Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0018332

Physical Location & Seq

Genomic Coordinates Forward (+)

83344879 .. 83347820

Gene Structure 2942 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000022444

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1308 bp

ATGATGGTTGCATGCCTTTCATGTACTCCTGAGGTTCTACCCAAAAGTAGCCCACTCACCAGCTGTAGACAAACCAAATTTGGTTCTCAGGAAGCTCTCATTTTACTCCGAAACTGCACCACTTTCAATCATCTCAAGCAAATTCATGCTAAGATCATCCGCAGTAGTCTTTCTCGAGACCAATTAATTATTAGGAAACTCATCCGACTTTGCTCTTCCCATGGGAAAATGGACTATGCCACTCTTGTATTTCATCAAATTCAAGGTCACCTTACCTTTACTTGGAATCTAATGATTATGTCTTATACCATCAATGGGTGCTCACAGCAAGCCCTCCTTCTGTATAGCCATATGATACGCCAAGGAGTTCCACCTGATAAGTTCACCTTTCCATTTGTTATTAAAGCTTGCATTTCTTCTACTGCATTTGAACTAGGAAAAGTGGTTCATGGGCTAGTGTTCAAAAATAGTTTCTCAGGAGATATATTCATACAAAATACTTTGATGGACTTCTACTTCAAGTCCGGACAAATAGATTGTGGTTGCAGGGTGTTTGAAAAAATGCGGGTTCGCAGTGTGGTTTCATGGACAACCATGATTTCGGGGTTAGTTGCTTGTGGGAAGTTATGTGCTGCCCGAGGGGTATTTGAGCGAATGCCAGTTAAAAATGTTGTTTCTTGGACTGCAATGATCAATGGGTATGTCAAAAACCAACAACCTGAAGAGGCATTTGAACTGTTCTGGAGAATGCAGCTTGGTAATGTTAGGCCAAATGAGTTCACGCTGGTAAGCTTGCTGAAAGCATGTACCCAATTCGAAAGCCTCAAGTTGGCTAGACGGATTCATGACTTTGCTCTTAAAAACCGGTTTAAAATTGATGTTTTTCTTGGCACAGCACTTATTGATACTTATAGCAAATGTGGTAGTTTAGAGGATGCAAAGAGAGTGTTTGATAAGATGCAAATCAAGAGCTTGGCTACTTGGAATTCAATGATCACTAGCTTGGGTGTGCATGGGTTTGGAGAGGAAGCCCTTGCCCTTTTTGCAGAGATGGAGGAGGCAAATGTACGGCCAGATGCAATCACCTTTGTAGGTGTTTTATCTGCTTGTTTGCATACCAATAATCTGGAGGATGGTTGCAAACATTTCAAATACATGAGTGAACGTTATGGTATCACACCTATCTTAGAACATTGTACTTGCATGATTGAACTGTATAGCCGTGCTGACATGTTAGATGAGGTATGCAAATTAGTAGAAGCCATGCCTGTAAAGGCATCATCTTTAGTGTTGATCGCACGCCAGTGA

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_2

Protein Analysis

436

Amino Acids

49.16

Weight (kDa)

8.92

Isoelectric Point (pI)

43.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	92 - 137	1.3e-08	PPR repeat family
PPR_2	PF13041	222 - 269	2.4e-13	PPR repeat family
PPR	PF01535	225 - 251	5.6e-08	PPR repeat
PPR_2	PF13041	325 - 371	4.7e-09	PPR repeat family
PPR	PF01535	327 - 356	3.1e-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)

Image

Tree File

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Orthologous Genes (Group: OG0018332)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G26630
prunus_persica	Prupe.3G315700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0176761
rosa_laevigata	RLG00000022444
rosa_roxburghii	Rroxscaffold_2G00076180
rosa_samantha	Rh2AG675900 Rh2BG687000 Rh2CG650400 Rh2DG701300
rosa_wichuraiana	Rw2G055460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	67
AccIII	TCCGGA	1 cut(s)	524
AciI	CCGC	2 cut(s)	160, 565
AclI	AACGTT	1 cut(s)	1165
AcoI	YGGCCR	1 cut(s)	1070
AcsI	RAATTY	4 cut(s)	77, 141, 258, 985
AcuI	CTGAAG	1 cut(s)	741
AfaI	GTAC	4 cut(s)	25, 808, 1068, 1198
AfiI	CCNNNNNNNGG	3 cut(s)	282, 315, 829
AflIII	ACRYGT	1 cut(s)	1230
AgeI	ACCGGT	1 cut(s)	864
AleI	CACNNNNGTG	1 cut(s)	1303
AloI	GAACNNNNNNTCC	2 cut(s)	429, 461
AluBI	AGCT	7 cut(s)	63, 95, 407, 754, 792, 972, 1002
AluI	AGCT	7 cut(s)	63, 95, 407, 754, 792, 972, 1002
Alw21I	GWGCWC	1 cut(s)	323
Alw26I	GTCTC	1 cut(s)	171
Ama87I	CYCGRG	2 cut(s)	174, 636
Aor13HI	TCCGGA	1 cut(s)	524
AoxI	GGCC	2 cut(s)	767, 1070
ApeKI	GCWGC	2 cut(s)	632, 751
ApoI	RAATTY	4 cut(s)	77, 141, 258, 985
ArsI	GACNNNNNNTTYG	2 cut(s)	250, 282
AseI	ATTAAT	1 cut(s)	185
AsiGI	ACCGGT	1 cut(s)	864
AsuHPI	GGTGA	4 cut(s)	49, 260, 376, 1075
AsuII	TTCGAA	1 cut(s)	816
AvaI	CYCGRG	2 cut(s)	174, 636
AxyI	CCTNAGG	1 cut(s)	30
Bbv12I	GWGCWC	1 cut(s)	323
BbvI	GCAGC	2 cut(s)	619, 763
BccI	CCATC	4 cut(s)	317, 499, 1045, 1127
BceAI	ACGGC	2 cut(s)	1085, 1206
BclI	TGATCA	2 cut(s)	690, 993
BcoDI	GTCTC	1 cut(s)	171
BfaI	CTAG	4 cut(s)	434, 455, 834, 999
BfmI	CTRYAG	1 cut(s)	64
BisI	GCNGC	2 cut(s)	633, 752
BlsI	GCNGC	2 cut(s)	634, 753
BmeT110I	CYCGRG	2 cut(s)	174, 636
BmsI	GCATC	4 cut(s)	925, 948, 1066, 1286
BpmI	CTGGAG	2 cut(s)	763, 1148
Bpu14I	TTCGAA	1 cut(s)	816
BpuEI	CTTGAG	2 cut(s)	119, 809
BsaBI	GATNNNNATC	1 cut(s)	962
BsaI	GGTCTC	1 cut(s)	171
BsaJI	CCNNGG	3 cut(s)	220, 361, 637
BsaWI	WCCGGW	2 cut(s)	524, 864
Bsc4I	CCNNNNNNNGG	3 cut(s)	282, 315, 829
Bse118I	RCCGGY	1 cut(s)	864
Bse1I	ACTGG	2 cut(s)	659, 1303
Bse21I	CCTNAGG	1 cut(s)	30
Bse3DI	GCAATG	1 cut(s)	693
Bse8I	GATNNNNATC	1 cut(s)	962
BseAI	TCCGGA	1 cut(s)	524
BseDI	CCNNGG	3 cut(s)	220, 361, 637
BseGI	GGATG	4 cut(s)	156, 201, 940, 1138
BseJI	GATNNNNATC	1 cut(s)	962
BseLI	CCNNNNNNNGG	3 cut(s)	282, 315, 829
BseMI	GCAATG	1 cut(s)	693
BseMII	CTCAG	3 cut(s)	21, 101, 489
BseNI	ACTGG	2 cut(s)	659, 1303
BseRI	GAGGAG	1 cut(s)	1070
BseXI	GCAGC	2 cut(s)	619, 763
BsgI	GTGCAG	1 cut(s)	100
BshFI	GGCC	2 cut(s)	769, 1072
BshTI	ACCGGT	1 cut(s)	864
BsiHKAI	GWGCWC	1 cut(s)	323
BsiHKCI	CYCGRG	2 cut(s)	174, 636
BsiSI	CCGG	2 cut(s)	525, 865
BslI	CCNNNNNNNGG	3 cut(s)	282, 315, 829
BsmAI	GTCTC	1 cut(s)	171
BsmI	GAATGC	2 cut(s)	660, 753
BsnI	GGCC	2 cut(s)	769, 1072
Bso31I	GGTCTC	1 cut(s)	171
BsoBI	CYCGRG	2 cut(s)	174, 636
Bsp119I	TTCGAA	1 cut(s)	816
Bsp1286I	GDGCHC	1 cut(s)	323
Bsp13I	TCCGGA	1 cut(s)	524
Bsp143I	GATC	4 cut(s)	153, 690, 993, 1293
Bsp19I	CCATGG	1 cut(s)	220
BspACI	CCGC	2 cut(s)	160, 565
BspANI	GGCC	2 cut(s)	769, 1072
BspCNI	CTCAG	3 cut(s)	22, 100, 488
BspEI	TCCGGA	1 cut(s)	524
BspHI	TCATGA	1 cut(s)	844
BspQI	GCTCTTC	1 cut(s)	220
BspT104I	TTCGAA	1 cut(s)	816
BspTNI	GGTCTC	1 cut(s)	171
BsrDI	GCAATG	1 cut(s)	693
BsrFI	RCCGGY	1 cut(s)	864
BsrI	ACTGG	2 cut(s)	659, 1303
BssAI	RCCGGY	1 cut(s)	864
BssECI	CCNNGG	3 cut(s)	220, 361, 637
BssMI	GATC	4 cut(s)	153, 690, 993, 1293
BssT1I	CCWWGG	2 cut(s)	220, 361
Bst4CI	ACNGT	2 cut(s)	738, 1215
Bst6I	CTCTTC	2 cut(s)	220, 717
BstBI	TTCGAA	1 cut(s)	816
BstC8I	GCNNGC	5 cut(s)	13, 330, 409, 794, 1300
BstDEI	CTNAG	5 cut(s)	30, 87, 150, 475, 1186
BstDSI	CCRYGG	1 cut(s)	220
BstEII	GGTNACC	1 cut(s)	266
BstF5I	GGATG	4 cut(s)	156, 201, 940, 1138
BstKTI	GATC	4 cut(s)	156, 693, 996, 1296
BstMAI	GTCTC	1 cut(s)	171
BstMBI	GATC	4 cut(s)	153, 690, 993, 1293
BstMWI	GCNNNNNNNGC	1 cut(s)	1043
BstNSI	RCATGY	3 cut(s)	15, 807, 1234
BstPI	GGTNACC	1 cut(s)	266
BstSFI	CTRYAG	1 cut(s)	64
BstV1I	GCAGC	2 cut(s)	619, 763
BstXI	CCANNNNNNTGG	1 cut(s)	1126
Bsu36I	CCTNAGG	1 cut(s)	30
BsuRI	GGCC	2 cut(s)	769, 1072
BtgI	CCRYGG	1 cut(s)	220
BtsCI	GGATG	4 cut(s)	156, 201, 940, 1138
BtsI	GCAGTG	1 cut(s)	580
BtsIMutI	CAGTG	1 cut(s)	580
Cac8I	GCNNGC	5 cut(s)	13, 330, 409, 794, 1300
CciI	TCATGA	1 cut(s)	844
Cfr10I	RCCGGY	1 cut(s)	864
Csp6I	GTAC	4 cut(s)	24, 807, 1067, 1197
CspAI	ACCGGT	1 cut(s)	864
CviQI	GTAC	4 cut(s)	24, 807, 1067, 1197
DdeI	CTNAG	5 cut(s)	30, 87, 150, 475, 1186
DpnI	GATC	4 cut(s)	155, 692, 995, 1295
DpnII	GATC	4 cut(s)	153, 690, 993, 1293
DraI	TTTAAA	1 cut(s)	871
EaeI	YGGCCR	1 cut(s)	1070
Eam1104I	CTCTTC	2 cut(s)	220, 717
EarI	CTCTTC	2 cut(s)	220, 717
Eco130I	CCWWGG	2 cut(s)	220, 361
Eco31I	GGTCTC	1 cut(s)	171
Eco57I	CTGAAG	1 cut(s)	741
Eco81I	CCTNAGG	1 cut(s)	30
Eco88I	CYCGRG	2 cut(s)	174, 636
Eco91I	GGTNACC	1 cut(s)	266
EcoO65I	GGTNACC	1 cut(s)	266
EcoRI	GAATTC	1 cut(s)	985
EcoT14I	CCWWGG	2 cut(s)	220, 361
ErhI	CCWWGG	2 cut(s)	220, 361
FalI	AAGNNNNNCTT	6 cut(s)	255, 287, 321, 353, 371, 403
FauI	CCCGC	1 cut(s)	558
FauNDI	CATATG	1 cut(s)	351
FbaI	TGATCA	2 cut(s)	690, 993
FblI	GTMKAC	1 cut(s)	67
Fnu4HI	GCNGC	2 cut(s)	633, 752
FokI	GGATG	4 cut(s)	143, 188, 947, 1145
Fsp4HI	GCNGC	2 cut(s)	633, 752
FspBI	CTAG	4 cut(s)	434, 455, 834, 999
GluI	GCNGC	2 cut(s)	633, 752
GsuI	CTGGAG	2 cut(s)	763, 1148
HaeIII	GGCC	2 cut(s)	769, 1072
HapII	CCGG	2 cut(s)	525, 865
HindIII	AAGCTT	2 cut(s)	405, 790
HinfI	GANTC	2 cut(s)	286, 841
HpaII	CCGG	2 cut(s)	525, 865
HphI	GGTGA	4 cut(s)	49, 260, 376, 1075
Hpy166II	GTNNAC	4 cut(s)	68, 384, 780, 1163
Hpy188I	TCNGA	2 cut(s)	110, 206
Hpy8I	GTNNAC	4 cut(s)	68, 384, 780, 1163
HpyAV	CCTTC	1 cut(s)	347
HpyCH4III	ACNGT	2 cut(s)	738, 1215
HpyCH4IV	ACGT	1 cut(s)	1165
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1043
HpyF3I	CTNAG	5 cut(s)	30, 87, 150, 475, 1186
HpySE526I	ACGT	1 cut(s)	1165
Kpn2I	TCCGGA	1 cut(s)	524
Ksp22I	TGATCA	2 cut(s)	690, 993
Kzo9I	GATC	4 cut(s)	153, 690, 993, 1293
LguI	GCTCTTC	1 cut(s)	220
Lsp1109I	GCAGC	2 cut(s)	619, 763
LweI	GCATC	4 cut(s)	925, 948, 1066, 1286
MaeI	CTAG	4 cut(s)	434, 455, 834, 999
MaeII	ACGT	1 cut(s)	1165
MaeIII	GTNAC	1 cut(s)	266
MalI	GATC	4 cut(s)	155, 692, 995, 1295
MboI	GATC	4 cut(s)	153, 690, 993, 1293
MboII	GAAGA	3 cut(s)	207, 408, 734
MhlI	GDGCHC	1 cut(s)	323
MluCI	AATT	9 cut(s)	77, 141, 182, 186, 258, 812, 873, 985, 1250
MmeI	TCCRAC	1 cut(s)	229
MroI	TCCGGA	1 cut(s)	524
MseI	TTAA	5 cut(s)	185, 402, 663, 858, 870
MslI	CAYNNNNRTG	1 cut(s)	1303
MspA1I	CMGCKG	1 cut(s)	63
MspI	CCGG	2 cut(s)	525, 865
Mva1269I	GAATGC	2 cut(s)	660, 753
MwoI	GCNNNNNNNGC	1 cut(s)	1043
NcoI	CCATGG	1 cut(s)	220
NdeI	CATATG	1 cut(s)	351
NdeII	GATC	4 cut(s)	153, 690, 993, 1293
NmuCI	GTSAC	1 cut(s)	266
NspI	RCATGY	3 cut(s)	15, 807, 1234
NspV	TTCGAA	1 cut(s)	816
OliI	CACNNNNGTG	1 cut(s)	1303
PaeI	GCATGC	1 cut(s)	15
PaeR7I	CTCGAG	1 cut(s)	174
PagI	TCATGA	1 cut(s)	844
PciI	ACATGT	1 cut(s)	1230
PciSI	GCTCTTC	1 cut(s)	220
PctI	GAATGC	2 cut(s)	660, 753
PfeI	GAWTC	2 cut(s)	286, 841
PinAI	ACCGGT	1 cut(s)	864
PkrI	GCNGC	2 cut(s)	634, 753
PscI	ACATGT	1 cut(s)	1230
PshBI	ATTAAT	1 cut(s)	185
Psp1406I	AACGTT	1 cut(s)	1165
PspEI	GGTNACC	1 cut(s)	266
PvuII	CAGCTG	1 cut(s)	63
RsaI	GTAC	4 cut(s)	25, 808, 1068, 1198
RsaNI	GTAC	4 cut(s)	24, 807, 1067, 1197
RseI	CAYNNNNRTG	1 cut(s)	1303
SapI	GCTCTTC	1 cut(s)	220
SaqAI	TTAA	5 cut(s)	185, 402, 663, 858, 870
SatI	GCNGC	2 cut(s)	633, 752
Sau3AI	GATC	4 cut(s)	153, 690, 993, 1293
SduI	GDGCHC	1 cut(s)	323
SfaNI	GCATC	4 cut(s)	925, 948, 1066, 1286
SfcI	CTRYAG	1 cut(s)	64
Sfr274I	CTCGAG	1 cut(s)	174
SfuI	TTCGAA	1 cut(s)	816
SlaI	CTCGAG	1 cut(s)	174
SmiMI	CAYNNNNRTG	1 cut(s)	1303
SmlI	CTYRAG	3 cut(s)	134, 174, 824
SmoI	CTYRAG	3 cut(s)	134, 174, 824
SphI	GCATGC	1 cut(s)	15
Sse9I	AATT	9 cut(s)	77, 141, 182, 186, 258, 812, 873, 985, 1250
SsiI	CCGC	2 cut(s)	160, 565
SspMI	CTAG	4 cut(s)	434, 455, 834, 999
StyI	CCWWGG	2 cut(s)	220, 361
TaaI	ACNGT	2 cut(s)	738, 1215
TaiI	ACGT	1 cut(s)	1168
TaqI	TCGA	2 cut(s)	175, 816
TasI	AATT	9 cut(s)	77, 141, 182, 186, 258, 812, 873, 985, 1250
TatI	WGTACW	2 cut(s)	23, 1196
TfiI	GAWTC	2 cut(s)	286, 841
Tru1I	TTAA	5 cut(s)	185, 402, 663, 858, 870
Tru9I	TTAA	5 cut(s)	185, 402, 663, 858, 870
TscAI	CASTG	1 cut(s)	580
TseFI	GTSAC	1 cut(s)	266
TseI	GCWGC	2 cut(s)	632, 751
Tsp45I	GTSAC	1 cut(s)	266
TspDTI	ATGAA	7 cut(s)	9, 134, 242, 437, 478, 573, 833
TspGWI	ACGGA	1 cut(s)	853
TspRI	CASTG	1 cut(s)	580
VspI	ATTAAT	1 cut(s)	185
XapI	RAATTY	4 cut(s)	77, 141, 258, 985
XceI	RCATGY	3 cut(s)	15, 807, 1234
XhoI	CTCGAG	1 cut(s)	174
XmiI	GTMKAC	1 cut(s)	67
XspI	CTAG	4 cut(s)	434, 455, 834, 999

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