Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0011389

Physical Location & Seq

Genomic Coordinates Forward (+)

14755815 .. 14757628

Gene Structure 1814 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000027746

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1335 bp

ATGCTTCTACTCTCCCTCCGTTCACCCAAAACTGTACCAACCCTCCCTTCAAAAACCCAATCACTCATCTCCTTCTTCTTCCACACCTCCCAACCCCAACCGCACCTCCACCACCCACAACCCCACCATGAAATCATTGGTTCTCCCTCCAGAGTCCAAAAGCTCATCGCTTCCCAATCCGACCCTCTCCTCGCCAAAGAGATCTTCGACTTCGCCGCCCGCCACCCCCATTTCCGTCACTCCTACTCCTCCTACTTCACCCTCATCCTCAAGCTCGCCCGCTCCCACTACTTCTCTCTCGTCGACCACCTCCTCCTCCGCCTCAAGTCCCAAACCTACTCCCCCTCCCCGGCTCTCTTCACCCACCTCATCAAAATCTACGGCGAGGCCCATTTGCCCCAGAAAGCCCTCAAAACCTTCTACACAATGTTCCAATTCGACTGCAAACCCTCTGCCAAGCACCTCAACCGGATTCTCGACATTCTGGTCTCTCACCGGAACTTCCTCCGGCCTGCTTTCGACGTTTTCAAGGACGCACACCGCCACGGGGTGGTGCCGGATACTAAATCCTACAACATTCTGATGAGGGCGTTCTGCTTGAATGGAGACCTCAGTGTTGCATACCACCTGTTCAACAAAATGTTTGAGAGAGAGGTTGTGCCGGATGTGGAGTCGTATCGGATTTTGATGCAGGGGCTGTGCAGGAAAGGGCAGGTGAACACTGCTGTAGATTTTCTGGAGGATATGATCAACAAAGGGTTTGTTCCGGATTCGTTGAGTTATACTAGCTTGTTGAATAGCTTGTGTAGGAAGAAACAGCTGCGGGAGGCGTATAAGCTTCTTTGTAGGATGAAGGTGAAGGGGTGTAACCCTGACATTGTGCATTACAATACTGTGATATTGGGGTTTTGTAGAGAAGGGAGGGCAGTGGATGCTTGTAAGGTTCTTGAGGATATGGCATCCAATGGGTGCTTGCCGAATTTGGTGTCGTATAGGACTTTGGTTCGTGGGTTGTCTGATCAGGGGATGCTTGATGAGGCGAAGAACTATATGGAGACAATGATATCAAAGGGGTTTTCTCCACATTTTTCGGTTATCCATGCTTTGGTTAAGGGGTTCTGCAATGTGGGTAGGGTCGAGGAAGCTTGTGGAGTTATGGAGGAGATACTAAGGCATGGGGAGGTTCCGCACAGGGAGACTTGGTTGACAATAGTTCCGGGGATATGCGAAGAGGTTGAGCTGGTGAGAATGGAAGAAGTTCTGAAGGAAATAATGAAGGAGAGGTTGAATGTTCCTTGGGATGTTGGAGGGTTGATTTTGCTTATCATTTACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000301 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0006139 GO:0006725 GO:0006807 GO:0006810 GO:0006890 GO:0006891 GO:0006996 GO:0007030 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010256 GO:0012505 GO:0016043 GO:0016070 GO:0016192 GO:0016787 GO:0016788 GO:0017119 GO:0022607 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048193 GO:0048213 GO:0051179 GO:0051234 GO:0065003 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0099023 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

COG4 PPR PPR_2 RINT1_TIP1

Protein Analysis

445

Amino Acids

50.85

Weight (kDa)

8.87

Isoelectric Point (pI)

44.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	93 - 213	9.9e-08	Fungal tetratrico peptide repeats
PPR_long	PF17177	135 - 266	5.8e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	156 - 199	3e-06	PPR repeat family
PPR_3	PF13812	175 - 231	6.7e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	183 - 214	4.9e-08	PPR repeat
PPR_2	PF13041	186 - 235	1.9e-14	PPR repeat family
PPR_1	PF12854	218 - 249	1.9e-08	PPR repeat
PPR_2	PF13041	225 - 270	3.9e-13	PPR repeat family
PPR_3	PF13812	246 - 304	8.4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	252 - 285	1.6e-08	PPR repeat
PPR_2	PF13041	256 - 293	5.7e-10	PPR repeat family
PPR	PF01535	260 - 289	5.1e-07	PPR repeat
PPR_long	PF17177	271 - 404	5e-07	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	287 - 319	1.1e-11	PPR repeat
PPR_2	PF13041	291 - 339	2.8e-14	PPR repeat family
PPR	PF01535	294 - 324	6.2e-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: OG0011389)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01400
fragaria_vesca	FvH4_7g17740 FvH4_7g17740 FvH4_7g17740
malus_domestica	MD01G1088700.v1.1
prunus_persica	Prupe.2G196300_v2.0.a1
pyrus_communis	pycom01g11310
rosa_chinensis	RchiOBHm_Chr1g0361141
rosa_laevigata	RLG00000027746
rosa_multiflora	Rmu_sc0002863.1_g000035 Rmu_sc0020096.1_g000003
rosa_roxburghii	Rroxscaffold_4G00295390
rosa_rugosa	Rorug01G0286000 Rorug02G0035000
rosa_samantha	Rh1AG297500 Rh1BG261600 Rh1CG278900 Rh1DG291400
rosa_wichuraiana	Rw1G026270 Rw1G026900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	703
AasI	GACNNNNNNGTC	1 cut(s)	485
Acc36I	ACCTGC	1 cut(s)	703
AccB1I	GGYRCC	1 cut(s)	553
AccB7I	CCANNNNNTGG	2 cut(s)	550, 1105
AccBSI	CCGCTC	1 cut(s)	282
AccI	GTMKAC	1 cut(s)	303
AccIII	TCCGGA	1 cut(s)	766
AciI	CCGC	8 cut(s)	101, 216, 220, 280, 319, 541, 823, 1187
AcsI	RAATTY	1 cut(s)	979
AcuI	CTGAAG	1 cut(s)	1283
AdeI	CACNNNGTG	1 cut(s)	550
AfaI	GTAC	1 cut(s)	36
AfiI	CCNNNNNNNGG	4 cut(s)	349, 547, 550, 1105
AgsI	TTSAA	6 cut(s)	51, 529, 601, 634, 796, 1288
AjuI	GAANNNNNNNTTGG	4 cut(s)	31, 63, 188, 220
AluBI	AGCT	8 cut(s)	163, 274, 789, 801, 820, 838, 1145, 1240
AluI	AGCT	8 cut(s)	163, 274, 789, 801, 820, 838, 1145, 1240
Alw26I	GTCTC	4 cut(s)	493, 600, 1049, 1190
AlwNI	CAGNNNCTG	1 cut(s)	697
Aor13HI	TCCGGA	1 cut(s)	766
AoxI	GGCC	2 cut(s)	387, 509
ApeKI	GCWGC	1 cut(s)	820
ApoI	RAATTY	1 cut(s)	979
ArsI	GACNNNNNNTTYG	2 cut(s)	971, 1003
Asp700I	GAANNNNTTC	1 cut(s)	1257
AspS9I	GGNCC	1 cut(s)	388
AsuC2I	CCSGG	2 cut(s)	350, 1218
AsuHPI	GGTGA	7 cut(s)	15, 250, 352, 485, 727, 868, 1255
BanI	GGYRCC	1 cut(s)	553
BbvI	GCAGC	1 cut(s)	807
BceAI	ACGGC	1 cut(s)	397
BciVI	GTATCC	1 cut(s)	553
BclI	TGATCA	2 cut(s)	747, 1018
BcnI	CCSGG	2 cut(s)	350, 1218
BcoDI	GTCTC	4 cut(s)	493, 600, 1049, 1190
BfaI	CTAG	1 cut(s)	786
BfmI	CTRYAG	1 cut(s)	726
BfuAI	ACCTGC	1 cut(s)	703
BfuI	GTATCC	1 cut(s)	553
BglII	AGATCT	1 cut(s)	201
BisI	GCNGC	2 cut(s)	216, 821
BlsI	GCNGC	2 cut(s)	217, 822
Bme1390I	CCNGG	2 cut(s)	350, 1218
BmgT120I	GGNCC	1 cut(s)	388
BmiI	GGNNCC	2 cut(s)	555, 1185
BmrFI	CCNGG	2 cut(s)	350, 1218
BmsI	GCATC	4 cut(s)	678, 922, 968, 1017
BpmI	CTGGAG	2 cut(s)	133, 758
BpuEI	CTTGAG	3 cut(s)	254, 308, 968
BpuMI	CCSGG	2 cut(s)	350, 1218
BsaI	GGTCTC	2 cut(s)	493, 600
BsaJI	CCNNGG	4 cut(s)	348, 544, 1217, 1295
BsaWI	WCCGGW	3 cut(s)	468, 495, 766
Bsc4I	CCNNNNNNNGG	4 cut(s)	349, 547, 550, 1105
Bse3DI	GCAATG	1 cut(s)	1129
BseAI	TCCGGA	1 cut(s)	766
BseDI	CCNNGG	4 cut(s)	348, 544, 1217, 1295
BseGI	GGATG	7 cut(s)	264, 670, 855, 937, 959, 1032, 1306
BseLI	CCNNNNNNNGG	4 cut(s)	349, 547, 550, 1105
BseMI	GCAATG	1 cut(s)	1129
BseMII	CTCAG	1 cut(s)	625
BseRI	GAGGAG	5 cut(s)	179, 238, 302, 305, 1175
BseXI	GCAGC	1 cut(s)	807
BsgI	GTGCAG	1 cut(s)	721
BshFI	GGCC	2 cut(s)	389, 511
BshNI	GGYRCC	1 cut(s)	553
BsiSI	CCGG	8 cut(s)	350, 469, 496, 508, 557, 662, 767, 1217
BslFI	GGGAC	1 cut(s)	313
BslI	CCNNNNNNNGG	4 cut(s)	349, 547, 550, 1105
BsmAI	GTCTC	4 cut(s)	493, 600, 1049, 1190
BsmFI	GGGAC	1 cut(s)	313
BsnI	GGCC	2 cut(s)	389, 511
Bso31I	GGTCTC	2 cut(s)	493, 600
Bsp13I	TCCGGA	1 cut(s)	766
Bsp143I	GATC	3 cut(s)	201, 747, 1018
BspACI	CCGC	8 cut(s)	101, 216, 220, 280, 319, 541, 823, 1187
BspANI	GGCC	2 cut(s)	389, 511
BspCNI	CTCAG	1 cut(s)	624
BspEI	TCCGGA	1 cut(s)	766
BspLI	GGNNCC	2 cut(s)	555, 1185
BspMI	ACCTGC	1 cut(s)	703
BspT107I	GGYRCC	1 cut(s)	553
BspTNI	GGTCTC	2 cut(s)	493, 600
BsrBI	CCGCTC	1 cut(s)	282
BsrDI	GCAATG	1 cut(s)	1129
BssECI	CCNNGG	4 cut(s)	348, 544, 1217, 1295
BssMI	GATC	3 cut(s)	201, 747, 1018
BssT1I	CCWWGG	1 cut(s)	1295
Bst4CI	ACNGT	2 cut(s)	34, 895
Bst6I	CTCTTC	2 cut(s)	362, 1224
BstAPI	GCANNNNNTGC	1 cut(s)	932
BstC8I	GCNNGC	5 cut(s)	220, 276, 280, 513, 974
BstDEI	CTNAG	2 cut(s)	611, 1169
BstDSI	CCRYGG	1 cut(s)	544
BstF5I	GGATG	7 cut(s)	264, 670, 855, 937, 959, 1032, 1306
BstKTI	GATC	3 cut(s)	204, 750, 1021
BstMAI	GTCTC	4 cut(s)	493, 600, 1049, 1190
BstMBI	GATC	3 cut(s)	201, 747, 1018
BstMWI	GCNNNNNNNGC	1 cut(s)	932
BstSCI	CCNGG	2 cut(s)	348, 1216
BstSFI	CTRYAG	1 cut(s)	726
BstV1I	GCAGC	1 cut(s)	807
BstX2I	RGATCY	1 cut(s)	201
BstYI	RGATCY	1 cut(s)	201
BsuI	GTATCC	1 cut(s)	553
BsuRI	GGCC	2 cut(s)	389, 511
BtgI	CCRYGG	1 cut(s)	544
BtgZI	GCGATG	1 cut(s)	151
BtsCI	GGATG	7 cut(s)	264, 670, 855, 937, 959, 1032, 1306
BtsI	GCAGTG	2 cut(s)	720, 933
BtsIMutI	CAGTG	3 cut(s)	619, 720, 933
BveI	ACCTGC	1 cut(s)	703
Cac8I	GCNNGC	5 cut(s)	220, 276, 280, 513, 974
CaiI	CAGNNNCTG	1 cut(s)	697
Cfr13I	GGNCC	1 cut(s)	388
CseI	GACGC	1 cut(s)	542
Csp6I	GTAC	1 cut(s)	35
CviAII	CATG	3 cut(s)	128, 1100, 1175
CviQI	GTAC	1 cut(s)	35
DdeI	CTNAG	2 cut(s)	611, 1169
DpnI	GATC	3 cut(s)	203, 749, 1020
DpnII	GATC	3 cut(s)	201, 747, 1018
DraIII	CACNNNGTG	1 cut(s)	550
DrdI	GACNNNNNNGTC	1 cut(s)	485
DseDI	GACNNNNNNGTC	1 cut(s)	485
Eam1104I	CTCTTC	2 cut(s)	362, 1224
EarI	CTCTTC	2 cut(s)	362, 1224
EciI	GGCGGA	1 cut(s)	308
Eco130I	CCWWGG	1 cut(s)	1295
Eco31I	GGTCTC	2 cut(s)	493, 600
Eco32I	GATATC	1 cut(s)	1065
Eco57I	CTGAAG	1 cut(s)	1283
EcoRV	GATATC	1 cut(s)	1065
EcoT14I	CCWWGG	1 cut(s)	1295
ErhI	CCWWGG	1 cut(s)	1295
FaeI	CATG	3 cut(s)	131, 1103, 1178
FaqI	GGGAC	1 cut(s)	313
FatI	CATG	3 cut(s)	127, 1099, 1174
FauI	CCCGC	3 cut(s)	227, 287, 816
FbaI	TGATCA	2 cut(s)	747, 1018
FblI	GTMKAC	1 cut(s)	303
Fnu4HI	GCNGC	2 cut(s)	216, 821
FokI	GGATG	7 cut(s)	251, 677, 862, 944, 946, 1039, 1313
Fsp4HI	GCNGC	2 cut(s)	216, 821
FspBI	CTAG	1 cut(s)	786
GluI	GCNGC	2 cut(s)	216, 821
GsuI	CTGGAG	2 cut(s)	133, 758
HaeIII	GGCC	2 cut(s)	389, 511
HapII	CCGG	8 cut(s)	350, 469, 496, 508, 557, 662, 767, 1217
HgaI	GACGC	1 cut(s)	542
Hin1II	CATG	3 cut(s)	131, 1103, 1178
HincII	GTYRAC	2 cut(s)	304, 1206
HindII	GTYRAC	2 cut(s)	304, 1206
HindIII	AAGCTT	2 cut(s)	836, 1143
HinfI	GANTC	4 cut(s)	153, 472, 671, 770
HpaII	CCGG	8 cut(s)	350, 469, 496, 508, 557, 662, 767, 1217
HphI	GGTGA	7 cut(s)	15, 250, 352, 485, 727, 868, 1255
Hpy166II	GTNNAC	4 cut(s)	23, 304, 718, 1206
Hpy188I	TCNGA	5 cut(s)	181, 582, 681, 1018, 1263
Hpy188III	TCNNGA	5 cut(s)	150, 476, 737, 767, 947
Hpy8I	GTNNAC	4 cut(s)	23, 304, 718, 1206
Hpy99I	CGWCG	2 cut(s)	305, 524
HpyAV	CCTTC	8 cut(s)	57, 82, 427, 847, 853, 911, 1258, 1270
HpyCH4III	ACNGT	2 cut(s)	34, 895
HpyCH4IV	ACGT	1 cut(s)	522
HpyCH4V	TGCA	6 cut(s)	444, 620, 691, 702, 883, 1122
HpyF10VI	GCNNNNNNNGC	1 cut(s)	932
HpyF3I	CTNAG	2 cut(s)	611, 1169
HpySE526I	ACGT	1 cut(s)	522
Hsp92II	CATG	3 cut(s)	131, 1103, 1178
Kpn2I	TCCGGA	1 cut(s)	766
Ksp22I	TGATCA	2 cut(s)	747, 1018
Kzo9I	GATC	3 cut(s)	201, 747, 1018
LmnI	GCTCC	1 cut(s)	287
Lsp1109I	GCAGC	1 cut(s)	807
LweI	GCATC	4 cut(s)	678, 922, 968, 1017
MaeI	CTAG	1 cut(s)	786
MaeII	ACGT	1 cut(s)	522
MaeIII	GTNAC	2 cut(s)	236, 866
MalI	GATC	3 cut(s)	203, 749, 1020
MbiI	CCGCTC	1 cut(s)	282
MboI	GATC	3 cut(s)	201, 747, 1018
MboII	GAAGA	8 cut(s)	67, 70, 196, 349, 823, 1054, 1241, 1265
MflI	RGATCY	1 cut(s)	201
MluCI	AATT	2 cut(s)	434, 979
MlyI	GAGTC	2 cut(s)	162, 680
MmeI	TCCRAC	2 cut(s)	204, 1285
MroI	TCCGGA	1 cut(s)	766
MroXI	GAANNNNTTC	1 cut(s)	1257
MseI	TTAA	1 cut(s)	1110
MslI	CAYNNNNRTG	1 cut(s)	581
MspA1I	CMGCKG	1 cut(s)	820
MspI	CCGG	8 cut(s)	350, 469, 496, 508, 557, 662, 767, 1217
MspR9I	CCNGG	2 cut(s)	350, 1218
MwoI	GCNNNNNNNGC	1 cut(s)	932
NciI	CCSGG	2 cut(s)	350, 1218
NdeII	GATC	3 cut(s)	201, 747, 1018
NlaIII	CATG	3 cut(s)	131, 1103, 1178
NlaIV	GGNNCC	2 cut(s)	555, 1185
NmuCI	GTSAC	1 cut(s)	236
PaqCI	CACCTGC	1 cut(s)	703
PdmI	GAANNNNTTC	1 cut(s)	1257
PfeI	GAWTC	2 cut(s)	472, 770
PflMI	CCANNNNNTGG	2 cut(s)	550, 1105
PkrI	GCNGC	2 cut(s)	217, 822
PleI	GAGTC	2 cut(s)	161, 679
PpsI	GAGTC	2 cut(s)	161, 679
PspN4I	GGNNCC	2 cut(s)	555, 1185
PspPI	GGNCC	1 cut(s)	388
PstNI	CAGNNNCTG	1 cut(s)	697
PsuI	RGATCY	1 cut(s)	201
PvuII	CAGCTG	1 cut(s)	820
RsaI	GTAC	1 cut(s)	36
RsaNI	GTAC	1 cut(s)	35
RseI	CAYNNNNRTG	1 cut(s)	581
SalI	GTCGAC	1 cut(s)	302
SaqAI	TTAA	1 cut(s)	1110
SatI	GCNGC	2 cut(s)	216, 821
Sau3AI	GATC	3 cut(s)	201, 747, 1018
Sau96I	GGNCC	1 cut(s)	388
SchI	GAGTC	2 cut(s)	162, 680
ScrFI	CCNGG	2 cut(s)	350, 1218
SfaNI	GCATC	4 cut(s)	678, 922, 968, 1017
SfcI	CTRYAG	1 cut(s)	726
SmiMI	CAYNNNNRTG	1 cut(s)	581
SmlI	CTYRAG	3 cut(s)	269, 323, 947
SmoI	CTYRAG	3 cut(s)	269, 323, 947
Sse9I	AATT	2 cut(s)	434, 979
SsiI	CCGC	8 cut(s)	101, 216, 220, 280, 319, 541, 823, 1187
SspMI	CTAG	1 cut(s)	786
StyD4I	CCNGG	2 cut(s)	348, 1216
StyI	CCWWGG	1 cut(s)	1295
TaaI	ACNGT	2 cut(s)	34, 895
TaiI	ACGT	1 cut(s)	525
TaqI	TCGA	6 cut(s)	207, 303, 438, 477, 519, 1137
TasI	AATT	2 cut(s)	434, 979
TauI	GCSGC	1 cut(s)	218
TfiI	GAWTC	2 cut(s)	472, 770
Tru1I	TTAA	1 cut(s)	1110
Tru9I	TTAA	1 cut(s)	1110
TscAI	CASTG	3 cut(s)	619, 727, 933
TseFI	GTSAC	1 cut(s)	236
TseI	GCWGC	1 cut(s)	820
Tsp45I	GTSAC	1 cut(s)	236
TspDTI	ATGAA	3 cut(s)	144, 866, 1289
TspGWI	ACGGA	2 cut(s)	8, 224
TspRI	CASTG	3 cut(s)	619, 727, 933
Van91I	CCANNNNNTGG	2 cut(s)	550, 1105
XapI	RAATTY	1 cut(s)	979
XcmI	CCANNNNNNNNNTGG	1 cut(s)	134
XmiI	GTMKAC	1 cut(s)	303
XmnI	GAANNNNTTC	1 cut(s)	1257
XspI	CTAG	1 cut(s)	786

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