Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0009624

Physical Location & Seq

Genomic Coordinates Forward (+)

30698940 .. 30700990

Gene Structure 2051 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000023984

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1629 bp

ATGAGGAGGTTCCGAAAACCAAAGCTCATACCTTTACTGGAGCAAAAGCCTTCAACACTCCCACAGCTCTCTCCGATCCCAAACCCATCTCTCCCAAAACCCCCACAACACCCATCACCACCACCTTCCCCAATCCTCACTCTCTCCCACACCTCAAACCACACCCACCTCCTCACCTTCATCAAAACCCACATCAAAAACCCACCTCTCTCCCCCAAAACCCTCCTCCATTTCCTCAAATCCAAGCTCCACCACCACCCCACCTTCACCCATTTCGACTTCCACGTCTTCAACTGGGCCTCCTCCATTGACTCCTACCGCCATGACCACACAACCTTCGAATGGATGGTCTGCACTCTCGCAAACACTGACCGCTTCGCCGAGCTGGGCCATCTCATCGGTTTCATGGTTTCGAACCCATGCCCTTGTTCCGATGGTATTTTCTCTTGCCCAAGAACAGAACCCATTTTCAAATTTGCGATTAGCGCTTATTGTAGAGTAGGGAGATTGGATGATGCTGTTGGTGCTTTTGATTCCATGAGGAAATTGATTGATGGGAAGCCTAGTGTTGTGGTTTATAACATTGTGATTAATGGGTTTGTGAAATGTGGGGCACATGATAAGGCTTTGGGGTTTTATGAGAAGATGATGAGGGATAGAGTTAAGGCTGATGTGTTTACTTTCAATATTTTGATTAGTGGTTATTGTCGAAATTCGCAATTCGGGTTGGCTTTGGAGTTGTTTAAGGAGATGAGGGAGAAGGGGTGTAGTCCCAATGTGGTTAGTTTCAATACTTTGATTAAGGGGTTCTTTAGGGAGAGGAAGTTTGAGGATGGGATTGAGATGGCTTATGAGATGATTGAGTTTGGGTGCAAGTTTTCAAGTGTGACTTGTGAGATTTTGGTTGATGGACTTTGTAGAGAAGATCGGGTTGAGGAGGCGTGTGAGGTGTTGATTGATTTTTCGAGGAAAGGAGTGTTGCCTAGGTTGTATGATTATTATGGTCTTGTTGAAGTGCTTTGTTGGAAAAGAAATTCGGGGAGAGCGTTGGAGGTTGTGGATGAGCTGTGGAGGACAGGAAATGTTCCGAGCTTGATTGCTTGTACCACTTTGGTTGAGGGTTTGAGGAGGTCGGCGAGGATTGATGAAGCTTTAGAAGTGATGGAAAGGATGCTTGAAGAGGGTATGGTTCCAGATATTGTGACTTTTAATTGCCTCCTTCAAGATCTTTGCAATTTGGGTAGAACTGAGGAAGCTGATAACCTTAGGTTGTTGTCTTCGAGTAAAGGCTTGGAGCTAGACGGCATGGCGTATACCATTTTGGTGTCTGGGTATTCAAGAGAAGGGAAAAAGAAGGAGGTGAAAATGGTGGTGGATGAGATGCTGGATATGGGATTTATACCTGATCTTGCTACATATAATAGCAAGATTGGTTTTGATGGCCAGGGGTCCAAACAAAGCCCTTTTCCCAGCCTTTGCCTCAAAGGTTCAAGTCTTCAAGACACCGCCCCCACTTATAGGCCCGGTGGTGCTGTCAAGAATGATAAGATCCCTTCTGATGTGAGAAAGCTAGCAATGGAAGCTCTAGACACTTGTGGAAGAAGAGCTATTGGTGACATGGCCGTTTGA

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

543

Amino Acids

61.0

Weight (kDa)

7.51

Isoelectric Point (pI)

42.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	188 - 237	3.8e-16	PPR repeat family
PPR	PF01535	191 - 220	4.2e-06	PPR repeat
PPR_3	PF13812	214 - 268	3.9e-13	Pentatricopeptide repeat domain
PPR_1	PF12854	221 - 252	4.5e-10	PPR repeat
PPR_2	PF13041	224 - 270	2.7e-18	PPR repeat family
PPR	PF01535	226 - 256	3.6e-10	PPR repeat
PPR_1	PF12854	254 - 286	3e-07	PPR repeat
PPR_2	PF13041	258 - 307	7.9e-12	PPR repeat family
PPR_3	PF13812	352 - 408	1.5e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	363 - 412	2.1e-09	PPR repeat family
PPR_3	PF13812	428 - 478	4.4e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	437 - 475	1.4e-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

Tree File

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Orthologous Genes (Group: OG0009624)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36240
fragaria_vesca	FvH4_6g18780
prunus_persica	Prupe.7G109800_v2.0.a1
pyrus_communis	pycom04g01140 pycom15g30020
rosa_chinensis	RchiOBHm_Chr3g0473791
rosa_laevigata	RLG00000015254 RLG00000023984
rosa_multiflora	Rmu_co8122080.1_g000001 Rmu_sc0001293.1_g000012 Rmu_sc0007035.1_g000006 Rmu_sc0007035.1_g000008
rosa_roxburghii	Rroxscaffold_1G00029320 Rroxscaffold_6G00407800
rosa_rugosa	Rorug03G0135500
rosa_samantha	Rh3BG214200 Rh3BG214500 Rh3CG210900 Rh3CG211100 Rh3DG210100 Rh3DG210300
rosa_wichuraiana	Rw3G017010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	579
AasI	GACNNNNNNGTC	1 cut(s)	284
AccI	GTMKAC	1 cut(s)	1313
AciI	CCGC	3 cut(s)	319, 373, 1506
AclWI	GGATC	2 cut(s)	70, 1543
AcoI	YGGCCR	2 cut(s)	1441, 1620
AcsI	RAATTY	3 cut(s)	473, 712, 1033
AfaI	GTAC	1 cut(s)	1105
AfeI	AGCGCT	1 cut(s)	487
AfiI	CCNNNNNNNGG	2 cut(s)	342, 1518
AjiI	CACGTC	1 cut(s)	286
AjnI	CCWGG	1 cut(s)	1443
AlwI	GGATC	2 cut(s)	70, 1543
Aor51HI	AGCGCT	1 cut(s)	487
AoxI	GGCC	5 cut(s)	297, 388, 1441, 1520, 1620
ApoI	RAATTY	3 cut(s)	473, 712, 1033
ArsI	GACNNNNNNTTYG	2 cut(s)	333, 365
AseI	ATTAAT	1 cut(s)	591
AspA2I	CCTAGG	1 cut(s)	983
AspLEI	GCGC	1 cut(s)	488
AspS9I	GGNCC	4 cut(s)	297, 388, 1449, 1521
AsuC2I	CCSGG	1 cut(s)	1524
AsuHPI	GGTGA	5 cut(s)	108, 166, 259, 1372, 1625
AsuII	TTCGAA	2 cut(s)	339, 413
AsuNHI	GCTAGC	1 cut(s)	1570
AvaII	GGWCC	1 cut(s)	1449
AvrII	CCTAGG	1 cut(s)	983
AxyI	CCTNAGG	1 cut(s)	1265
BaeGI	GKGCMC	1 cut(s)	616
BalI	TGGCCA	1 cut(s)	1443
BbsI	GAAGAC	3 cut(s)	280, 1269, 1487
BceAI	ACGGC	2 cut(s)	1318, 1607
BciT130I	CCWGG	1 cut(s)	1445
BcnI	CCSGG	1 cut(s)	1524
BfaI	CTAG	5 cut(s)	564, 984, 1298, 1571, 1586
BfoI	RGCGCY	1 cut(s)	489
BglII	AGATCT	1 cut(s)	1225
BlnI	CCTAGG	1 cut(s)	983
Bme1390I	CCNGG	2 cut(s)	1445, 1524
Bme18I	GGWCC	1 cut(s)	1449
BmgBI	CACGTC	1 cut(s)	286
BmgT120I	GGNCC	4 cut(s)	297, 388, 1449, 1521
BmiI	GGNNCC	3 cut(s)	11, 1191, 1450
BmrFI	CCNGG	2 cut(s)	1445, 1524
BmrI	ACTGGG	1 cut(s)	304
BmsI	GCATC	3 cut(s)	505, 1161, 1371
BmtI	GCTAGC	1 cut(s)	1574
BmuI	ACTGGG	1 cut(s)	304
BpiI	GAAGAC	3 cut(s)	280, 1269, 1487
BpmI	CTGGAG	1 cut(s)	59
Bpu14I	TTCGAA	2 cut(s)	339, 413
BpuMI	CCSGG	1 cut(s)	1524
BsaJI	CCNNGG	2 cut(s)	983, 1444
BsaXI	ACNNNNNCTCC	6 cut(s)	284, 314, 749, 779, 809, 839
Bsc4I	CCNNNNNNNGG	2 cut(s)	342, 1518
Bse1I	ACTGG	2 cut(s)	42, 299
Bse21I	CCTNAGG	1 cut(s)	1265
Bse3DI	GCAATG	1 cut(s)	1581
BseBI	CCWGG	1 cut(s)	1445
BseDI	CCNNGG	2 cut(s)	983, 1444
BseGI	GGATG	6 cut(s)	351, 517, 838, 1066, 1176, 1381
BseLI	CCNNNNNNNGG	2 cut(s)	342, 1518
BseMI	GCAATG	1 cut(s)	1581
BseMII	CTCAG	1 cut(s)	1239
BseNI	ACTGG	2 cut(s)	42, 299
BseRI	GAGGAG	6 cut(s)	19, 161, 215, 292, 950, 1141
BseSI	GKGCMC	1 cut(s)	616
BseYI	CCCAGC	2 cut(s)	385, 1469
BsgI	GTGCAG	1 cut(s)	337
BshFI	GGCC	5 cut(s)	299, 390, 1443, 1522, 1622
BsiSI	CCGG	1 cut(s)	1524
BslFI	GGGAC	1 cut(s)	756
BslI	CCNNNNNNNGG	2 cut(s)	342, 1518
BsmFI	GGGAC	1 cut(s)	756
BsnI	GGCC	5 cut(s)	299, 390, 1443, 1522, 1622
Bsp119I	TTCGAA	2 cut(s)	339, 413
Bsp1286I	GDGCHC	1 cut(s)	616
Bsp143I	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
BspACI	CCGC	3 cut(s)	319, 373, 1506
BspANI	GGCC	5 cut(s)	299, 390, 1443, 1522, 1622
BspCNI	CTCAG	1 cut(s)	1240
BspLI	GGNNCC	3 cut(s)	11, 1191, 1450
BspOI	GCTAGC	1 cut(s)	1574
BspPI	GGATC	2 cut(s)	70, 1543
BspQI	GCTCTTC	1 cut(s)	1597
BspT104I	TTCGAA	2 cut(s)	339, 413
BsrDI	GCAATG	1 cut(s)	1581
BsrI	ACTGG	2 cut(s)	42, 299
BssECI	CCNNGG	2 cut(s)	983, 1444
BssMI	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
BssNAI	GTATAC	1 cut(s)	1314
BssT1I	CCWWGG	1 cut(s)	983
Bst1107I	GTATAC	1 cut(s)	1314
Bst2UI	CCWGG	1 cut(s)	1445
Bst6I	CTCTTC	2 cut(s)	1173, 1597
BstBI	TTCGAA	2 cut(s)	339, 413
BstC8I	GCNNGC	1 cut(s)	1572
BstDEI	CTNAG	2 cut(s)	1248, 1265
BstF5I	GGATG	6 cut(s)	351, 517, 838, 1066, 1176, 1381
BstH2I	RGCGCY	1 cut(s)	489
BstHHI	GCGC	1 cut(s)	488
BstKTI	GATC	5 cut(s)	78, 928, 1228, 1408, 1551
BstMBI	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
BstMWI	GCNNNNNNNGC	3 cut(s)	485, 524, 1580
BstNI	CCWGG	1 cut(s)	1445
BstSCI	CCNGG	2 cut(s)	1443, 1522
BstSLI	GKGCMC	1 cut(s)	616
BstV2I	GAAGAC	3 cut(s)	280, 1269, 1487
BstX2I	RGATCY	2 cut(s)	1225, 1548
BstYI	RGATCY	2 cut(s)	1225, 1548
BstZ17I	GTATAC	1 cut(s)	1314
Bsu36I	CCTNAGG	1 cut(s)	1265
BsuRI	GGCC	5 cut(s)	299, 390, 1443, 1522, 1622
BtrI	CACGTC	1 cut(s)	286
BtsCI	GGATG	6 cut(s)	351, 517, 838, 1066, 1176, 1381
BtsIMutI	CAGTG	1 cut(s)	366
Cac8I	GCNNGC	1 cut(s)	1572
CfoI	GCGC	1 cut(s)	488
Cfr13I	GGNCC	4 cut(s)	297, 388, 1449, 1521
Csp6I	GTAC	1 cut(s)	1104
CspCI	CAANNNNNGTGG	2 cut(s)	1096, 1131
CviAII	CATG	7 cut(s)	323, 406, 420, 538, 617, 1306, 1618
CviQI	GTAC	1 cut(s)	1104
DdeI	CTNAG	2 cut(s)	1248, 1265
DpnI	GATC	5 cut(s)	77, 927, 1227, 1407, 1550
DpnII	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
DrdI	GACNNNNNNGTC	1 cut(s)	284
DseDI	GACNNNNNNGTC	1 cut(s)	284
EaeI	YGGCCR	2 cut(s)	1441, 1620
Eam1104I	CTCTTC	2 cut(s)	1173, 1597
EarI	CTCTTC	2 cut(s)	1173, 1597
Eco130I	CCWWGG	1 cut(s)	983
Eco47I	GGWCC	1 cut(s)	1449
Eco47III	AGCGCT	1 cut(s)	487
Eco81I	CCTNAGG	1 cut(s)	1265
EcoRII	CCWGG	1 cut(s)	1443
EcoT14I	CCWWGG	1 cut(s)	983
ErhI	CCWWGG	1 cut(s)	983
FaeI	CATG	7 cut(s)	326, 409, 423, 541, 620, 1309, 1621
FalI	AAGNNNNNCTT	4 cut(s)	794, 826, 874, 906
FaqI	GGGAC	1 cut(s)	756
FatI	CATG	7 cut(s)	322, 405, 419, 537, 616, 1305, 1617
FblI	GTMKAC	1 cut(s)	1313
FokI	GGATG	6 cut(s)	358, 524, 845, 1073, 1183, 1388
FspBI	CTAG	5 cut(s)	564, 984, 1298, 1571, 1586
GlaI	GCGC	1 cut(s)	487
GsaI	CCCAGC	2 cut(s)	389, 1473
GsuI	CTGGAG	1 cut(s)	59
HaeII	RGCGCY	1 cut(s)	489
HaeIII	GGCC	5 cut(s)	299, 390, 1443, 1522, 1622
HapII	CCGG	1 cut(s)	1524
HhaI	GCGC	1 cut(s)	488
Hin1II	CATG	7 cut(s)	326, 409, 423, 541, 620, 1309, 1621
Hin6I	GCGC	1 cut(s)	486
HinP1I	GCGC	1 cut(s)	486
HindIII	AAGCTT	1 cut(s)	1149
HinfI	GANTC	2 cut(s)	311, 533
HpaII	CCGG	1 cut(s)	1524
HphI	GGTGA	5 cut(s)	108, 166, 259, 1372, 1625
Hpy166II	GTNNAC	2 cut(s)	678, 1314
Hpy188I	TCNGA	5 cut(s)	14, 75, 433, 1089, 1558
Hpy188III	TCNNGA	6 cut(s)	1193, 1223, 1338, 1499, 1537, 1586
Hpy8I	GTNNAC	2 cut(s)	678, 1314
HpyCH4IV	ACGT	1 cut(s)	285
HpyCH4V	TGCA	3 cut(s)	354, 873, 1233
HpyF10VI	GCNNNNNNNGC	3 cut(s)	485, 524, 1580
HpyF3I	CTNAG	2 cut(s)	1248, 1265
HpySE526I	ACGT	1 cut(s)	285
Hsp92II	CATG	7 cut(s)	326, 409, 423, 541, 620, 1309, 1621
HspAI	GCGC	1 cut(s)	486
Kzo9I	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
LguI	GCTCTTC	1 cut(s)	1597
LmnI	GCTCC	3 cut(s)	40, 252, 1294
LweI	GCATC	3 cut(s)	505, 1161, 1371
MaeI	CTAG	5 cut(s)	564, 984, 1298, 1571, 1586
MaeII	ACGT	1 cut(s)	285
MaeIII	GTNAC	3 cut(s)	886, 1201, 1613
MalI	GATC	5 cut(s)	77, 927, 1227, 1407, 1550
MboI	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
MboII	GAAGA	8 cut(s)	280, 655, 935, 1190, 1269, 1487, 1611, 1614
MflI	RGATCY	2 cut(s)	1225, 1548
MhlI	GDGCHC	1 cut(s)	616
MlsI	TGGCCA	1 cut(s)	1443
MluCI	AATT	7 cut(s)	473, 545, 712, 719, 1033, 1210, 1234
MluNI	TGGCCA	1 cut(s)	1443
MlyI	GAGTC	1 cut(s)	305
MmeI	TCCRAC	2 cut(s)	1004, 1029
Mox20I	TGGCCA	1 cut(s)	1443
MscI	TGGCCA	1 cut(s)	1443
MseI	TTAA	5 cut(s)	591, 663, 744, 801, 1209
MslI	CAYNNNNRTG	1 cut(s)	1322
Msp20I	TGGCCA	1 cut(s)	1443
MspI	CCGG	1 cut(s)	1524
MspR9I	CCNGG	2 cut(s)	1445, 1524
MvaI	CCWGG	1 cut(s)	1445
MwoI	GCNNNNNNNGC	3 cut(s)	485, 524, 1580
NciI	CCSGG	1 cut(s)	1524
NdeII	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
NheI	GCTAGC	1 cut(s)	1570
NlaIII	CATG	7 cut(s)	326, 409, 423, 541, 620, 1309, 1621
NlaIV	GGNNCC	3 cut(s)	11, 1191, 1450
NmeAIII	GCCGAG	1 cut(s)	406
NmuCI	GTSAC	3 cut(s)	886, 1201, 1613
NspV	TTCGAA	2 cut(s)	339, 413
PciSI	GCTCTTC	1 cut(s)	1597
PcsI	WCGNNNNNNNCGW	2 cut(s)	282, 1043
PfeI	GAWTC	1 cut(s)	533
PleI	GAGTC	1 cut(s)	305
PpsI	GAGTC	1 cut(s)	305
PshBI	ATTAAT	1 cut(s)	591
PsiI	TTATAA	1 cut(s)	579
Psp6I	CCWGG	1 cut(s)	1443
PspFI	CCCAGC	2 cut(s)	385, 1469
PspGI	CCWGG	1 cut(s)	1443
PspN4I	GGNNCC	3 cut(s)	11, 1191, 1450
PspPI	GGNCC	4 cut(s)	297, 388, 1449, 1521
PsuI	RGATCY	2 cut(s)	1225, 1548
RsaI	GTAC	1 cut(s)	1105
RsaNI	GTAC	1 cut(s)	1104
RseI	CAYNNNNRTG	1 cut(s)	1322
SapI	GCTCTTC	1 cut(s)	1597
SaqAI	TTAA	5 cut(s)	591, 663, 744, 801, 1209
Sau3AI	GATC	5 cut(s)	75, 925, 1225, 1405, 1548
Sau96I	GGNCC	4 cut(s)	297, 388, 1449, 1521
SchI	GAGTC	1 cut(s)	305
ScrFI	CCNGG	2 cut(s)	1445, 1524
SduI	GDGCHC	1 cut(s)	616
SfaNI	GCATC	3 cut(s)	505, 1161, 1371
SfuI	TTCGAA	2 cut(s)	339, 413
SinI	GGWCC	1 cut(s)	1449
SmiMI	CAYNNNNRTG	1 cut(s)	1322
Sse9I	AATT	7 cut(s)	473, 545, 712, 719, 1033, 1210, 1234
SsiI	CCGC	3 cut(s)	319, 373, 1506
SspI	AATATT	1 cut(s)	688
SspMI	CTAG	5 cut(s)	564, 984, 1298, 1571, 1586
StyD4I	CCNGG	2 cut(s)	1443, 1522
StyI	CCWWGG	1 cut(s)	983
TaiI	ACGT	1 cut(s)	288
TaqI	TCGA	6 cut(s)	276, 339, 413, 709, 965, 1280
TasI	AATT	7 cut(s)	473, 545, 712, 719, 1033, 1210, 1234
TfiI	GAWTC	1 cut(s)	533
Tru1I	TTAA	5 cut(s)	591, 663, 744, 801, 1209
Tru9I	TTAA	5 cut(s)	591, 663, 744, 801, 1209
TscAI	CASTG	1 cut(s)	373
TseFI	GTSAC	3 cut(s)	886, 1201, 1613
Tsp45I	GTSAC	3 cut(s)	886, 1201, 1613
TspDTI	ATGAA	3 cut(s)	169, 394, 1161
TspRI	CASTG	1 cut(s)	373
VpaK11BI	GGWCC	1 cut(s)	1449
VspI	ATTAAT	1 cut(s)	591
XapI	RAATTY	3 cut(s)	473, 712, 1033
XbaI	TCTAGA	1 cut(s)	1585
XmaJI	CCTAGG	1 cut(s)	983
XmiI	GTMKAC	1 cut(s)	1313
XspI	CTAG	5 cut(s)	564, 984, 1298, 1571, 1586

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