Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0008613

Physical Location & Seq

Genomic Coordinates Reverse (-)

15815691 .. 15817419

Gene Structure 1729 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000007323

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1146 bp

ATGATTGAGAAGCTTGGGAGTCAATGTGAAATGGATGGTGTGCAGTACTTGATGCACCAAATGAAATTGGAGGTGGTTGGTTGCTCTGAGGAGTTGTTTATAAGTGTGGTGAAGTCTTATAGGCGAGCTGGGTTGGCTGAGCAGGCATTGAAGATGTTCTACGAGCGCAGAGTTAGTGAAGCTCTGGACTTGTGGAACCGCATGGTTCGTGAGCGATTTGGGCTCAATGTTGTTACATATACAACTGTTATACATGGTCTCTGCTCTGTTGGGAATACGCACGAAGCTGTATCTGTTTTACATGAGATGGAGATAAAAGGTTGCTCTCCAAATGTGAGCACATATAGCACTCTTATTGATGGGTTTGCAAAAGCTGGCAACCTTGTTGGTGCATCGGAGACTTGGAACAATATGATGAGCCGTAGTTGCCGTCTTAATTTCATAGCATATACGTGCATGGTGGATGTTCTGTGCAGGAAATATATGTTTCATCGAGCTCAATGTCTTGTAGAAAATATGACTGCCGAAGGCTGTCCACCAAATACAGTTACGTTTAACACATTTATCAATGGGTTGTGTGAATATGGAGAAGTAGATTGGGCTGTTAAGGTGCTCAACAAGATGAGAGAAAATGGGTGTTTGCCTAACATTACGACATACAATGAGTTATTGGATGGTCTGTTCATGGTGAACAGATTCGAAGAAGCATTTGGACTTGTCAGGGAGATAGATGAAAAGGGACTGAAACTGAATTTGGTGACATACAACACCATTTTGAATGGTTTTTGTTGCTCCGGGATGACCAAAGAGGCTATGCAGCAAGGCAGGATAAAGACTGCTATTCAGCTTTTCAACAGTACTGGTGCAGCAAAGGAGTGGTGCCCGGATGATAAGAACCATGATCTCCGATTTTCTTGTAAGGAATCGTCTGTTAATCACTTAATCCAACCTGTTGATGAAATGACAGATGCTAATCTTAACATAAGCGTCTGCCGTGACATCCTGTTTGCTTTCCTATGCCATGAGCAAGCCCGAGGACTAACAGCACGGTATAACACTGAACAACATAAGGGCGCAAAGGCTGGTGCACTCGTGCACCAGGCTAGCTTGGAAGTTGCTCATAAATTGAAATCCTGTTACCTGTGA

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 PPR_long

Protein Analysis

382

Amino Acids

42.96

Weight (kDa)

6.28

Isoelectric Point (pI)

32.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	55 - 88	8.8e-08	PPR repeat family
PPR_3	PF13812	66 - 121	8.1e-13	Pentatricopeptide repeat domain
PPR_2	PF13041	76 - 124	2.9e-18	PPR repeat family
PPR_1	PF12854	76 - 104	1.2e-10	PPR repeat
PPR	PF01535	78 - 108	9.1e-08	PPR repeat
PPR_1	PF12854	106 - 138	1.1e-09	PPR repeat
PPR_2	PF13041	117 - 159	5e-07	PPR repeat family
PPR_2	PF13041	148 - 193	2.1e-11	PPR repeat family
PPR_3	PF13812	169 - 224	6.5e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	177 - 209	1.3e-13	PPR repeat
PPR_2	PF13041	180 - 227	8e-16	PPR repeat family
PPR	PF01535	183 - 213	2.6e-07	PPR repeat
PPR_2	PF13041	215 - 263	3.3e-13	PPR repeat family
PPR_1	PF12854	246 - 273	3.6e-09	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)

Image

Tree File

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Orthologous Genes (Group: OG0008613)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48810
fragaria_vesca	FvH4_4g20630
malus_domestica	MD13G1149200.v1.1
prunus_persica	Prupe.1G113200_v2.0.a1
pyrus_communis	pycom13g12840
rosa_chinensis	RchiOBHm_Chr4g0425991 RchiOBHm_Chr4g0426031
rosa_laevigata	RLG00000007323 RLG00000007325
rosa_multiflora	Rmu_ssc0000281.1_g000016 Rmu_ssc0000281.1_g000018 Rmu_ssc0000281.1_g000020
rosa_roxburghii	Rroxscaffold_5G00368000
rosa_rugosa	Rorug04G0207900 Rorug04G0208100
rosa_samantha	Rh4AG264900 Rh4BG270800 Rh4BG271100 Rh4CG283400 Rh4CG283700 Rh4CG283900 Rh4DG267400
rosa_wichuraiana	Rw4G022880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	101
AccB1I	GGYRCC	1 cut(s)	879
AciI	CCGC	1 cut(s)	199
AcsI	RAATTY	1 cut(s)	751
AfaI	GTAC	2 cut(s)	47, 859
AgsI	TTSAA	4 cut(s)	151, 778, 853, 1129
AjnI	CCWGG	1 cut(s)	1098
AjuI	GAANNNNNNNTTGG	4 cut(s)	693, 725, 737, 769
AloI	GAACNNNNNNTCC	2 cut(s)	665, 697
AluBI	AGCT	8 cut(s)	13, 128, 182, 287, 374, 497, 847, 1107
AluI	AGCT	8 cut(s)	13, 128, 182, 287, 374, 497, 847, 1107
Alw21I	GWGCWC	5 cut(s)	341, 499, 615, 1090, 1098
Alw26I	GTCTC	2 cut(s)	263, 392
Alw44I	GTGCAC	2 cut(s)	1086, 1094
Ama87I	CYCGRG	1 cut(s)	1032
ApaLI	GTGCAC	2 cut(s)	1086, 1094
ApeKI	GCWGC	2 cut(s)	817, 866
ApoI	RAATTY	1 cut(s)	751
ArsI	GACNNNNNNTTYG	2 cut(s)	989, 1021
Asp700I	GAANNNNTTC	2 cut(s)	155, 695
AspLEI	GCGC	2 cut(s)	168, 1076
AsuC2I	CCSGG	2 cut(s)	796, 884
AsuHPI	GGTGA	3 cut(s)	121, 700, 769
AsuII	TTCGAA	1 cut(s)	699
AsuNHI	GCTAGC	1 cut(s)	1103
AvaI	CYCGRG	1 cut(s)	1032
BaeGI	GKGCMC	3 cut(s)	884, 1090, 1098
BanI	GGYRCC	1 cut(s)	879
BanII	GRGCYC	2 cut(s)	225, 499
BarI	GAAGNNNNNNTAC	2 cut(s)	143, 175
BauI	CACGAG	1 cut(s)	1091
Bbv12I	GWGCWC	5 cut(s)	341, 499, 615, 1090, 1098
BbvI	GCAGC	2 cut(s)	829, 878
BccI	CCATC	4 cut(s)	29, 301, 353, 668
BceAI	ACGGC	3 cut(s)	405, 414, 978
BciT130I	CCWGG	1 cut(s)	1100
BcnI	CCSGG	2 cut(s)	796, 884
BcoDI	GTCTC	2 cut(s)	263, 392
BfaI	CTAG	1 cut(s)	1104
BisI	GCNGC	2 cut(s)	818, 867
BlpI	GCTNAGC	1 cut(s)	138
BlsI	GCNGC	2 cut(s)	819, 868
BmcAI	AGTACT	2 cut(s)	47, 859
Bme1390I	CCNGG	3 cut(s)	796, 884, 1100
BmeT110I	CYCGRG	1 cut(s)	1032
BmiI	GGNNCC	2 cut(s)	197, 881
BmrFI	CCNGG	3 cut(s)	796, 884, 1100
BmsI	GCATC	3 cut(s)	42, 401, 958
BmtI	GCTAGC	1 cut(s)	1107
Bpu1102I	GCTNAGC	1 cut(s)	138
Bpu14I	TTCGAA	1 cut(s)	699
BpuMI	CCSGG	2 cut(s)	796, 884
BsaAI	YACGTR	1 cut(s)	453
BsaBI	GATNNNNATC	1 cut(s)	972
BsaI	GGTCTC	1 cut(s)	263
BsaJI	CCNNGG	1 cut(s)	1033
BsaXI	ACNNNNNCTCC	2 cut(s)	10, 40
Bse1I	ACTGG	1 cut(s)	865
Bse8I	GATNNNNATC	1 cut(s)	972
BseBI	CCWGG	1 cut(s)	1100
BseDI	CCNNGG	1 cut(s)	1033
BseGI	GGATG	6 cut(s)	40, 469, 679, 804, 892, 999
BseJI	GATNNNNATC	1 cut(s)	972
BseMII	CTCAG	2 cut(s)	78, 129
BseNI	ACTGG	1 cut(s)	865
BseRI	GAGGAG	1 cut(s)	104
BseSI	GKGCMC	3 cut(s)	884, 1090, 1098
BseXI	GCAGC	2 cut(s)	829, 878
BseYI	CCCAGC	1 cut(s)	128
BsgI	GTGCAG	3 cut(s)	62, 493, 885
BshNI	GGYRCC	1 cut(s)	879
BsiHKAI	GWGCWC	5 cut(s)	341, 499, 615, 1090, 1098
BsiHKCI	CYCGRG	1 cut(s)	1032
BsiSI	CCGG	2 cut(s)	795, 884
BslFI	GGGAC	1 cut(s)	753
BsmAI	GTCTC	2 cut(s)	263, 392
BsmFI	GGGAC	1 cut(s)	753
Bso31I	GGTCTC	1 cut(s)	263
BsoBI	CYCGRG	1 cut(s)	1032
Bsp119I	TTCGAA	1 cut(s)	699
Bsp1286I	GDGCHC	7 cut(s)	225, 341, 499, 615, 884, 1090, 1098
Bsp143I	GATC	1 cut(s)	901
Bsp1720I	GCTNAGC	1 cut(s)	138
BspACI	CCGC	1 cut(s)	199
BspCNI	CTCAG	2 cut(s)	79, 130
BspLI	GGNNCC	2 cut(s)	197, 881
BspOI	GCTAGC	1 cut(s)	1107
BspT104I	TTCGAA	1 cut(s)	699
BspT107I	GGYRCC	1 cut(s)	879
BspTNI	GGTCTC	1 cut(s)	263
BsrI	ACTGG	1 cut(s)	865
BssECI	CCNNGG	1 cut(s)	1033
BssMI	GATC	1 cut(s)	901
BssSI	CACGAG	1 cut(s)	1091
Bst2BI	CACGAG	1 cut(s)	1091
Bst2UI	CCWGG	1 cut(s)	1100
Bst4CI	ACNGT	4 cut(s)	247, 547, 857, 1050
BstBAI	YACGTR	1 cut(s)	453
BstBI	TTCGAA	1 cut(s)	699
BstC8I	GCNNGC	5 cut(s)	126, 144, 376, 1029, 1105
BstDEI	CTNAG	2 cut(s)	87, 138
BstF5I	GGATG	6 cut(s)	40, 469, 679, 804, 892, 999
BstHHI	GCGC	2 cut(s)	168, 1076
BstKTI	GATC	1 cut(s)	904
BstMAI	GTCTC	2 cut(s)	263, 392
BstMBI	GATC	1 cut(s)	901
BstMWI	GCNNNNNNNGC	5 cut(s)	134, 143, 220, 345, 426
BstNI	CCWGG	1 cut(s)	1100
BstSCI	CCNGG	3 cut(s)	794, 882, 1098
BstSLI	GKGCMC	3 cut(s)	884, 1090, 1098
BstV1I	GCAGC	2 cut(s)	829, 878
BtsCI	GGATG	6 cut(s)	40, 469, 679, 804, 892, 999
BtsIMutI	CAGTG	1 cut(s)	1056
Cac8I	GCNNGC	5 cut(s)	126, 144, 376, 1029, 1105
CfoI	GCGC	2 cut(s)	168, 1076
CseI	GACGC	1 cut(s)	976
Csp6I	GTAC	2 cut(s)	46, 858
CviAII	CATG	7 cut(s)	202, 254, 302, 457, 685, 899, 1022
CviQI	GTAC	2 cut(s)	46, 858
DdeI	CTNAG	2 cut(s)	87, 138
DpnI	GATC	1 cut(s)	903
DpnII	GATC	1 cut(s)	901
Ecl136II	GAGCTC	1 cut(s)	497
Eco24I	GRGCYC	2 cut(s)	225, 499
Eco31I	GGTCTC	1 cut(s)	263
Eco53kI	GAGCTC	1 cut(s)	497
Eco88I	CYCGRG	1 cut(s)	1032
EcoICRI	GAGCTC	1 cut(s)	497
EcoRII	CCWGG	1 cut(s)	1098
EcoT38I	GRGCYC	2 cut(s)	225, 499
FaeI	CATG	7 cut(s)	205, 257, 305, 460, 688, 902, 1025
FaqI	GGGAC	1 cut(s)	753
FatI	CATG	7 cut(s)	201, 253, 301, 456, 684, 898, 1021
Fnu4HI	GCNGC	2 cut(s)	818, 867
FokI	GGATG	6 cut(s)	47, 476, 686, 811, 899, 986
FriOI	GRGCYC	2 cut(s)	225, 499
Fsp4HI	GCNGC	2 cut(s)	818, 867
FspBI	CTAG	1 cut(s)	1104
GlaI	GCGC	2 cut(s)	167, 1075
GluI	GCNGC	2 cut(s)	818, 867
GsaI	CCCAGC	1 cut(s)	132
HapII	CCGG	2 cut(s)	795, 884
HgaI	GACGC	1 cut(s)	976
HhaI	GCGC	2 cut(s)	168, 1076
Hin1II	CATG	7 cut(s)	205, 257, 305, 460, 688, 902, 1025
Hin6I	GCGC	2 cut(s)	166, 1074
HinP1I	GCGC	2 cut(s)	166, 1074
HindIII	AAGCTT	1 cut(s)	11
HinfI	GANTC	3 cut(s)	19, 696, 923
HpaII	CCGG	2 cut(s)	795, 884
HphI	GGTGA	3 cut(s)	121, 700, 769
Hpy166II	GTNNAC	4 cut(s)	536, 691, 1088, 1096
Hpy188I	TCNGA	3 cut(s)	88, 397, 908
Hpy188III	TCNNGA	2 cut(s)	185, 209
Hpy8I	GTNNAC	4 cut(s)	536, 691, 1088, 1096
HpyAV	CCTTC	1 cut(s)	521
HpyCH4III	ACNGT	4 cut(s)	247, 547, 857, 1050
HpyCH4IV	ACGT	2 cut(s)	452, 551
HpyF10VI	GCNNNNNNNGC	5 cut(s)	134, 143, 220, 345, 426
HpyF3I	CTNAG	2 cut(s)	87, 138
HpySE526I	ACGT	2 cut(s)	452, 551
Hsp92II	CATG	7 cut(s)	205, 257, 305, 460, 688, 902, 1025
HspAI	GCGC	2 cut(s)	166, 1074
Kzo9I	GATC	1 cut(s)	901
LmnI	GCTCC	1 cut(s)	797
Lsp1109I	GCAGC	2 cut(s)	829, 878
LweI	GCATC	3 cut(s)	42, 401, 958
MaeI	CTAG	1 cut(s)	1104
MaeII	ACGT	2 cut(s)	452, 551
MaeIII	GTNAC	5 cut(s)	232, 547, 757, 995, 1136
MalI	GATC	1 cut(s)	903
MboI	GATC	1 cut(s)	901
MboII	GAAGA	2 cut(s)	163, 713
MhlI	GDGCHC	7 cut(s)	225, 341, 499, 615, 884, 1090, 1098
MluCI	AATT	4 cut(s)	65, 436, 751, 1124
MlyI	GAGTC	1 cut(s)	28
MmeI	TCCRAC	1 cut(s)	970
MnlI	CCTC	4 cut(s)	64, 82, 802, 1028
MroXI	GAANNNNTTC	2 cut(s)	155, 695
MseI	TTAA	6 cut(s)	435, 555, 606, 933, 941, 978
MslI	CAYNNNNRTG	1 cut(s)	451
MspI	CCGG	2 cut(s)	795, 884
MspR9I	CCNGG	3 cut(s)	796, 884, 1100
MvaI	CCWGG	1 cut(s)	1100
MwoI	GCNNNNNNNGC	5 cut(s)	134, 143, 220, 345, 426
NciI	CCSGG	2 cut(s)	796, 884
NdeII	GATC	1 cut(s)	901
NheI	GCTAGC	1 cut(s)	1103
NlaIII	CATG	7 cut(s)	205, 257, 305, 460, 688, 902, 1025
NlaIV	GGNNCC	2 cut(s)	197, 881
NmuCI	GTSAC	2 cut(s)	757, 995
NspV	TTCGAA	1 cut(s)	699
PdmI	GAANNNNTTC	2 cut(s)	155, 695
PfeI	GAWTC	2 cut(s)	696, 923
PfoI	TCCNGGA	1 cut(s)	794
PkrI	GCNGC	2 cut(s)	819, 868
PleI	GAGTC	1 cut(s)	27
PpsI	GAGTC	1 cut(s)	27
Ppu21I	YACGTR	1 cut(s)	453
PsiI	TTATAA	1 cut(s)	101
Psp124BI	GAGCTC	1 cut(s)	499
Psp6I	CCWGG	1 cut(s)	1098
PspFI	CCCAGC	1 cut(s)	128
PspGI	CCWGG	1 cut(s)	1098
PspN4I	GGNNCC	2 cut(s)	197, 881
RsaI	GTAC	2 cut(s)	47, 859
RsaNI	GTAC	2 cut(s)	46, 858
RseI	CAYNNNNRTG	1 cut(s)	451
SacI	GAGCTC	1 cut(s)	499
SaqAI	TTAA	6 cut(s)	435, 555, 606, 933, 941, 978
SatI	GCNGC	2 cut(s)	818, 867
Sau3AI	GATC	1 cut(s)	901
ScaI	AGTACT	2 cut(s)	47, 859
SchI	GAGTC	1 cut(s)	28
ScrFI	CCNGG	3 cut(s)	796, 884, 1100
SduI	GDGCHC	7 cut(s)	225, 341, 499, 615, 884, 1090, 1098
SfaNI	GCATC	3 cut(s)	42, 401, 958
SfuI	TTCGAA	1 cut(s)	699
SmiMI	CAYNNNNRTG	1 cut(s)	451
Sse9I	AATT	4 cut(s)	65, 436, 751, 1124
SsiI	CCGC	1 cut(s)	199
SspMI	CTAG	1 cut(s)	1104
SstI	GAGCTC	1 cut(s)	499
StyD4I	CCNGG	3 cut(s)	794, 882, 1098
TaaI	ACNGT	4 cut(s)	247, 547, 857, 1050
TaiI	ACGT	2 cut(s)	455, 554
TaqI	TCGA	2 cut(s)	493, 699
TasI	AATT	4 cut(s)	65, 436, 751, 1124
TatI	WGTACW	2 cut(s)	45, 857
TfiI	GAWTC	2 cut(s)	696, 923
Tru1I	TTAA	6 cut(s)	435, 555, 606, 933, 941, 978
Tru9I	TTAA	6 cut(s)	435, 555, 606, 933, 941, 978
TscAI	CASTG	1 cut(s)	1063
TseFI	GTSAC	2 cut(s)	757, 995
TseI	GCWGC	2 cut(s)	817, 866
Tsp45I	GTSAC	2 cut(s)	757, 995
TspDTI	ATGAA	6 cut(s)	77, 430, 479, 673, 747, 972
TspRI	CASTG	1 cut(s)	1063
VneI	GTGCAC	2 cut(s)	1086, 1094
XapI	RAATTY	1 cut(s)	751
XmnI	GAANNNNTTC	2 cut(s)	155, 695
XspI	CTAG	1 cut(s)	1104
ZrmI	AGTACT	2 cut(s)	47, 859

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