Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0005755

Physical Location & Seq

Genomic Coordinates Forward (+)

3173340 .. 3174003

Gene Structure 664 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000005972

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGCGGGATGGAGGGGTTAGTCTTGTTGTGGCTGCATACGGAGTGGTGATCTCAGGCCTCTGTAAGAATGGTCAGTTAGATAAAGCAATGCGGGTTGTTACAGATTTGGCCATGTGTGGTTTTTCTTCAGATAAGATGTTGTTGATGACCATTATGGATGCATGTCTCAAAGCTGGGAATTTGAAAGCAGCTTCGGGTTTCTACAGAGAATTGTTAGCCAAGGGTTTTGAACCAGATGCTGTGGAAGCAAACTTTAGTGGAGTTGAGACGATCTTCAGTGAGATGTCCGAGATGGGGTTTATTCCAGACAAATATGTATACACTTCTTGGATTGCTGGGCTATGCAGACAGGGTAATCTGGTCGAGGCTTTTAGACTCAAGAATGAAATGGTTAAAGAGGGCATCAGACATGATCTGTTAACTTATAGCTCACTTATTTTTGGTTTAGCAAGCAAGGGACTCATGGCTGAAGCACAACAGGTTTTCGATGATATGTTGAAAAGAGGAATTACTCCTGACTGTCATGTCTTTGGTATTTGA

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

180

Amino Acids

19.53

Weight (kDa)

5.41

Isoelectric Point (pI)

19.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	10 - 33	5.5e-06	PPR repeat
PPR_1	PF12854	98 - 131	1.7e-08	PPR repeat
PPR_2	PF13041	102 - 150	2.4e-12	PPR repeat family
PPR	PF01535	106 - 135	7.3e-07	PPR repeat
PPR_3	PF13812	125 - 174	3e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	134 - 165	4.1e-07	PPR repeat
PPR	PF01535	141 - 170	1.2e-06	PPR repeat
PPR_2	PF13041	145 - 177	5e-06	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0005755)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G01740
prunus_persica	Prupe.1G333800_v2.0.a1 Prupe.1G333800_v2.0.a1 Prupe.1G333800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0123271 RchiOBHm_Chr4g0442881 RchiOBHm_Chr4g0442961 RchiOBHm_Chr4g0443001
rosa_laevigata	RLG00000005963 RLG00000005969 RLG00000005972 RLG00000005974 RLG00000010013
rosa_multiflora	Rmu_sc0001917.1_g000006 Rmu_sc0005806.1_g000015 Rmu_sc0007295.1_g000001 Rmu_sc0014119.1_g000001 Rmu_ssc0000204.1_g000003 Rmu_ssc0000204.1_g000010
rosa_roxburghii	Rroxscaffold_5G00383640
rosa_samantha	Rh2BG311500 Rh4AG397900 Rh4BG409100 Rh4BG409400 Rh4CG424900 Rh4DG403700 Rh4DG404200
rosa_wichuraiana	Rw4G034270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	524
AccI	GTMKAC	1 cut(s)	318
AciI	CCGC	2 cut(s)	4, 91
AcoI	YGGCCR	1 cut(s)	108
AcsI	RAATTY	1 cut(s)	178
AcuI	CTGAAG	3 cut(s)	111, 259, 489
AfiI	CCNNNNNNNGG	1 cut(s)	294
AgsI	TTSAA	3 cut(s)	184, 230, 499
AluBI	AGCT	3 cut(s)	173, 191, 429
AluI	AGCT	3 cut(s)	173, 191, 429
Alw26I	GTCTC	2 cut(s)	170, 260
AlwNI	CAGNNNCTG	1 cut(s)	239
AoxI	GGCC	2 cut(s)	55, 108
ApeKI	GCWGC	2 cut(s)	32, 188
ApoI	RAATTY	1 cut(s)	178
AsuHPI	GGTGA	1 cut(s)	58
BalI	TGGCCA	1 cut(s)	110
BbvI	GCAGC	2 cut(s)	19, 200
BccI	CCATC	2 cut(s)	2, 286
BcoDI	GTCTC	2 cut(s)	170, 260
BfmI	CTRYAG	1 cut(s)	202
BisI	GCNGC	2 cut(s)	33, 189
BlsI	GCNGC	2 cut(s)	34, 190
BmsI	GCATC	3 cut(s)	148, 226, 411
BpuEI	CTTGAG	1 cut(s)	362
BsaJI	CCNNGG	1 cut(s)	219
Bsc4I	CCNNNNNNNGG	1 cut(s)	294
Bse3DI	GCAATG	1 cut(s)	93
BseDI	CCNNGG	1 cut(s)	219
BseGI	GGATG	2 cut(s)	13, 163
BseLI	CCNNNNNNNGG	1 cut(s)	294
BseMI	GCAATG	1 cut(s)	93
BseMII	CTCAG	1 cut(s)	66
BseXI	GCAGC	2 cut(s)	19, 200
BseYI	CCCAGC	2 cut(s)	173, 335
BshFI	GGCC	2 cut(s)	57, 110
BslFI	GGGAC	1 cut(s)	471
BslI	CCNNNNNNNGG	1 cut(s)	294
BsmAI	GTCTC	2 cut(s)	170, 260
BsmBI	CGTCTC	1 cut(s)	260
BsmFI	GGGAC	1 cut(s)	471
BsnI	GGCC	2 cut(s)	57, 110
Bsp143I	GATC	3 cut(s)	48, 270, 412
BspACI	CCGC	2 cut(s)	4, 91
BspANI	GGCC	2 cut(s)	57, 110
BspCNI	CTCAG	1 cut(s)	65
BsrDI	GCAATG	1 cut(s)	93
BssECI	CCNNGG	1 cut(s)	219
BssMI	GATC	3 cut(s)	48, 270, 412
BssNAI	GTATAC	1 cut(s)	319
BssT1I	CCWWGG	1 cut(s)	219
Bst1107I	GTATAC	1 cut(s)	319
Bst4CI	ACNGT	1 cut(s)	521
BstC8I	GCNNGC	1 cut(s)	451
BstDEI	CTNAG	1 cut(s)	52
BstF5I	GGATG	2 cut(s)	13, 163
BstKTI	GATC	3 cut(s)	51, 273, 415
BstMAI	GTCTC	2 cut(s)	170, 260
BstMBI	GATC	3 cut(s)	48, 270, 412
BstMWI	GCNNNNNNNGC	1 cut(s)	245
BstNSI	RCATGY	1 cut(s)	165
BstSFI	CTRYAG	1 cut(s)	202
BstV1I	GCAGC	2 cut(s)	19, 200
BstZ17I	GTATAC	1 cut(s)	319
BsuRI	GGCC	2 cut(s)	57, 110
BtsCI	GGATG	2 cut(s)	13, 163
BtsIMutI	CAGTG	1 cut(s)	283
Cac8I	GCNNGC	1 cut(s)	451
CaiI	CAGNNNCTG	1 cut(s)	239
CviAII	CATG	5 cut(s)	112, 162, 410, 463, 524
DdeI	CTNAG	1 cut(s)	52
DpnI	GATC	3 cut(s)	50, 272, 414
DpnII	GATC	3 cut(s)	48, 270, 412
DrdI	GACNNNNNNGTC	1 cut(s)	524
DseDI	GACNNNNNNGTC	1 cut(s)	524
EaeI	YGGCCR	1 cut(s)	108
Eco130I	CCWWGG	1 cut(s)	219
Eco147I	AGGCCT	1 cut(s)	57
Eco57I	CTGAAG	3 cut(s)	111, 259, 489
EcoT14I	CCWWGG	1 cut(s)	219
EcoT22I	ATGCAT	1 cut(s)	163
ErhI	CCWWGG	1 cut(s)	219
Esp3I	CGTCTC	1 cut(s)	260
FaeI	CATG	5 cut(s)	115, 165, 413, 466, 527
FaqI	GGGAC	1 cut(s)	471
FatI	CATG	5 cut(s)	111, 161, 409, 462, 523
FauI	CCCGC	1 cut(s)	84
FblI	GTMKAC	1 cut(s)	318
Fnu4HI	GCNGC	2 cut(s)	33, 189
FokI	GGATG	2 cut(s)	20, 170
Fsp4HI	GCNGC	2 cut(s)	33, 189
GluI	GCNGC	2 cut(s)	33, 189
GsaI	CCCAGC	2 cut(s)	177, 339
HaeIII	GGCC	2 cut(s)	57, 110
Hin1II	CATG	5 cut(s)	115, 165, 413, 466, 527
HincII	GTYRAC	1 cut(s)	420
HindII	GTYRAC	1 cut(s)	420
HinfI	GANTC	2 cut(s)	375, 459
HpaI	GTTAAC	1 cut(s)	420
HphI	GGTGA	1 cut(s)	58
Hpy166II	GTNNAC	2 cut(s)	319, 420
Hpy188I	TCNGA	3 cut(s)	130, 289, 407
Hpy188III	TCNNGA	3 cut(s)	305, 379, 515
Hpy8I	GTNNAC	2 cut(s)	319, 420
HpyCH4III	ACNGT	1 cut(s)	521
HpyCH4V	TGCA	3 cut(s)	35, 161, 345
HpyF10VI	GCNNNNNNNGC	1 cut(s)	245
HpyF3I	CTNAG	1 cut(s)	52
Hsp92II	CATG	5 cut(s)	115, 165, 413, 466, 527
KspAI	GTTAAC	1 cut(s)	420
Kzo9I	GATC	3 cut(s)	48, 270, 412
LpnPI	CCDG	9 cut(s)	39, 159, 246, 318, 321, 335, 344, 464, 528
Lsp1109I	GCAGC	2 cut(s)	19, 200
LweI	GCATC	3 cut(s)	148, 226, 411
MaeIII	GTNAC	1 cut(s)	97
MalI	GATC	3 cut(s)	50, 272, 414
MboI	GATC	3 cut(s)	48, 270, 412
MboII	GAAGA	2 cut(s)	117, 265
MlsI	TGGCCA	1 cut(s)	110
MluCI	AATT	3 cut(s)	178, 209, 507
MluNI	TGGCCA	1 cut(s)	110
MlyI	GAGTC	2 cut(s)	369, 453
MnlI	CCTC	5 cut(s)	5, 68, 358, 391, 497
Mox20I	TGGCCA	1 cut(s)	110
Mph1103I	ATGCAT	1 cut(s)	163
MscI	TGGCCA	1 cut(s)	110
MseI	TTAA	2 cut(s)	393, 419
Msp20I	TGGCCA	1 cut(s)	110
MwoI	GCNNNNNNNGC	1 cut(s)	245
NdeII	GATC	3 cut(s)	48, 270, 412
NlaIII	CATG	5 cut(s)	115, 165, 413, 466, 527
NsiI	ATGCAT	1 cut(s)	163
NspI	RCATGY	1 cut(s)	165
PceI	AGGCCT	1 cut(s)	57
PkrI	GCNGC	2 cut(s)	34, 190
PleI	GAGTC	2 cut(s)	369, 453
PpsI	GAGTC	2 cut(s)	369, 453
PspFI	CCCAGC	2 cut(s)	173, 335
PstNI	CAGNNNCTG	1 cut(s)	239
SaqAI	TTAA	2 cut(s)	393, 419
SatI	GCNGC	2 cut(s)	33, 189
Sau3AI	GATC	3 cut(s)	48, 270, 412
SchI	GAGTC	2 cut(s)	369, 453
SetI	ASST	4 cut(s)	175, 193, 431, 483
SfaNI	GCATC	3 cut(s)	148, 226, 411
SfcI	CTRYAG	1 cut(s)	202
SmlI	CTYRAG	1 cut(s)	377
SmoI	CTYRAG	1 cut(s)	377
Sse9I	AATT	3 cut(s)	178, 209, 507
SseBI	AGGCCT	1 cut(s)	57
SsiI	CCGC	2 cut(s)	4, 91
StuI	AGGCCT	1 cut(s)	57
StyI	CCWWGG	1 cut(s)	219
TaaI	ACNGT	1 cut(s)	521
TaqI	TCGA	2 cut(s)	363, 486
TasI	AATT	3 cut(s)	178, 209, 507
Tru1I	TTAA	2 cut(s)	393, 419
Tru9I	TTAA	2 cut(s)	393, 419
TscAI	CASTG	1 cut(s)	283
TseI	GCWGC	2 cut(s)	32, 188
TspDTI	ATGAA	1 cut(s)	399
TspGWI	ACGGA	1 cut(s)	54
TspRI	CASTG	1 cut(s)	283
XapI	RAATTY	1 cut(s)	178
XceI	RCATGY	1 cut(s)	165
XmiI	GTMKAC	1 cut(s)	318
Zsp2I	ATGCAT	1 cut(s)	163

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