Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0001276

Physical Location & Seq

Genomic Coordinates Reverse (-)

5051770 .. 5052704

Gene Structure 935 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000031426

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGGGTTTAGCTTCACATGGGAGAAACCTTGCATTTCAGATTGGTAATCCAAAATCAAGGCTTTTGATTCGGGTCCACTGCTGCAGTTATAAATCAGAGAGTAAAAAGCAAGAGGATGATGAAACAGTGAGGGAAATCTGTACCATTCTGAAGCGAAGCAGAGAGTGGGAGTTCGCGTTGAGCTCATCAGGGTTTCCTAAGAAGCTAAACCCTTGTGTGGTTCGATCCGTTCTTCAACAACACCACCAGCTTTTTGGGCATGCCCATGGTGTGTTGGAGAGAATGGTTAGGACCCGGAAGCCGGCTTTAGAAGTTTTGGATTGTGTTGTTAGGTGTTATAGAGAGTTTGAGGGGTCTGATATGGTGGTTTTTGAGATTTTGATTAATGTGTTTACGATGGGGGGTTGGTTTTATGAGGCTGCTGATGTGTTTTTGGGTGTTAGGAGTGTTGGGATTTCGCCAAGAATGGAATGCTGTAATTCTCTATTGAATGAGTTGTTGAAGGGTAATAGGATGAGGCTGTTCTGGAAAGTGTATGATGGGATGTTAGAGGCTAAGATTGAGCTGGATTTTTACACTTATAGCAATGTGATCAACACACATTGTAAGTTTGGGGATGTTAGGCAGGGTAAGAGGCTACTGTTTGAGATGGTAGAGAAGGGCTGTAATCCGAATTTGAGTACCTTCAATGTGGTGATTGATGGATTGTGTAGAAGTAGGGCTATTGATGAAGCCATTGAGTTGAAAAAATTGATGGTTGAGAAGGGATTGACACCTGATAGGTATACATATTCAGTACTAATTGATGGATTGTGCAGATAG

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

ko00260 ko00261 ko00270 ko00300 ko01100 ko01110 ko01120 ko01130 ko01210 ko01230 map00260 map00261 map00270 map00300 map01100 map01110 map01120 map01130 map01210 map01230

Pfam Domains

Protein Families

Mem_trans PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

274

Amino Acids

31.36

Weight (kDa)

8.68

Isoelectric Point (pI)

33.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	158 - 203	3.7e-08	PPR repeat family
PPR_long	PF17177	160 - 267	4.5e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	179 - 234	8.2e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	196 - 238	1.4e-10	PPR repeat family
PPR_1	PF12854	220 - 252	3.2e-09	PPR repeat
PPR_2	PF13041	224 - 273	5.3e-17	PPR repeat family
PPR	PF01535	227 - 257	4.4e-06	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: OG0001276)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G61990
fragaria_vesca	FvH4_5g09340 FvH4_5g09340 FvH4_5g09340 FvH4_5g09340
malus_domestica	MD06G1131900.v1.1 MD14G1148300.v1.1
prunus_persica	Prupe.5G142900_v2.0.a1 Prupe.5G142900_v2.0.a1
pyrus_communis	pycom06g12350 pycom14g12300
rosa_chinensis	RchiOBHm_Chr1g0325241 RchiOBHm_Chr1g0325261 RchiOBHm_Chr2g0162681 RchiOBHm_Chr7g0188811 RchiOBHm_Chr7g0229441
rosa_laevigata	RLG00000004657 RLG00000028121 RLG00000028122 RLG00000031426 RLG00000035825
rosa_multiflora	Rmu_sc0001621.1_g000013 Rmu_sc0001918.1_g000006 Rmu_sc0004279.1_g000018 Rmu_sc0034360.1_g000001 Rmu_sc0034361.1_g000001
rosa_roxburghii	Rroxscaffold_3G00266000 Rroxscaffold_5G00381140
rosa_rugosa	Rorug02G0360500 Rorug05G0369000 Rorug06G0494100 Rorug07G0156300
rosa_samantha	Rh1BG033100 Rh2CG348200 Rh2CG348300 Rh4AG001800 Rh4AG163800 Rh4BG001600 Rh4BG400000 Rh4BG400100 Rh4CG415000 Rh4CG415100 Rh6DG332400 Rh6DG332500 Rh7AG098900 Rh7AG408500 Rh7BG100600 Rh7CG102100 Rh7CG477400 Rh7DG100700 Rh7DG406300 Rh7DG406400 Rh7DG446700
rosa_wichuraiana	Rw0G022150 Rw7G008520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	90
AccI	GTMKAC	1 cut(s)	785
AccII	CGCG	1 cut(s)	176
AclWI	GGATC	1 cut(s)	219
AcsI	RAATTY	1 cut(s)	673
AcuI	CTGAAG	1 cut(s)	170
AfaI	GTAC	3 cut(s)	142, 682, 798
AfiI	CCNNNNNNNGG	2 cut(s)	217, 301
AgsI	TTSAA	5 cut(s)	236, 490, 502, 688, 745
AluBI	AGCT	5 cut(s)	11, 183, 205, 250, 565
AluI	AGCT	5 cut(s)	11, 183, 205, 250, 565
Alw21I	GWGCWC	1 cut(s)	185
AlwI	GGATC	1 cut(s)	219
ApeKI	GCWGC	2 cut(s)	81, 419
ApoI	RAATTY	1 cut(s)	673
AseI	ATTAAT	1 cut(s)	384
AspS9I	GGNCC	2 cut(s)	73, 291
AsuC2I	CCSGG	1 cut(s)	295
AsuHPI	GGTGA	1 cut(s)	706
AvaII	GGWCC	2 cut(s)	73, 291
BanII	GRGCYC	1 cut(s)	185
Bbv12I	GWGCWC	1 cut(s)	185
BbvI	GCAGC	2 cut(s)	68, 406
BccI	CCATC	6 cut(s)	391, 533, 643, 695, 748, 800
BclI	TGATCA	1 cut(s)	591
BcnI	CCSGG	1 cut(s)	295
BfmI	CTRYAG	1 cut(s)	82
BisI	GCNGC	2 cut(s)	82, 420
BlsI	GCNGC	2 cut(s)	83, 421
BmcAI	AGTACT	1 cut(s)	798
Bme1390I	CCNGG	1 cut(s)	295
Bme18I	GGWCC	2 cut(s)	73, 291
BmgT120I	GGNCC	2 cut(s)	73, 291
BmiI	GGNNCC	2 cut(s)	74, 293
BmrFI	CCNGG	1 cut(s)	295
BpuMI	CCSGG	1 cut(s)	295
BsaJI	CCNNGG	1 cut(s)	265
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bsc4I	CCNNNNNNNGG	2 cut(s)	217, 301
Bse118I	RCCGGY	1 cut(s)	301
Bse3DI	GCAATG	1 cut(s)	592
BseDI	CCNNGG	1 cut(s)	265
BseGI	GGATG	4 cut(s)	121, 519, 549, 622
BseLI	CCNNNNNNNGG	2 cut(s)	217, 301
BseMI	GCAATG	1 cut(s)	592
BseXI	GCAGC	2 cut(s)	68, 406
Bsh1236I	CGCG	1 cut(s)	176
BsiHKAI	GWGCWC	1 cut(s)	185
BsiSI	CCGG	2 cut(s)	295, 302
BslI	CCNNNNNNNGG	2 cut(s)	217, 301
BsmI	GAATGC	1 cut(s)	476
Bsp1286I	GDGCHC	1 cut(s)	185
Bsp143I	GATC	2 cut(s)	224, 591
Bsp19I	CCATGG	1 cut(s)	265
BspFNI	CGCG	1 cut(s)	176
BspLI	GGNNCC	2 cut(s)	74, 293
BspMAI	CTGCAG	1 cut(s)	86
BspPI	GGATC	1 cut(s)	219
BsrDI	GCAATG	1 cut(s)	592
BsrFI	RCCGGY	1 cut(s)	301
BssAI	RCCGGY	1 cut(s)	301
BssECI	CCNNGG	1 cut(s)	265
BssMI	GATC	2 cut(s)	224, 591
BssNAI	GTATAC	1 cut(s)	786
BssT1I	CCWWGG	1 cut(s)	265
Bst1107I	GTATAC	1 cut(s)	786
Bst4CI	ACNGT	2 cut(s)	127, 642
BstC8I	GCNNGC	2 cut(s)	261, 303
BstDEI	CTNAG	2 cut(s)	198, 555
BstDSI	CCRYGG	1 cut(s)	265
BstF5I	GGATG	4 cut(s)	121, 519, 549, 622
BstFNI	CGCG	1 cut(s)	176
BstKTI	GATC	2 cut(s)	227, 594
BstMBI	GATC	2 cut(s)	224, 591
BstMWI	GCNNNNNNNGC	1 cut(s)	256
BstNSI	RCATGY	1 cut(s)	263
BstSCI	CCNGG	1 cut(s)	293
BstSFI	CTRYAG	1 cut(s)	82
BstUI	CGCG	1 cut(s)	176
BstV1I	GCAGC	2 cut(s)	68, 406
BstXI	CCANNNNNNTGG	1 cut(s)	254
BstZ17I	GTATAC	1 cut(s)	786
BtgI	CCRYGG	1 cut(s)	265
BtsCI	GGATG	4 cut(s)	121, 519, 549, 622
BtsI	GCAGTG	1 cut(s)	76
BtsIMutI	CAGTG	2 cut(s)	76, 132
Cac8I	GCNNGC	2 cut(s)	261, 303
Cfr10I	RCCGGY	1 cut(s)	301
Cfr13I	GGNCC	2 cut(s)	73, 291
Csp6I	GTAC	3 cut(s)	141, 681, 797
CviAII	CATG	3 cut(s)	17, 260, 266
CviQI	GTAC	3 cut(s)	141, 681, 797
DdeI	CTNAG	2 cut(s)	198, 555
DpnI	GATC	2 cut(s)	226, 593
DpnII	GATC	2 cut(s)	224, 591
Ecl136II	GAGCTC	1 cut(s)	183
Eco130I	CCWWGG	1 cut(s)	265
Eco24I	GRGCYC	1 cut(s)	185
Eco47I	GGWCC	2 cut(s)	73, 291
Eco53kI	GAGCTC	1 cut(s)	183
Eco57I	CTGAAG	1 cut(s)	170
EcoICRI	GAGCTC	1 cut(s)	183
EcoO109I	RGGNCCY	1 cut(s)	291
EcoT14I	CCWWGG	1 cut(s)	265
EcoT38I	GRGCYC	1 cut(s)	185
ErhI	CCWWGG	1 cut(s)	265
FaeI	CATG	3 cut(s)	20, 263, 269
FatI	CATG	3 cut(s)	16, 259, 265
FbaI	TGATCA	1 cut(s)	591
FblI	GTMKAC	1 cut(s)	785
Fnu4HI	GCNGC	2 cut(s)	82, 420
FokI	GGATG	4 cut(s)	128, 526, 556, 629
FriOI	GRGCYC	1 cut(s)	185
Fsp4HI	GCNGC	2 cut(s)	82, 420
GluI	GCNGC	2 cut(s)	82, 420
HapII	CCGG	2 cut(s)	295, 302
Hin1II	CATG	3 cut(s)	20, 263, 269
HinfI	GANTC	1 cut(s)	67
HpaII	CCGG	2 cut(s)	295, 302
HphI	GGTGA	1 cut(s)	706
Hpy166II	GTNNAC	3 cut(s)	76, 393, 786
Hpy188I	TCNGA	5 cut(s)	39, 97, 150, 358, 672
Hpy188III	TCNNGA	1 cut(s)	526
Hpy8I	GTNNAC	3 cut(s)	76, 393, 786
HpyAV	CCTTC	4 cut(s)	496, 652, 694, 757
HpyCH4III	ACNGT	2 cut(s)	127, 642
HpyCH4V	TGCA	3 cut(s)	32, 84, 816
HpyF10VI	GCNNNNNNNGC	1 cut(s)	256
HpyF3I	CTNAG	2 cut(s)	198, 555
Hsp92II	CATG	3 cut(s)	20, 263, 269
KroI	GCCGGC	1 cut(s)	301
KroNI	GCCGGC	1 cut(s)	303
Ksp22I	TGATCA	1 cut(s)	591
Kzo9I	GATC	2 cut(s)	224, 591
LpnPI	CCDG	8 cut(s)	174, 260, 308, 315, 511, 551, 611, 789
Lsp1109I	GCAGC	2 cut(s)	68, 406
MalI	GATC	2 cut(s)	226, 593
MboI	GATC	2 cut(s)	224, 591
MboII	GAAGA	1 cut(s)	224
MhlI	GDGCHC	1 cut(s)	185
MluCI	AATT	4 cut(s)	478, 673, 749, 801
MmeI	TCCRAC	1 cut(s)	255
MnlI	CCTC	7 cut(s)	106, 123, 343, 409, 510, 544, 627
MroNI	GCCGGC	1 cut(s)	301
MseI	TTAA	1 cut(s)	384
MslI	CAYNNNNRTG	1 cut(s)	264
MspI	CCGG	2 cut(s)	295, 302
MspR9I	CCNGG	1 cut(s)	295
Mva1269I	GAATGC	1 cut(s)	476
MvnI	CGCG	1 cut(s)	176
MwoI	GCNNNNNNNGC	1 cut(s)	256
NaeI	GCCGGC	1 cut(s)	303
NciI	CCSGG	1 cut(s)	295
NcoI	CCATGG	1 cut(s)	265
NdeII	GATC	2 cut(s)	224, 591
NgoMIV	GCCGGC	1 cut(s)	301
NlaIII	CATG	3 cut(s)	20, 263, 269
NlaIV	GGNNCC	2 cut(s)	74, 293
NspI	RCATGY	1 cut(s)	263
PaeI	GCATGC	1 cut(s)	263
PctI	GAATGC	1 cut(s)	476
PdiI	GCCGGC	1 cut(s)	303
PfeI	GAWTC	1 cut(s)	67
PkrI	GCNGC	2 cut(s)	83, 421
PpuMI	RGGWCCY	1 cut(s)	291
PshBI	ATTAAT	1 cut(s)	384
PsiI	TTATAA	1 cut(s)	90
Psp124BI	GAGCTC	1 cut(s)	185
Psp5II	RGGWCCY	1 cut(s)	291
PspN4I	GGNNCC	2 cut(s)	74, 293
PspPI	GGNCC	2 cut(s)	73, 291
PspPPI	RGGWCCY	1 cut(s)	291
PstI	CTGCAG	1 cut(s)	86
RsaI	GTAC	3 cut(s)	142, 682, 798
RsaNI	GTAC	3 cut(s)	141, 681, 797
RseI	CAYNNNNRTG	1 cut(s)	264
SacI	GAGCTC	1 cut(s)	185
SaqAI	TTAA	1 cut(s)	384
SatI	GCNGC	2 cut(s)	82, 420
Sau3AI	GATC	2 cut(s)	224, 591
Sau96I	GGNCC	2 cut(s)	73, 291
ScaI	AGTACT	1 cut(s)	798
ScrFI	CCNGG	1 cut(s)	295
SduI	GDGCHC	1 cut(s)	185
SfcI	CTRYAG	1 cut(s)	82
SinI	GGWCC	2 cut(s)	73, 291
SmiMI	CAYNNNNRTG	1 cut(s)	264
SphI	GCATGC	1 cut(s)	263
Sse9I	AATT	4 cut(s)	478, 673, 749, 801
SstI	GAGCTC	1 cut(s)	185
StyD4I	CCNGG	1 cut(s)	293
StyI	CCWWGG	1 cut(s)	265
TaaI	ACNGT	2 cut(s)	127, 642
TaqI	TCGA	1 cut(s)	223
TasI	AATT	4 cut(s)	478, 673, 749, 801
TatI	WGTACW	1 cut(s)	796
TfiI	GAWTC	1 cut(s)	67
Tru1I	TTAA	1 cut(s)	384
Tru9I	TTAA	1 cut(s)	384
TscAI	CASTG	2 cut(s)	83, 132
TseI	GCWGC	2 cut(s)	81, 419
TspDTI	ATGAA	2 cut(s)	135, 744
TspGWI	ACGGA	1 cut(s)	217
TspRI	CASTG	2 cut(s)	83, 132
VpaK11BI	GGWCC	2 cut(s)	73, 291
VspI	ATTAAT	1 cut(s)	384
XapI	RAATTY	1 cut(s)	673
XceI	RCATGY	1 cut(s)	263
XcmI	CCANNNNNNNNNTGG	1 cut(s)	251
XmiI	GTMKAC	1 cut(s)	785
ZrmI	AGTACT	1 cut(s)	798

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