Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001276

Physical Location & Seq

Genomic Coordinates Reverse (-)

18983776 .. 18984957

Gene Structure 1182 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000028122

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGGGTTTAGCTTCACATGGGAGAAACCTTGCATTTCAGATTGGGTTTCCCAAGAAGCTAAACCCTCGTGTGGTTCGATCCGTTCTTCAACAACACCACCAGGTTGGTGACCCAGAAAGACTTTTAAGTTTCTTTGATTGGTCTGGTGCCCAATTGGGTGTGCTCCCAAATTTGCATTCTTTTTCAATTATGGCTGTTGTTTTGTGTAATTCCAAGCTTTTTGGGCATGCCCATGGTGTGCTGGAGAGAATGGTTAGGACCCGGAAGCCGGCTTTAGAAGTTTTGGATTGTGTTGTTAGGTGTTTTAGAGAGTTTGAGGGGTCTGATACGGTGGTTTTTGAGATTTTGATTAATGTGTTTAAGATGGGGGGTTGGTTTTATGAGGCTGCTGATGTGTTTTTGGGTGTTAGGAGTGTTGGGATTTTGCCGAGATTGGAATGCTGTAATTCTCTGTTGAATGAGTTGTTTAAGGGTAATAGGATGAGGCTATTCTGGAAAGTGTATGATGGGATGTTAGAGGCTAAGATTGAGCTGGATTTTTACACTTATAGCAATGTGATCAACGCACATTGTAAGTTTGGGGATGTTAGGCAGGGTAAGAGGCTACTGTTTGAGATGGTAGAGAAGGGCTGTAATCCGAATTTGAGTACCTTCAATGTGGTGATTGATGGATTGTGTAGAAGTAAGGCTGTTGATGAAGCCATTAAGTTGAAAAAATCAATGGTTGAGAAGGGATTGACACCTGATAGGTATACATATTCAGTACTAATTGATGGATTGTGCAAACAGAAGAGATCAGAAGAAGCAAAGTTGGTATTGAACGAGATGTATGATATAGGTTTGAATCCTGACCGCACCCTGTACATTGCTTTGATTGATGGATTCTTGAAGGCAAAATCTCTTTTGAATGAGATGAATGCTATGGGAATTGAACCTAATACCCAAACATATAACTATTTAATTGATGGGTACTGTCGGGAGCAAAATGTAAACAAGGCTTATGCATTACTTAATGAGATGAAGCAAAAGTTGTAA

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

345

Amino Acids

39.19

Weight (kDa)

8.7

Isoelectric Point (pI)

27.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	147 - 192	1.2e-08	PPR repeat family
PPR_long	PF17177	166 - 292	6.7e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	168 - 223	2.1e-07	Pentatricopeptide repeat domain
PPR	PF01535	181 - 211	2.6e-06	PPR repeat
PPR_2	PF13041	182 - 227	1e-12	PPR repeat family
PPR_1	PF12854	209 - 242	8.5e-10	PPR repeat
PPR	PF01535	216 - 246	5.2e-06	PPR repeat
PPR_2	PF13041	217 - 262	3.5e-17	PPR repeat family
PPR_1	PF12854	244 - 276	6.6e-10	PPR repeat
PPR	PF01535	251 - 280	6.1e-06	PPR repeat
PPR_2	PF13041	256 - 297	9.7e-06	PPR repeat family
PPR_2	PF13041	297 - 326	2.3e-08	PPR repeat family
PPR_3	PF13812	300 - 343	4e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	308 - 341	9.2e-13	PPR repeat
PPR_2	PF13041	316 - 343	5.3e-08	PPR repeat family
PPR	PF01535	316 - 343	9.6e-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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Align Labels (Cladogram)

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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)
AccB1I	GGYRCC	1 cut(s)	146
AccI	GTMKAC	1 cut(s)	752
AciI	CCGC	1 cut(s)	853
AclWI	GGATC	1 cut(s)	72
AcsI	RAATTY	2 cut(s)	169, 640
AfaI	GTAC	4 cut(s)	649, 765, 863, 971
AfiI	CCNNNNNNNGG	2 cut(s)	70, 268
AjnI	CCWGG	1 cut(s)	99
AjuI	GAANNNNNNNTTGG	2 cut(s)	160, 192
AluBI	AGCT	4 cut(s)	11, 58, 217, 532
AluI	AGCT	4 cut(s)	11, 58, 217, 532
Alw21I	GWGCWC	1 cut(s)	165
AlwI	GGATC	1 cut(s)	72
ApeKI	GCWGC	1 cut(s)	386
ApoI	RAATTY	2 cut(s)	169, 640
AseI	ATTAAT	1 cut(s)	351
AspS9I	GGNCC	1 cut(s)	258
AsuC2I	CCSGG	1 cut(s)	262
AsuHPI	GGTGA	2 cut(s)	119, 673
AvaII	GGWCC	1 cut(s)	258
BaeGI	GKGCMC	1 cut(s)	151
BaeI	ACNNNNGTAYC	2 cut(s)	318, 351
BanI	GGYRCC	1 cut(s)	146
BauI	CACGAG	1 cut(s)	66
Bbv12I	GWGCWC	1 cut(s)	165
BbvI	GCAGC	1 cut(s)	373
BccI	CCATC	7 cut(s)	358, 500, 610, 662, 767, 872, 959
BciT130I	CCWGG	1 cut(s)	101
BclI	TGATCA	1 cut(s)	558
BcnI	CCSGG	1 cut(s)	262
BisI	GCNGC	1 cut(s)	387
BlsI	GCNGC	1 cut(s)	388
BmcAI	AGTACT	1 cut(s)	765
Bme1390I	CCNGG	2 cut(s)	101, 262
Bme18I	GGWCC	1 cut(s)	258
BmgT120I	GGNCC	1 cut(s)	258
BmiI	GGNNCC	2 cut(s)	148, 260
BmrFI	CCNGG	2 cut(s)	101, 262
BpmI	CTGGAG	1 cut(s)	263
BpuMI	CCSGG	1 cut(s)	262
BsaJI	CCNNGG	1 cut(s)	232
Bsc4I	CCNNNNNNNGG	2 cut(s)	70, 268
Bse118I	RCCGGY	1 cut(s)	268
Bse3DI	GCAATG	2 cut(s)	559, 864
BseBI	CCWGG	1 cut(s)	101
BseDI	CCNNGG	1 cut(s)	232
BseGI	GGATG	3 cut(s)	486, 516, 589
BseLI	CCNNNNNNNGG	2 cut(s)	70, 268
BseMI	GCAATG	2 cut(s)	559, 864
BseSI	GKGCMC	1 cut(s)	151
BseXI	GCAGC	1 cut(s)	373
BshNI	GGYRCC	1 cut(s)	146
BsiHKAI	GWGCWC	1 cut(s)	165
BsiSI	CCGG	2 cut(s)	262, 269
BslI	CCNNNNNNNGG	2 cut(s)	70, 268
BsmI	GAATGC	3 cut(s)	175, 443, 922
Bsp1286I	GDGCHC	2 cut(s)	151, 165
Bsp1407I	TGTACA	1 cut(s)	861
Bsp143I	GATC	3 cut(s)	77, 558, 794
Bsp19I	CCATGG	1 cut(s)	232
BspACI	CCGC	1 cut(s)	853
BspLI	GGNNCC	2 cut(s)	148, 260
BspPI	GGATC	1 cut(s)	72
BspT107I	GGYRCC	1 cut(s)	146
BsrDI	GCAATG	2 cut(s)	559, 864
BsrFI	RCCGGY	1 cut(s)	268
BsrGI	TGTACA	1 cut(s)	861
BssAI	RCCGGY	1 cut(s)	268
BssECI	CCNNGG	1 cut(s)	232
BssMI	GATC	3 cut(s)	77, 558, 794
BssNAI	GTATAC	1 cut(s)	753
BssSI	CACGAG	1 cut(s)	66
BssT1I	CCWWGG	1 cut(s)	232
Bst1107I	GTATAC	1 cut(s)	753
Bst2BI	CACGAG	1 cut(s)	66
Bst2UI	CCWGG	1 cut(s)	101
Bst4CI	ACNGT	3 cut(s)	331, 609, 974
Bst6I	CTCTTC	1 cut(s)	785
BstAUI	TGTACA	1 cut(s)	861
BstC8I	GCNNGC	2 cut(s)	228, 270
BstDEI	CTNAG	1 cut(s)	522
BstDSI	CCRYGG	1 cut(s)	232
BstEII	GGTNACC	1 cut(s)	107
BstF5I	GGATG	3 cut(s)	486, 516, 589
BstKTI	GATC	3 cut(s)	80, 561, 797
BstMBI	GATC	3 cut(s)	77, 558, 794
BstMWI	GCNNNNNNNGC	1 cut(s)	223
BstNI	CCWGG	1 cut(s)	101
BstNSI	RCATGY	1 cut(s)	230
BstPI	GGTNACC	1 cut(s)	107
BstSCI	CCNGG	2 cut(s)	99, 260
BstSLI	GKGCMC	1 cut(s)	151
BstV1I	GCAGC	1 cut(s)	373
BstXI	CCANNNNNNTGG	1 cut(s)	104
BstZ17I	GTATAC	1 cut(s)	753
BtgI	CCRYGG	1 cut(s)	232
BtsCI	GGATG	3 cut(s)	486, 516, 589
Cac8I	GCNNGC	2 cut(s)	228, 270
Cfr10I	RCCGGY	1 cut(s)	268
Cfr13I	GGNCC	1 cut(s)	258
CsiI	ACCWGGT	1 cut(s)	99
Csp6I	GTAC	4 cut(s)	648, 764, 862, 970
CviAII	CATG	3 cut(s)	17, 227, 233
CviQI	GTAC	4 cut(s)	648, 764, 862, 970
DdeI	CTNAG	1 cut(s)	522
DpnI	GATC	3 cut(s)	79, 560, 796
DpnII	GATC	3 cut(s)	77, 558, 794
Eam1104I	CTCTTC	1 cut(s)	785
EarI	CTCTTC	1 cut(s)	785
Eco130I	CCWWGG	1 cut(s)	232
Eco47I	GGWCC	1 cut(s)	258
Eco91I	GGTNACC	1 cut(s)	107
EcoO109I	RGGNCCY	1 cut(s)	258
EcoO65I	GGTNACC	1 cut(s)	107
EcoRII	CCWGG	1 cut(s)	99
EcoT14I	CCWWGG	1 cut(s)	232
EcoT22I	ATGCAT	1 cut(s)	1006
ErhI	CCWWGG	1 cut(s)	232
FaeI	CATG	3 cut(s)	20, 230, 236
FatI	CATG	3 cut(s)	16, 226, 232
FbaI	TGATCA	1 cut(s)	558
FblI	GTMKAC	1 cut(s)	752
Fnu4HI	GCNGC	1 cut(s)	387
FokI	GGATG	3 cut(s)	493, 523, 596
Fsp4HI	GCNGC	1 cut(s)	387
GluI	GCNGC	1 cut(s)	387
GsuI	CTGGAG	1 cut(s)	263
HapII	CCGG	2 cut(s)	262, 269
Hin1II	CATG	3 cut(s)	20, 230, 236
HindIII	AAGCTT	1 cut(s)	215
HinfI	GANTC	2 cut(s)	844, 882
HpaII	CCGG	2 cut(s)	262, 269
HphI	GGTGA	2 cut(s)	119, 673
Hpy166II	GTNNAC	2 cut(s)	753, 991
Hpy188I	TCNGA	4 cut(s)	39, 325, 639, 799
Hpy188III	TCNNGA	4 cut(s)	493, 848, 886, 977
Hpy8I	GTNNAC	2 cut(s)	753, 991
HpyAV	CCTTC	4 cut(s)	619, 661, 724, 883
HpyCH4III	ACNGT	3 cut(s)	331, 609, 974
HpyCH4V	TGCA	4 cut(s)	32, 175, 783, 1004
HpyF10VI	GCNNNNNNNGC	1 cut(s)	223
HpyF3I	CTNAG	1 cut(s)	522
Hsp92II	CATG	3 cut(s)	20, 230, 236
KroI	GCCGGC	1 cut(s)	268
KroNI	GCCGGC	1 cut(s)	270
Ksp22I	TGATCA	1 cut(s)	558
Kzo9I	GATC	3 cut(s)	77, 558, 794
LmnI	GCTCC	2 cut(s)	168, 979
Lsp1109I	GCAGC	1 cut(s)	373
MabI	ACCWGGT	1 cut(s)	99
MaeIII	GTNAC	1 cut(s)	107
MalI	GATC	3 cut(s)	79, 560, 796
MboI	GATC	3 cut(s)	77, 558, 794
MboII	GAAGA	3 cut(s)	77, 802, 812
MfeI	CAATTG	1 cut(s)	152
MhlI	GDGCHC	2 cut(s)	151, 165
MluCI	AATT	9 cut(s)	152, 169, 186, 208, 445, 640, 768, 927, 960
MnlI	CCTC	6 cut(s)	75, 310, 376, 477, 511, 594
Mph1103I	ATGCAT	1 cut(s)	1006
MroNI	GCCGGC	1 cut(s)	268
MseI	TTAA	7 cut(s)	125, 351, 360, 468, 705, 959, 1011
MslI	CAYNNNNRTG	1 cut(s)	231
MspI	CCGG	2 cut(s)	262, 269
MspR9I	CCNGG	2 cut(s)	101, 262
MunI	CAATTG	1 cut(s)	152
Mva1269I	GAATGC	3 cut(s)	175, 443, 922
MvaI	CCWGG	1 cut(s)	101
MwoI	GCNNNNNNNGC	1 cut(s)	223
NaeI	GCCGGC	1 cut(s)	270
NciI	CCSGG	1 cut(s)	262
NcoI	CCATGG	1 cut(s)	232
NdeII	GATC	3 cut(s)	77, 558, 794
NgoMIV	GCCGGC	1 cut(s)	268
NlaIII	CATG	3 cut(s)	20, 230, 236
NlaIV	GGNNCC	2 cut(s)	148, 260
NmeAIII	GCCGAG	1 cut(s)	453
NmuCI	GTSAC	1 cut(s)	107
NsiI	ATGCAT	1 cut(s)	1006
NspI	RCATGY	1 cut(s)	230
PaeI	GCATGC	1 cut(s)	230
PcsI	WCGNNNNNNNCGW	1 cut(s)	73
PctI	GAATGC	3 cut(s)	175, 443, 922
PdiI	GCCGGC	1 cut(s)	270
PfeI	GAWTC	2 cut(s)	844, 882
PkrI	GCNGC	1 cut(s)	388
PpuMI	RGGWCCY	1 cut(s)	258
PshBI	ATTAAT	1 cut(s)	351
Psp5II	RGGWCCY	1 cut(s)	258
Psp6I	CCWGG	1 cut(s)	99
PspEI	GGTNACC	1 cut(s)	107
PspGI	CCWGG	1 cut(s)	99
PspN4I	GGNNCC	2 cut(s)	148, 260
PspPI	GGNCC	1 cut(s)	258
PspPPI	RGGWCCY	1 cut(s)	258
RsaI	GTAC	4 cut(s)	649, 765, 863, 971
RsaNI	GTAC	4 cut(s)	648, 764, 862, 970
RseI	CAYNNNNRTG	1 cut(s)	231
SaqAI	TTAA	7 cut(s)	125, 351, 360, 468, 705, 959, 1011
SatI	GCNGC	1 cut(s)	387
Sau3AI	GATC	3 cut(s)	77, 558, 794
Sau96I	GGNCC	1 cut(s)	258
ScaI	AGTACT	1 cut(s)	765
ScrFI	CCNGG	2 cut(s)	101, 262
SduI	GDGCHC	2 cut(s)	151, 165
SexAI	ACCWGGT	1 cut(s)	99
SinI	GGWCC	1 cut(s)	258
SmiMI	CAYNNNNRTG	1 cut(s)	231
SphI	GCATGC	1 cut(s)	230
Sse9I	AATT	9 cut(s)	152, 169, 186, 208, 445, 640, 768, 927, 960
SsiI	CCGC	1 cut(s)	853
StyD4I	CCNGG	2 cut(s)	99, 260
StyI	CCWWGG	1 cut(s)	232
TaaI	ACNGT	3 cut(s)	331, 609, 974
TaqI	TCGA	1 cut(s)	76
TasI	AATT	9 cut(s)	152, 169, 186, 208, 445, 640, 768, 927, 960
TatI	WGTACW	2 cut(s)	763, 861
TfiI	GAWTC	2 cut(s)	844, 882
Tru1I	TTAA	7 cut(s)	125, 351, 360, 468, 705, 959, 1011
Tru9I	TTAA	7 cut(s)	125, 351, 360, 468, 705, 959, 1011
TseFI	GTSAC	1 cut(s)	107
TseI	GCWGC	1 cut(s)	386
Tsp45I	GTSAC	1 cut(s)	107
TspDTI	ATGAA	3 cut(s)	711, 929, 1034
TspGWI	ACGGA	1 cut(s)	70
VpaK11BI	GGWCC	1 cut(s)	258
VspI	ATTAAT	1 cut(s)	351
XapI	RAATTY	2 cut(s)	169, 640
XceI	RCATGY	1 cut(s)	230
XmiI	GTMKAC	1 cut(s)	752
ZrmI	AGTACT	1 cut(s)	765
Zsp2I	ATGCAT	1 cut(s)	1006

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