Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0001276

Physical Location & Seq

Genomic Coordinates Forward (+)

72276081 .. 72277880

Gene Structure 1800 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000035825

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGGGTTTAGCTTCACATGGGAGAAACCTTGCATTTCAGATTGGTAATCCAAAATCAAGGCTTTTGATTCGGGTCCACTACTGCAGTTATAAATTAGAGAGTAAAAAGCAAGAGGATGATGAAATAGTGAGGGAAATCTGTACCATTCTGAAGCGAAGCAGAGAGTGGGAGTCCGTGTTGAGCTCATCAGGGTTTCCCAAGAAGCGAAACCCTTGTGTGCTTTTTGGGCATGCCCTTGGTGTGTTGGAGAGAATGGTTAGGACTCGGAAGTCGGCTTTAGAAGTTTTGGATTGTGTTGTTAGGTGTTTTAGAGAGTTTGAGGGGTCTGATATGGTGGTTTTTGAGATTTTGATTAATGTGTTTACGATGGGGGGTAATAGGATGAGGCTGTTCTGGAAAGTGTATGATGGGATGTTAGAGGCTAAGATTGAGCTGGATTTTTACACTTATAGCAATGTGATCAACGCACATTGTAAGTTTGGGGATGTTAGGCAGGGTAAGAGGCTACTGTTTGAGATGGTAGAGAAGGGTTGTAATCCTAATTTGAGTACCTTCAATGTGGTGATTGATGGATTGTGTAGAAGTAGGGCTGTTGATGAAGCCATTGAGCTGAAAAAATCGATGGTTGAGAAGGAATTGACACCTGATAGGTATACATATTCAGTACTAATTGATGGATTGTGCAGACAGAAGAGATCAGAAGAAGCAAAGTTGGTATTGAATGAGATGTATGATATAGGTTTGAATCCTGACCGTACCTTGTACATTACTTTGATTGATGGACACTTGAAAGAAAATAACGTGGATAAGGCCCTCAGGATCAAAGAAGAGATGGTCGCTCAAGGAGTTAAGTTGTGCGGTGTCACATATAATGTGATTTTTGCAGGGATCTGTAAAATAGGTAAGATGGAGAAGGCAGAATCTCTTTTGAATGAGATGAATGCTATGGGAATTGAACCTAATACCCAGACATATAACTATTTAATTGATGGGTACTGTCGAGAGCAAAATGTAAACAAGGCTTATGCATTAGTTAATGAGATGAAGCAAAGGTTGTAA

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

353

Amino Acids

40.44

Weight (kDa)

8.49

Isoelectric Point (pI)

34.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	110 - 159	4.4e-06	PPR repeat family
PPR_long	PF17177	130 - 224	4.5e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	135 - 190	2.2e-07	Pentatricopeptide repeat domain
PPR	PF01535	148 - 178	2.6e-06	PPR repeat
PPR_2	PF13041	149 - 194	1.8e-12	PPR repeat family
PPR_1	PF12854	176 - 209	7.1e-10	PPR repeat
PPR_2	PF13041	180 - 229	1.7e-16	PPR repeat family
PPR_1	PF12854	212 - 243	4.5e-09	PPR repeat
PPR	PF01535	218 - 247	9.1e-06	PPR repeat
PPR_3	PF13812	273 - 332	4.8e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	288 - 334	3.1e-17	PPR repeat family
PPR	PF01535	288 - 318	3.8e-06	PPR repeat
PPR_1	PF12854	316 - 349	1.9e-12	PPR repeat
PPR_2	PF13041	324 - 351	1.3e-07	PPR repeat family
PPR	PF01535	324 - 351	3.4e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AanI	TTATAA	1 cut(s)	90
AasI	GACNNNNNNGTC	1 cut(s)	268
AccI	GTMKAC	1 cut(s)	653
AciI	CCGC	1 cut(s)	858
AclWI	GGATC	2 cut(s)	827, 896
AcuI	CTGAAG	1 cut(s)	170
AfaI	GTAC	6 cut(s)	142, 550, 666, 757, 764, 995
AgsI	TTSAA	6 cut(s)	556, 721, 745, 790, 931, 956
AluBI	AGCT	4 cut(s)	11, 183, 433, 610
AluI	AGCT	4 cut(s)	11, 183, 433, 610
Alw21I	GWGCWC	1 cut(s)	185
AlwI	GGATC	2 cut(s)	827, 896
AoxI	GGCC	1 cut(s)	810
AseI	ATTAAT	1 cut(s)	354
AspS9I	GGNCC	2 cut(s)	73, 811
AsuHPI	GGTGA	1 cut(s)	574
AvaII	GGWCC	1 cut(s)	73
AxyI	CCTNAGG	1 cut(s)	815
BanII	GRGCYC	1 cut(s)	185
Bbv12I	GWGCWC	1 cut(s)	185
BclI	TGATCA	1 cut(s)	459
BfmI	CTRYAG	1 cut(s)	82
BmcAI	AGTACT	1 cut(s)	666
Bme18I	GGWCC	1 cut(s)	73
BmgT120I	GGNCC	2 cut(s)	73, 811
BmiI	GGNNCC	1 cut(s)	74
BpuEI	CTTGAG	1 cut(s)	825
Bsa29I	ATCGAT	1 cut(s)	620
BsaJI	CCNNGG	1 cut(s)	235
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bse21I	CCTNAGG	1 cut(s)	815
Bse3DI	GCAATG	1 cut(s)	460
BseCI	ATCGAT	1 cut(s)	620
BseDI	CCNNGG	1 cut(s)	235
BseGI	GGATG	4 cut(s)	121, 387, 417, 490
BseMI	GCAATG	1 cut(s)	460
BseMII	CTCAG	1 cut(s)	829
BsgI	GTGCAG	1 cut(s)	703
BshFI	GGCC	1 cut(s)	812
BshVI	ATCGAT	1 cut(s)	620
BsiHKAI	GWGCWC	1 cut(s)	185
BsmI	GAATGC	1 cut(s)	946
BsnI	GGCC	1 cut(s)	812
Bsp1286I	GDGCHC	1 cut(s)	185
Bsp1407I	TGTACA	1 cut(s)	762
Bsp143I	GATC	4 cut(s)	459, 695, 819, 888
BspACI	CCGC	1 cut(s)	858
BspANI	GGCC	1 cut(s)	812
BspCNI	CTCAG	1 cut(s)	828
BspDI	ATCGAT	1 cut(s)	620
BspLI	GGNNCC	1 cut(s)	74
BspMAI	CTGCAG	1 cut(s)	86
BspPI	GGATC	2 cut(s)	827, 896
BsrDI	GCAATG	1 cut(s)	460
BsrGI	TGTACA	1 cut(s)	762
BssECI	CCNNGG	1 cut(s)	235
BssMI	GATC	4 cut(s)	459, 695, 819, 888
BssNAI	GTATAC	1 cut(s)	654
BssT1I	CCWWGG	1 cut(s)	235
Bst1107I	GTATAC	1 cut(s)	654
Bst4CI	ACNGT	3 cut(s)	510, 755, 998
Bst6I	CTCTTC	2 cut(s)	686, 822
BstAUI	TGTACA	1 cut(s)	762
BstC8I	GCNNGC	1 cut(s)	231
BstDEI	CTNAG	2 cut(s)	423, 815
BstF5I	GGATG	4 cut(s)	121, 387, 417, 490
BstKTI	GATC	4 cut(s)	462, 698, 822, 891
BstMBI	GATC	4 cut(s)	459, 695, 819, 888
BstMWI	GCNNNNNNNGC	1 cut(s)	226
BstNSI	RCATGY	1 cut(s)	233
BstSFI	CTRYAG	1 cut(s)	82
BstX2I	RGATCY	1 cut(s)	888
BstYI	RGATCY	1 cut(s)	888
BstZ17I	GTATAC	1 cut(s)	654
Bsu15I	ATCGAT	1 cut(s)	620
Bsu36I	CCTNAGG	1 cut(s)	815
BsuRI	GGCC	1 cut(s)	812
BsuTUI	ATCGAT	1 cut(s)	620
BtsCI	GGATG	4 cut(s)	121, 387, 417, 490
Cac8I	GCNNGC	1 cut(s)	231
Cfr13I	GGNCC	2 cut(s)	73, 811
ClaI	ATCGAT	1 cut(s)	620
Csp6I	GTAC	6 cut(s)	141, 549, 665, 756, 763, 994
CviAII	CATG	2 cut(s)	17, 230
CviQI	GTAC	6 cut(s)	141, 549, 665, 756, 763, 994
DdeI	CTNAG	2 cut(s)	423, 815
DpnI	GATC	4 cut(s)	461, 697, 821, 890
DpnII	GATC	4 cut(s)	459, 695, 819, 888
DrdI	GACNNNNNNGTC	1 cut(s)	268
DseDI	GACNNNNNNGTC	1 cut(s)	268
Eam1104I	CTCTTC	2 cut(s)	686, 822
EarI	CTCTTC	2 cut(s)	686, 822
Ecl136II	GAGCTC	1 cut(s)	183
Eco130I	CCWWGG	1 cut(s)	235
Eco24I	GRGCYC	1 cut(s)	185
Eco47I	GGWCC	1 cut(s)	73
Eco53kI	GAGCTC	1 cut(s)	183
Eco57I	CTGAAG	1 cut(s)	170
Eco81I	CCTNAGG	1 cut(s)	815
EcoICRI	GAGCTC	1 cut(s)	183
EcoO109I	RGGNCCY	1 cut(s)	811
EcoT14I	CCWWGG	1 cut(s)	235
EcoT22I	ATGCAT	1 cut(s)	1030
EcoT38I	GRGCYC	1 cut(s)	185
ErhI	CCWWGG	1 cut(s)	235
FaeI	CATG	2 cut(s)	20, 233
FatI	CATG	2 cut(s)	16, 229
FbaI	TGATCA	1 cut(s)	459
FblI	GTMKAC	1 cut(s)	653
FokI	GGATG	4 cut(s)	128, 394, 424, 497
FriOI	GRGCYC	1 cut(s)	185
HaeIII	GGCC	1 cut(s)	812
Hin1II	CATG	2 cut(s)	20, 233
HinfI	GANTC	5 cut(s)	67, 170, 262, 745, 920
HphI	GGTGA	1 cut(s)	574
Hpy166II	GTNNAC	4 cut(s)	76, 363, 654, 1015
Hpy188I	TCNGA	5 cut(s)	39, 150, 267, 328, 700
Hpy188III	TCNNGA	4 cut(s)	394, 749, 817, 1001
Hpy8I	GTNNAC	4 cut(s)	76, 363, 654, 1015
HpyAV	CCTTC	4 cut(s)	520, 562, 625, 907
HpyCH4III	ACNGT	3 cut(s)	510, 755, 998
HpyCH4IV	ACGT	1 cut(s)	801
HpyCH4V	TGCA	5 cut(s)	32, 84, 684, 884, 1028
HpyF10VI	GCNNNNNNNGC	1 cut(s)	226
HpyF3I	CTNAG	2 cut(s)	423, 815
HpySE526I	ACGT	1 cut(s)	801
Hsp92II	CATG	2 cut(s)	20, 233
Ksp22I	TGATCA	1 cut(s)	459
Kzo9I	GATC	4 cut(s)	459, 695, 819, 888
LpnPI	CCDG	9 cut(s)	174, 379, 419, 479, 657, 762, 802, 870, 980
MaeII	ACGT	1 cut(s)	801
MaeIII	GTNAC	1 cut(s)	862
MalI	GATC	4 cut(s)	461, 697, 821, 890
MboI	GATC	4 cut(s)	459, 695, 819, 888
MboII	GAAGA	3 cut(s)	703, 713, 839
MflI	RGATCY	1 cut(s)	888
MhlI	GDGCHC	1 cut(s)	185
MluCI	AATT	6 cut(s)	92, 541, 635, 669, 951, 984
MlyI	GAGTC	2 cut(s)	179, 256
MmeI	TCCRAC	1 cut(s)	225
MnlI	CCTC	7 cut(s)	106, 123, 313, 378, 412, 495, 824
Mph1103I	ATGCAT	1 cut(s)	1030
MseI	TTAA	4 cut(s)	354, 849, 983, 1035
Mva1269I	GAATGC	1 cut(s)	946
MwoI	GCNNNNNNNGC	1 cut(s)	226
NdeII	GATC	4 cut(s)	459, 695, 819, 888
NlaIII	CATG	2 cut(s)	20, 233
NlaIV	GGNNCC	1 cut(s)	74
NmuCI	GTSAC	1 cut(s)	862
NsiI	ATGCAT	1 cut(s)	1030
NspI	RCATGY	1 cut(s)	233
PaeI	GCATGC	1 cut(s)	233
PctI	GAATGC	1 cut(s)	946
PfeI	GAWTC	3 cut(s)	67, 745, 920
PleI	GAGTC	2 cut(s)	178, 256
PpsI	GAGTC	2 cut(s)	178, 256
PshBI	ATTAAT	1 cut(s)	354
PsiI	TTATAA	1 cut(s)	90
Psp124BI	GAGCTC	1 cut(s)	185
PspN4I	GGNNCC	1 cut(s)	74
PspPI	GGNCC	2 cut(s)	73, 811
PstI	CTGCAG	1 cut(s)	86
PsuI	RGATCY	1 cut(s)	888
RsaI	GTAC	6 cut(s)	142, 550, 666, 757, 764, 995
RsaNI	GTAC	6 cut(s)	141, 549, 665, 756, 763, 994
SacI	GAGCTC	1 cut(s)	185
SaqAI	TTAA	4 cut(s)	354, 849, 983, 1035
Sau3AI	GATC	4 cut(s)	459, 695, 819, 888
Sau96I	GGNCC	2 cut(s)	73, 811
ScaI	AGTACT	1 cut(s)	666
SchI	GAGTC	2 cut(s)	179, 256
SduI	GDGCHC	1 cut(s)	185
SfcI	CTRYAG	1 cut(s)	82
SinI	GGWCC	1 cut(s)	73
SmlI	CTYRAG	1 cut(s)	840
SmoI	CTYRAG	1 cut(s)	840
SphI	GCATGC	1 cut(s)	233
Sse9I	AATT	6 cut(s)	92, 541, 635, 669, 951, 984
SsiI	CCGC	1 cut(s)	858
SstI	GAGCTC	1 cut(s)	185
StyI	CCWWGG	1 cut(s)	235
TaaI	ACNGT	3 cut(s)	510, 755, 998
TaiI	ACGT	1 cut(s)	804
TaqI	TCGA	2 cut(s)	620, 1000
TasI	AATT	6 cut(s)	92, 541, 635, 669, 951, 984
TatI	WGTACW	2 cut(s)	664, 762
TfiI	GAWTC	3 cut(s)	67, 745, 920
Tru1I	TTAA	4 cut(s)	354, 849, 983, 1035
Tru9I	TTAA	4 cut(s)	354, 849, 983, 1035
TseFI	GTSAC	1 cut(s)	862
Tsp45I	GTSAC	1 cut(s)	862
TspDTI	ATGAA	4 cut(s)	135, 612, 953, 1058
TspGWI	ACGGA	1 cut(s)	163
VpaK11BI	GGWCC	1 cut(s)	73
VspI	ATTAAT	1 cut(s)	354
XceI	RCATGY	1 cut(s)	233
XmiI	GTMKAC	1 cut(s)	653
ZrmI	AGTACT	1 cut(s)	666
Zsp2I	ATGCAT	1 cut(s)	1030

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