoBI	CYCGRG	1 cut(s)	222
Bsp143I	GATC	1 cut(s)	55
BssMI	GATC	1 cut(s)	55
Bst2UI	CCWGG	1 cut(s)	233
Bst6I	CTCTTC	1 cut(s)	239
BstC8I	GCNNGC	1 cut(s)	114
BstF5I	GGATG	2 cut(s)	154, 241
BstKTI	GATC	1 cut(s)	58
BstMBI	GATC	1 cut(s)	55
BstNI	CCWGG	1 cut(s)	233
BstSCI	CCNGG	1 cut(s)	231
BstX2I	RGATCY	1 cut(s)	55
BstYI	RGATCY	1 cut(s)	55
BtsCI	GGATG	2 cut(s)	154, 241
Cac8I	GCNNGC	1 cut(s)	114
CviJI	RGCY	2 cut(s)	221, 262
CviKI_1	RGCY	2 cut(s)	221, 262
DpnI	GATC	1 cut(s)	57
DpnII	GATC	1 cut(s)	55
Eam1104I	CTCTTC	1 cut(s)	239
EarI	CTCTTC	1 cut(s)	239
Eco88I	CYCGRG	1 cut(s)	222
EcoRII	CCWGG	1 cut(s)	231
FaiI	YATR	3 cut(s)	107, 300, 317
FokI	GGATG	2 cut(s)	141, 248
HphI	GGTGA	1 cut(s)	323
Hpy166II	GTNNAC	1 cut(s)	296
Hpy188III	TCNNGA	2 cut(s)	158, 224
Hpy8I	GTNNAC	1 cut(s)	296
HpyAV	CCTTC	3 cut(s)	142, 243, 337
HpyCH4V	TGCA	3 cut(s)	116, 187, 198
Kzo9I	GATC	1 cut(s)	55
LmnI	GCTCC	1 cut(s)	109
LpnPI	CCDG	7 cut(s)	66, 171, 184, 189, 218, 245, 276
LweI	GCATC	1 cut(s)	313
MaeIII	GTNAC	2 cut(s)	166, 275
MalI	GATC	1 cut(s)	57
MboI	GATC	1 cut(s)	55
MboII	GAAGA	2 cut(s)	40, 256
MflI	RGATCY	1 cut(s)	55
MluCI	AATT	1 cut(s)	255
MnlI	CCTC	4 cut(s)	123, 208, 296, 302
MseI	TTAA	1 cut(s)	258
MslI	CAYNNNNRTG	1 cut(s)	159
MspR9I	CCNGG	1 cut(s)	233
MvaI	CCWGG	1 cut(s)	233
NdeII	GATC	1 cut(s)	55
NmuCI	GTSAC	1 cut(s)	166
PaeR7I	CTCGAG	1 cut(s)	222
PfoI	TCCNGGA	1 cut(s)	231
Psp6I	CCWGG	1 cut(s)	231
PspGI	CCWGG	1 cut(s)	231
PsuI	RGATCY	1 cut(s)	55
RseI	CAYNNNNRTG	1 cut(s)	159
SaqAI	TTAA	1 cut(s)	258
Sau3AI	GATC	1 cut(s)	55
ScrFI	CCNGG	1 cut(s)	233
SetI	ASST	3 cut(s)	153, 223, 313
SfaNI	GCATC	1 cut(s)	313
Sfr274I	CTCGAG	1 cut(s)	222
SlaI	CTCGAG	1 cut(s)	222
SmiMI	CAYNNNNRTG	1 cut(s)	159
SmlI	CTYRAG	2 cut(s)	23, 222
SmoI	CTYRAG	2 cut(s)	23, 222
Sse9I	AATT	1 cut(s)	255
StyD4I	CCNGG	1 cut(s)	231
TaqI	TCGA	1 cut(s)	223
TasI	AATT	1 cut(s)	255
Tru1I	TTAA	1 cut(s)	258
Tru9I	TTAA	1 cut(s)	258
TseFI	GTSAC	1 cut(s)	166
Tsp45I	GTSAC	1 cut(s)	166
TspDTI	ATGAA	6 cut(s)	17, 143, 161, 177, 257, 332
XhoI	CTCGAG	1 cut(s)	222

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