Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Forward (+)

21441201 .. 21441980

Gene Structure 780 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001833

Sequence Viewer

CDS Protein Promoter (2k)

Length: 654 bp

ATGAAAGGTAGAGGTGTTCAGCCAGATTCTTACATGTATGGATTGCTTATTAGTGGGATGTGCAAGGAAGGAAGATTTGATGAAGCATCCGGTCTTTTTGATAAAATGCTGGAAATTGGGCTGCTTCCAATTGCTGTTACTTATAACACGTTGATTGATGGTTATTGCAATAAGGGTGATCTGGACAGGAGAAATGGAAGAGAAGGGAATGCAAAGAAAGCGTTTATCCTTCGCGATGAAATGTTGAGTAAAGGGATAGAGCCCACCAAGGAAACTTATACATCACTTATTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAAGATACTGCGTAAGGGTGTTCTACCGGATCTTGTGATGTTGAATGCCTTGATTGATGGTCATTGTGCTAATGGGAATATGGAGCGTGCATTTTCTCTTTTGAGGCAGATGGATAAAATGAAGGTTCATCCAGATGAAGTGACGTACAATACCCTAATGCAAGGGCGCTGCAGGGCAGGGAAAGTTCAGGAAGCTCGGGAACTTCTGGATGAGATAAAGACAAGGGGAATTAAGCGTGATTATATTAGTTACAACACCCTCATTAGTGGACATAGTAAACGAGGTGATATGAATGATGCCTTCAAAGTTTGA

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

218

Amino Acids

24.66

Weight (kDa)

8.93

Isoelectric Point (pI)

26.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	1 - 56	1.6e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	4 - 36	1.6e-11	PPR repeat
PPR_2	PF13041	8 - 57	2.9e-13	PPR repeat family
PPR	PF01535	11 - 41	8.1e-08	PPR repeat
PPR_1	PF12854	40 - 63	4.2e-08	PPR repeat
PPR_2	PF13041	67 - 101	9.8e-07	PPR repeat family
PPR_long	PF17177	71 - 187	1e-10	Pentacotripeptide-repeat region of PRORP
PPR	PF01535	92 - 121	9.6e-06	PPR repeat
PPR_2	PF13041	92 - 125	8.4e-06	PPR repeat family
PPR_3	PF13812	112 - 168	3.4e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	119 - 151	3.4e-10	PPR repeat
PPR_2	PF13041	123 - 172	2.7e-16	PPR repeat family
PPR	PF01535	126 - 155	1.5e-06	PPR repeat
TPR_24	PF23276	127 - 216	3.6e-08	Fungal tetratrico peptide repeats
PPR_1	PF12854	156 - 186	2.4e-11	PPR repeat
PPR_2	PF13041	158 - 194	4.8e-10	PPR repeat family
PPR	PF01535	161 - 191	5.2e-07	PPR repeat
PPR_1	PF12854	189 - 217	2e-06	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)
AanI	TTATAA	1 cut(s)	144
AccII	CGCG	1 cut(s)	234
AclWI	GGATC	1 cut(s)	378
AfaI	GTAC	1 cut(s)	488
AflIII	ACRYGT	2 cut(s)	33, 147
AgsI	TTSAA	2 cut(s)	385, 646
AluBI	AGCT	1 cut(s)	536
AluI	AGCT	1 cut(s)	536
AlwI	GGATC	1 cut(s)	378
Ama87I	CYCGRG	1 cut(s)	537
ApeKI	GCWGC	2 cut(s)	121, 510
AspLEI	GCGC	1 cut(s)	510
AsuHPI	GGTGA	2 cut(s)	188, 638
AvaI	CYCGRG	1 cut(s)	537
BanII	GRGCYC	1 cut(s)	264
BbvI	GCAGC	2 cut(s)	108, 497
BccI	CCATC	3 cut(s)	152, 392, 445
BfmI	CTRYAG	1 cut(s)	511
BfoI	RGCGCY	1 cut(s)	511
BisI	GCNGC	2 cut(s)	122, 511
BlsI	GCNGC	2 cut(s)	123, 512
BmeT110I	CYCGRG	1 cut(s)	537
BmsI	GCATC	2 cut(s)	95, 628
BsaJI	CCNNGG	1 cut(s)	267
BsaWI	WCCGGW	2 cut(s)	89, 367
BseDI	CCNNGG	1 cut(s)	267
BseGI	GGATG	4 cut(s)	63, 86, 469, 556
BseXI	GCAGC	2 cut(s)	108, 497
Bsh1236I	CGCG	1 cut(s)	234
BsiHKCI	CYCGRG	1 cut(s)	537
BsiSI	CCGG	2 cut(s)	90, 368
BsmI	GAATGC	2 cut(s)	214, 391
BsoBI	CYCGRG	1 cut(s)	537
Bsp1286I	GDGCHC	1 cut(s)	264
Bsp143I	GATC	2 cut(s)	178, 370
Bsp68I	TCGCGA	1 cut(s)	234
BspFNI	CGCG	1 cut(s)	234
BspMAI	CTGCAG	1 cut(s)	515
BspPI	GGATC	1 cut(s)	378
BssECI	CCNNGG	1 cut(s)	267
BssMI	GATC	2 cut(s)	178, 370
BssT1I	CCWWGG	1 cut(s)	267
Bst6I	CTCTTC	2 cut(s)	193, 305
BstC8I	GCNNGC	1 cut(s)	429
BstF5I	GGATG	4 cut(s)	63, 86, 469, 556
BstFNI	CGCG	1 cut(s)	234
BstH2I	RGCGCY	1 cut(s)	511
BstHHI	GCGC	1 cut(s)	510
BstKTI	GATC	2 cut(s)	181, 373
BstMBI	GATC	2 cut(s)	178, 370
BstMWI	GCNNNNNNNGC	1 cut(s)	218
BstNSI	RCATGY	1 cut(s)	37
BstSFI	CTRYAG	1 cut(s)	511
BstUI	CGCG	1 cut(s)	234
BstV1I	GCAGC	2 cut(s)	108, 497
BstX2I	RGATCY	1 cut(s)	370
BstYI	RGATCY	1 cut(s)	370
BtgZI	GCGATG	1 cut(s)	249
BtsCI	GGATG	4 cut(s)	63, 86, 469, 556
BtuMI	TCGCGA	1 cut(s)	234
Cac8I	GCNNGC	1 cut(s)	429
CfoI	GCGC	1 cut(s)	510
Csp6I	GTAC	1 cut(s)	487
CviAII	CATG	1 cut(s)	34
CviJI	RGCY	4 cut(s)	22, 121, 262, 536
CviKI_1	RGCY	4 cut(s)	22, 121, 262, 536
CviQI	GTAC	1 cut(s)	487
DpnI	GATC	2 cut(s)	180, 372
DpnII	GATC	2 cut(s)	178, 370
Eam1104I	CTCTTC	2 cut(s)	193, 305
EarI	CTCTTC	2 cut(s)	193, 305
Eco130I	CCWWGG	1 cut(s)	267
Eco24I	GRGCYC	1 cut(s)	264
Eco88I	CYCGRG	1 cut(s)	537
EcoT14I	CCWWGG	1 cut(s)	267
EcoT38I	GRGCYC	1 cut(s)	264
ErhI	CCWWGG	1 cut(s)	267
FaeI	CATG	1 cut(s)	37
FaiI	YATR	9 cut(s)	35, 39, 144, 279, 294, 422, 585, 615, 632
FatI	CATG	1 cut(s)	33
Fnu4HI	GCNGC	2 cut(s)	122, 511
FokI	GGATG	4 cut(s)	70, 73, 456, 563
FriOI	GRGCYC	1 cut(s)	264
Fsp4HI	GCNGC	2 cut(s)	122, 511
GlaI	GCGC	1 cut(s)	509
GluI	GCNGC	2 cut(s)	122, 511
HaeII	RGCGCY	1 cut(s)	511
HapII	CCGG	2 cut(s)	90, 368
HhaI	GCGC	1 cut(s)	510
Hin1II	CATG	1 cut(s)	37
Hin6I	GCGC	1 cut(s)	508
HinP1I	GCGC	1 cut(s)	508
HinfI	GANTC	1 cut(s)	26
HpaII	CCGG	2 cut(s)	90, 368
HphI	GGTGA	2 cut(s)	188, 638
Hpy166II	GTNNAC	2 cut(s)	611, 620
Hpy188III	TCNNGA	6 cut(s)	182, 233, 473, 530, 539, 548
Hpy8I	GTNNAC	2 cut(s)	611, 620
HpyAV	CCTTC	5 cut(s)	62, 197, 239, 457, 652
HpyCH4IV	ACGT	2 cut(s)	149, 485
HpyCH4V	TGCA	6 cut(s)	63, 168, 212, 431, 502, 513
HpyF10VI	GCNNNNNNNGC	1 cut(s)	218
HpySE526I	ACGT	2 cut(s)	149, 485
Hsp92II	CATG	1 cut(s)	37
HspAI	GCGC	1 cut(s)	508
Kzo9I	GATC	2 cut(s)	178, 370
LmnI	GCTCC	1 cut(s)	424
Lsp1109I	GCAGC	2 cut(s)	108, 497
LweI	GCATC	2 cut(s)	95, 628
MaeII	ACGT	2 cut(s)	149, 485
MaeIII	GTNAC	3 cut(s)	136, 481, 590
MalI	GATC	2 cut(s)	180, 372
MboI	GATC	2 cut(s)	178, 370
MboII	GAAGA	4 cut(s)	84, 210, 322, 355
MfeI	CAATTG	1 cut(s)	129
MflI	RGATCY	1 cut(s)	370
MhlI	GDGCHC	1 cut(s)	264
MluCI	AATT	3 cut(s)	114, 129, 570
MnlI	CCTC	5 cut(s)	5, 316, 438, 611, 617
MseI	TTAA	1 cut(s)	573
MslI	CAYNNNNRTG	1 cut(s)	474
MspI	CCGG	2 cut(s)	90, 368
MunI	CAATTG	1 cut(s)	129
Mva1269I	GAATGC	2 cut(s)	214, 391
MvnI	CGCG	1 cut(s)	234
MwoI	GCNNNNNNNGC	1 cut(s)	218
NdeII	GATC	2 cut(s)	178, 370
NlaIII	CATG	1 cut(s)	37
NmuCI	GTSAC	1 cut(s)	481
NruI	TCGCGA	1 cut(s)	234
NspI	RCATGY	1 cut(s)	37
PciI	ACATGT	1 cut(s)	33
PctI	GAATGC	2 cut(s)	214, 391
PfeI	GAWTC	1 cut(s)	26
PkrI	GCNGC	2 cut(s)	123, 512
PscI	ACATGT	1 cut(s)	33
PsiI	TTATAA	1 cut(s)	144
PstI	CTGCAG	1 cut(s)	515
PsuI	RGATCY	1 cut(s)	370
RruI	TCGCGA	1 cut(s)	234
RsaI	GTAC	1 cut(s)	488
RsaNI	GTAC	1 cut(s)	487
RseI	CAYNNNNRTG	1 cut(s)	474
SaqAI	TTAA	1 cut(s)	573
SatI	GCNGC	2 cut(s)	122, 511
Sau3AI	GATC	2 cut(s)	178, 370
SduI	GDGCHC	1 cut(s)	264
SetI	ASST	7 cut(s)	10, 16, 152, 468, 488, 538, 628
SfaNI	GCATC	2 cut(s)	95, 628
SfcI	CTRYAG	1 cut(s)	511
SmiMI	CAYNNNNRTG	1 cut(s)	474
Sse9I	AATT	3 cut(s)	114, 129, 570
StyI	CCWWGG	1 cut(s)	267
TaiI	ACGT	2 cut(s)	152, 488
TasI	AATT	3 cut(s)	114, 129, 570
TfiI	GAWTC	1 cut(s)	26
Tru1I	TTAA	1 cut(s)	573
Tru9I	TTAA	1 cut(s)	573
TseFI	GTSAC	1 cut(s)	481
TseI	GCWGC	2 cut(s)	121, 510
Tsp45I	GTSAC	1 cut(s)	481
TspDTI	ATGAA	8 cut(s)	17, 96, 252, 332, 458, 476, 492, 647
XceI	RCATGY	1 cut(s)	37

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