Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Forward (+)

20320679 .. 20324120

Gene Structure 3442 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00234010.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGGTTCCTGATGCCATTACGTTTAATATCCTGATTAATGGCTATTGCAAGTCTGGGAATGCAAAGAAAGCGTTTATCCTTCGCGATGAAATGTTGAGTAAAGGGATAGAGCCCACTAAGGAAACTTATACATCACTTATTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAAGATACTGTGTAAGGGTGTTCTACCGGATCTTGTGATGTTCAATGCCTTGATTGATGGTCATTGTGCTAATGGGAATATGGAGCGTGCATTTTCGCTTTTGAGGCAGATGAATGAAGGTTCATCCAGATTAAGTGACGTACAATACCCTAATGCAAGGGCGCTGCAGGGCAGGGAAAGTTCAGGAAGCTCAGGAACTTCTGGATGA

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

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

132

Amino Acids

14.57

Weight (kDa)

8.46

Isoelectric Point (pI)

35.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	2 - 31	6.1e-12	PPR repeat
PPR_2	PF13041	3 - 51	1e-16	PPR repeat family
PPR_3	PF13812	3 - 52	3e-06	Pentatricopeptide repeat domain
PPR	PF01535	6 - 36	2.8e-09	PPR repeat
TPR_24	PF23276	6 - 100	2.2e-10	Fungal tetratrico peptide repeats
PPR_long	PF17177	20 - 103	2.8e-07	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	42 - 75	8.6e-06	PPR repeat family
PPR_1	PF12854	69 - 101	7.2e-12	PPR repeat
PPR_2	PF13041	73 - 103	4.3e-08	PPR repeat family
PPR	PF01535	76 - 103	2e-07	PPR repeat

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: 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)
AccII	CGCG	1 cut(s)	84
AclWI	GGATC	1 cut(s)	228
AfaI	GTAC	1 cut(s)	333
AgsI	TTSAA	1 cut(s)	235
AluBI	AGCT	1 cut(s)	381
AluI	AGCT	1 cut(s)	381
AlwI	GGATC	1 cut(s)	228
ApeKI	GCWGC	1 cut(s)	355
AseI	ATTAAT	1 cut(s)	36
AspLEI	GCGC	1 cut(s)	355
BanII	GRGCYC	1 cut(s)	114
BbvI	GCAGC	1 cut(s)	342
BccI	CCATC	1 cut(s)	242
BfmI	CTRYAG	1 cut(s)	356
BfoI	RGCGCY	1 cut(s)	356
BisI	GCNGC	1 cut(s)	356
BlsI	GCNGC	1 cut(s)	357
BmiI	GGNNCC	1 cut(s)	6
Bpu10I	CCTNAGC	1 cut(s)	382
BsaWI	WCCGGW	1 cut(s)	217
BseGI	GGATG	1 cut(s)	314
BseMII	CTCAG	1 cut(s)	396
BseXI	GCAGC	1 cut(s)	342
Bsh1236I	CGCG	1 cut(s)	84
BsiSI	CCGG	1 cut(s)	218
BsmI	GAATGC	1 cut(s)	64
Bsp1286I	GDGCHC	1 cut(s)	114
Bsp143I	GATC	1 cut(s)	220
Bsp68I	TCGCGA	1 cut(s)	84
BspCNI	CTCAG	1 cut(s)	395
BspFNI	CGCG	1 cut(s)	84
BspLI	GGNNCC	1 cut(s)	6
BspMAI	CTGCAG	1 cut(s)	360
BspPI	GGATC	1 cut(s)	228
BssMI	GATC	1 cut(s)	220
Bst4CI	ACNGT	1 cut(s)	201
Bst6I	CTCTTC	1 cut(s)	155
BstC8I	GCNNGC	1 cut(s)	279
BstDEI	CTNAG	2 cut(s)	117, 382
BstF5I	GGATG	1 cut(s)	314
BstFNI	CGCG	1 cut(s)	84
BstH2I	RGCGCY	1 cut(s)	356
BstHHI	GCGC	1 cut(s)	355
BstKTI	GATC	1 cut(s)	223
BstMBI	GATC	1 cut(s)	220
BstMWI	GCNNNNNNNGC	2 cut(s)	68, 295
BstSFI	CTRYAG	1 cut(s)	356
BstUI	CGCG	1 cut(s)	84
BstV1I	GCAGC	1 cut(s)	342
BstX2I	RGATCY	1 cut(s)	220
BstYI	RGATCY	1 cut(s)	220
BtgZI	GCGATG	1 cut(s)	99
BtsCI	GGATG	1 cut(s)	314
BtuMI	TCGCGA	1 cut(s)	84
Cac8I	GCNNGC	1 cut(s)	279
CfoI	GCGC	1 cut(s)	355
Csp6I	GTAC	1 cut(s)	332
CviJI	RGCY	3 cut(s)	42, 112, 381
CviKI_1	RGCY	3 cut(s)	42, 112, 381
CviQI	GTAC	1 cut(s)	332
DdeI	CTNAG	2 cut(s)	117, 382
DpnI	GATC	1 cut(s)	222
DpnII	GATC	1 cut(s)	220
Eam1104I	CTCTTC	1 cut(s)	155
EarI	CTCTTC	1 cut(s)	155
Eco24I	GRGCYC	1 cut(s)	114
EcoT38I	GRGCYC	1 cut(s)	114
FaiI	YATR	3 cut(s)	129, 144, 272
Fnu4HI	GCNGC	1 cut(s)	356
FokI	GGATG	1 cut(s)	301
FriOI	GRGCYC	1 cut(s)	114
Fsp4HI	GCNGC	1 cut(s)	356
GlaI	GCGC	1 cut(s)	354
GluI	GCNGC	1 cut(s)	356
HaeII	RGCGCY	1 cut(s)	356
HapII	CCGG	1 cut(s)	218
HhaI	GCGC	1 cut(s)	355
Hin6I	GCGC	1 cut(s)	353
HinP1I	GCGC	1 cut(s)	353
HpaII	CCGG	1 cut(s)	218
Hpy188III	TCNNGA	7 cut(s)	8, 31, 83, 318, 375, 384, 393
HpyAV	CCTTC	2 cut(s)	89, 302
HpyCH4III	ACNGT	1 cut(s)	201
HpyCH4IV	ACGT	2 cut(s)	20, 330
HpyCH4V	TGCA	5 cut(s)	48, 62, 281, 347, 358
HpyF10VI	GCNNNNNNNGC	2 cut(s)	68, 295
HpyF3I	CTNAG	2 cut(s)	117, 382
HpySE526I	ACGT	2 cut(s)	20, 330
HspAI	GCGC	1 cut(s)	353
Kzo9I	GATC	1 cut(s)	220
LmnI	GCTCC	1 cut(s)	274
Lsp1109I	GCAGC	1 cut(s)	342
MaeII	ACGT	2 cut(s)	20, 330
MaeIII	GTNAC	1 cut(s)	326
MalI	GATC	1 cut(s)	222
MboI	GATC	1 cut(s)	220
MboII	GAAGA	2 cut(s)	172, 205
MflI	RGATCY	1 cut(s)	220
MhlI	GDGCHC	1 cut(s)	114
MnlI	CCTC	2 cut(s)	166, 288
MseI	TTAA	3 cut(s)	24, 36, 323
MspI	CCGG	1 cut(s)	218
Mva1269I	GAATGC	1 cut(s)	64
MvnI	CGCG	1 cut(s)	84
MwoI	GCNNNNNNNGC	2 cut(s)	68, 295
NdeII	GATC	1 cut(s)	220
NlaIV	GGNNCC	1 cut(s)	6
NmuCI	GTSAC	1 cut(s)	326
NruI	TCGCGA	1 cut(s)	84
PctI	GAATGC	1 cut(s)	64
PkrI	GCNGC	1 cut(s)	357
PshBI	ATTAAT	1 cut(s)	36
PspN4I	GGNNCC	1 cut(s)	6
PstI	CTGCAG	1 cut(s)	360
PsuI	RGATCY	1 cut(s)	220
RruI	TCGCGA	1 cut(s)	84
RsaI	GTAC	1 cut(s)	333
RsaNI	GTAC	1 cut(s)	332
SaqAI	TTAA	3 cut(s)	24, 36, 323
SatI	GCNGC	1 cut(s)	356
Sau3AI	GATC	1 cut(s)	220
SduI	GDGCHC	1 cut(s)	114
SetI	ASST	4 cut(s)	23, 313, 333, 383
SfcI	CTRYAG	1 cut(s)	356
TaaI	ACNGT	1 cut(s)	201
TaiI	ACGT	2 cut(s)	23, 333
Tru1I	TTAA	3 cut(s)	24, 36, 323
Tru9I	TTAA	3 cut(s)	24, 36, 323
TseFI	GTSAC	1 cut(s)	326
TseI	GCWGC	1 cut(s)	355
Tsp45I	GTSAC	1 cut(s)	326
TspDTI	ATGAA	5 cut(s)	102, 182, 303, 317, 321
VspI	ATTAAT	1 cut(s)	36

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