Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0008406

Physical Location & Seq

Genomic Coordinates Forward (+)

31745072 .. 31747289

Gene Structure 2218 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000008536

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1197 bp

ATGCTTTTAGTCTATATTGTCGAATGTAGCAATTATGACAAGGATTGGAAAGGTAGCTTCACTTACCTAACCCGCAATCAGGTGTTCAGATGGATGCAAAAACAGCGCTGGTATGTTGCGGATAATGGTGTTTATTCAAAACTGATCTCGGTTATGGGAAAGAAGGGACAAACACGGATGGCTATGTGGTTGTTCTCTGAGATGCGGAATAGTGGGTGCCGCCCTGATACTTCTGTTTATAATGCACTAATTTCAGCCCACCTTAACAGCAAGGACAAAGGGAAGGCGTTGGAGAAAGCGCTCGTGTACTTTAACAAGATGAAGGGAATGGAAAGGTGTCAACCTAACATTGTCACGTACAATATTCTCTTGAGAGCTTTTGCGCAGAGTCGAAATGTAGAAAAAGTCAATTCTTTGTTTAAAGATCTTGATGAGAGCATAGCTTCCCCTGATATATATACATACAATGGTGTAATGGATGCTTATGGGAAAAATGGGATGATCAGAGATATGGAATCTGTGCTTTCTCGCATGAAAAGTAATCAATGCAAGCCCGATACCATCACCTTCAACTTGTTGATTGATTCATACGGGAAGAAGCAGCAATTTGACAAGATGGAACAGGTATTTAAGAGCTTACTCCATTCCAAGGAGAGACCAACTCTCCCTACTTTTAATTCAATGATCATAAATTATGGGAAGGCAAGGCTCAAAGAGCAAGCAGAATCTGTGTTTAAGAAGATGATTGACATGAAATACTCACCTAGCTTCATTACATACGAGAGTCTTATCATGATGTATGGCTACTGTGACTCTGTTTCAAAGGCTAGGGAGATATTTGATGGGGTGGCTGAATCTGGACAGGAGATGAAGGTGTCAACGTTTAATGTTATGCTTGATGTATACTGCAGGAATGGTTTGCCCATGGAAGCAGATAAGCTTTTGCTGAGTGCAAATAGTATTGGGATACGCCCAAATGTATCTACGTATAAACTTCTGTATAAGGCTTACACTAAAGCTAACATGAAGGAGCTTCTAGACAAATTGCTAAAGTCCATGGACAAAGATGGTATTGTCCCTAATAAGAGGTTCTTTCTAGAGGCTTTGGGAGCATTTTTGTCTTCAACAGGGAGTCCAGAGTCTGGGAGTGCCTCAACAGGTTTGAGCAGGCCACAGGATGAGGTGCTGAAAATTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009451 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0031425 GO:0032501 GO:0032502 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:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 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 PPR_3

Protein Analysis

399

Amino Acids

45.47

Weight (kDa)

9.3

Isoelectric Point (pI)

30.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	44 - 87	5.4e-09	PPR repeat family
PPR_long	PF17177	54 - 186	7.1e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	64 - 127	5.9e-10	Pentatricopeptide repeat domain
PPR_2	PF13041	75 - 128	3.1e-10	PPR repeat family
PPR_3	PF13812	114 - 165	6.5e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	115 - 161	2.8e-10	PPR repeat family
PPR_3	PF13812	139 - 199	1.6e-10	Pentatricopeptide repeat domain
PPR_2	PF13041	150 - 198	1.6e-12	PPR repeat family
PPR	PF01535	153 - 183	1.9e-06	PPR repeat
PPR_2	PF13041	185 - 229	8.2e-07	PPR repeat family
PPR_2	PF13041	292 - 337	2.8e-07	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: OG0008406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G39620 AT4G39620
fragaria_vesca	FvH4_4g12030 FvH4_4g12030
malus_domestica	MD03G1187700.v1.1 MD11G1203200.v1.1
prunus_persica	Prupe.4G236100_v2.0.a1
pyrus_communis	pycom03g14050 pycom11g17630
rosa_chinensis	RchiOBHm_Chr4g0409671
rosa_laevigata	RLG00000008536
rosa_multiflora	Rmu_co8330861.1_g000001 Rmu_sc0008746.1_g000016 Rmu_sc0015305.1_g000009
rosa_roxburghii	Rroxscaffold_5G00354190
rosa_rugosa	Rorug04G0095900 Rorug04G0096000
rosa_samantha	Rh4AG157400 Rh4BG157000 Rh4CG167600 Rh4DG151400
rosa_wichuraiana	Rw4G012880 Rw4G012990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	240
Acc16I	TGCGCA	1 cut(s)	384
AccB1I	GGYRCC	1 cut(s)	216
AccB7I	CCANNNNNTGG	1 cut(s)	1142
AccI	GTMKAC	1 cut(s)	903
AciI	CCGC	4 cut(s)	73, 119, 205, 220
AclI	AACGTT	1 cut(s)	881
AcsI	RAATTY	1 cut(s)	1191
AfaI	GTAC	2 cut(s)	308, 359
AfeI	AGCGCT	2 cut(s)	107, 300
AfiI	CCNNNNNNNGG	3 cut(s)	79, 649, 1142
AgsI	TTSAA	5 cut(s)	138, 571, 681, 822, 1125
AluBI	AGCT	8 cut(s)	57, 377, 443, 636, 768, 940, 1019, 1033
AluI	AGCT	8 cut(s)	57, 377, 443, 636, 768, 940, 1019, 1033
Alw26I	GTCTC	1 cut(s)	649
AlwNI	CAGNNNCTG	2 cut(s)	728, 1142
Aor51HI	AGCGCT	2 cut(s)	107, 300
AoxI	GGCC	1 cut(s)	1169
ApeKI	GCWGC	1 cut(s)	601
ApoI	RAATTY	1 cut(s)	1191
AspLEI	GCGC	3 cut(s)	108, 301, 385
AsuHPI	GGTGA	2 cut(s)	556, 753
BaeI	ACNNNNGTAYC	2 cut(s)	219, 252
BanI	GGYRCC	1 cut(s)	216
BauI	CACGAG	1 cut(s)	302
BbsI	GAAGAC	1 cut(s)	1113
BbvI	GCAGC	1 cut(s)	613
BccI	CCATC	6 cut(s)	84, 172, 569, 610, 836, 1061
BciVI	GTATCC	1 cut(s)	960
BclI	TGATCA	2 cut(s)	501, 684
BcoDI	GTCTC	1 cut(s)	649
BfaI	CTAG	4 cut(s)	765, 828, 1037, 1097
BfmI	CTRYAG	1 cut(s)	907
BfoI	RGCGCY	2 cut(s)	109, 302
BfuI	GTATCC	1 cut(s)	960
BglII	AGATCT	1 cut(s)	424
BisI	GCNGC	2 cut(s)	220, 602
BlsI	GCNGC	2 cut(s)	221, 603
BmiI	GGNNCC	1 cut(s)	218
BmsI	GCATC	3 cut(s)	84, 192, 469
BpiI	GAAGAC	1 cut(s)	1113
BplI	GAGNNNNNCTC	2 cut(s)	646, 678
BpuEI	CTTGAG	1 cut(s)	391
BsaAI	YACGTR	2 cut(s)	357, 987
BsaI	GGTCTC	1 cut(s)	649
BsaJI	CCNNGG	3 cut(s)	648, 924, 1056
BsaXI	ACNNNNNCTCC	2 cut(s)	648, 678
Bsc4I	CCNNNNNNNGG	3 cut(s)	79, 649, 1142
BseDI	CCNNGG	3 cut(s)	648, 924, 1056
BseGI	GGATG	5 cut(s)	99, 183, 484, 504, 1183
BseLI	CCNNNNNNNGG	3 cut(s)	79, 649, 1142
BseMII	CTCAG	2 cut(s)	189, 938
BseXI	GCAGC	1 cut(s)	613
BshFI	GGCC	1 cut(s)	1171
BshNI	GGYRCC	1 cut(s)	216
BslFI	GGGAC	2 cut(s)	180, 1061
BslI	CCNNNNNNNGG	3 cut(s)	79, 649, 1142
BsmAI	GTCTC	1 cut(s)	649
BsmFI	GGGAC	2 cut(s)	180, 1061
BsnI	GGCC	1 cut(s)	1171
Bso31I	GGTCTC	1 cut(s)	649
Bsp143I	GATC	4 cut(s)	144, 424, 501, 684
Bsp19I	CCATGG	2 cut(s)	924, 1056
BspACI	CCGC	4 cut(s)	73, 119, 205, 220
BspANI	GGCC	1 cut(s)	1171
BspCNI	CTCAG	2 cut(s)	190, 939
BspHI	TCATGA	1 cut(s)	792
BspLI	GGNNCC	1 cut(s)	218
BspMAI	CTGCAG	1 cut(s)	911
BspT107I	GGYRCC	1 cut(s)	216
BspTNI	GGTCTC	1 cut(s)	649
BssECI	CCNNGG	3 cut(s)	648, 924, 1056
BssMI	GATC	4 cut(s)	144, 424, 501, 684
BssNAI	GTATAC	1 cut(s)	904
BssSI	CACGAG	1 cut(s)	302
BssT1I	CCWWGG	3 cut(s)	648, 924, 1056
Bst1107I	GTATAC	1 cut(s)	904
Bst2BI	CACGAG	1 cut(s)	302
Bst4CI	ACNGT	1 cut(s)	809
BstBAI	YACGTR	2 cut(s)	357, 987
BstC8I	GCNNGC	3 cut(s)	551, 720, 1169
BstDEI	CTNAG	2 cut(s)	198, 947
BstDSI	CCRYGG	2 cut(s)	924, 1056
BstF5I	GGATG	5 cut(s)	99, 183, 484, 504, 1183
BstH2I	RGCGCY	2 cut(s)	109, 302
BstHHI	GCGC	3 cut(s)	108, 301, 385
BstKTI	GATC	4 cut(s)	147, 427, 504, 687
BstMAI	GTCTC	1 cut(s)	649
BstMBI	GATC	4 cut(s)	144, 424, 501, 684
BstMWI	GCNNNNNNNGC	3 cut(s)	103, 715, 1109
BstSFI	CTRYAG	1 cut(s)	907
BstSNI	TACGTA	1 cut(s)	987
BstV1I	GCAGC	1 cut(s)	613
BstV2I	GAAGAC	1 cut(s)	1113
BstX2I	RGATCY	1 cut(s)	424
BstYI	RGATCY	1 cut(s)	424
BstZ17I	GTATAC	1 cut(s)	904
BsuI	GTATCC	1 cut(s)	960
BsuRI	GGCC	1 cut(s)	1171
BtgI	CCRYGG	2 cut(s)	924, 1056
BtsCI	GGATG	5 cut(s)	99, 183, 484, 504, 1183
Cac8I	GCNNGC	3 cut(s)	551, 720, 1169
CaiI	CAGNNNCTG	2 cut(s)	728, 1142
CciI	TCATGA	1 cut(s)	792
CfoI	GCGC	3 cut(s)	108, 301, 385
Csp6I	GTAC	2 cut(s)	307, 358
CviAII	CATG	6 cut(s)	532, 751, 793, 925, 1024, 1057
CviQI	GTAC	2 cut(s)	307, 358
DdeI	CTNAG	2 cut(s)	198, 947
DpnI	GATC	4 cut(s)	146, 426, 503, 686
DpnII	GATC	4 cut(s)	144, 424, 501, 684
DraI	TTTAAA	1 cut(s)	421
Eco105I	TACGTA	1 cut(s)	987
Eco130I	CCWWGG	3 cut(s)	648, 924, 1056
Eco31I	GGTCTC	1 cut(s)	649
Eco47III	AGCGCT	2 cut(s)	107, 300
EcoT14I	CCWWGG	3 cut(s)	648, 924, 1056
ErhI	CCWWGG	3 cut(s)	648, 924, 1056
FaeI	CATG	6 cut(s)	535, 754, 796, 928, 1027, 1060
FalI	AAGNNNNNCTT	2 cut(s)	1076, 1108
FaqI	GGGAC	2 cut(s)	180, 1061
FatI	CATG	6 cut(s)	531, 750, 792, 924, 1023, 1056
FauI	CCCGC	1 cut(s)	80
FbaI	TGATCA	2 cut(s)	501, 684
FblI	GTMKAC	1 cut(s)	903
Fnu4HI	GCNGC	2 cut(s)	220, 602
FokI	GGATG	5 cut(s)	106, 190, 491, 511, 1190
Fsp4HI	GCNGC	2 cut(s)	220, 602
FspBI	CTAG	4 cut(s)	765, 828, 1037, 1097
FspI	TGCGCA	1 cut(s)	384
GlaI	GCGC	3 cut(s)	107, 300, 384
GluI	GCNGC	2 cut(s)	220, 602
HaeII	RGCGCY	2 cut(s)	109, 302
HaeIII	GGCC	1 cut(s)	1171
HhaI	GCGC	3 cut(s)	108, 301, 385
Hin1II	CATG	6 cut(s)	535, 754, 796, 928, 1027, 1060
Hin6I	GCGC	3 cut(s)	106, 299, 383
HinP1I	GCGC	3 cut(s)	106, 299, 383
HincII	GTYRAC	2 cut(s)	341, 879
HindII	GTYRAC	2 cut(s)	341, 879
HindIII	AAGCTT	1 cut(s)	938
HinfI	GANTC	9 cut(s)	388, 515, 584, 725, 784, 812, 854, 1132, 1139
HphI	GGTGA	2 cut(s)	556, 753
Hpy166II	GTNNAC	4 cut(s)	307, 341, 879, 904
Hpy188I	TCNGA	3 cut(s)	89, 199, 506
Hpy188III	TCNNGA	7 cut(s)	370, 428, 793, 858, 1037, 1097, 1136
Hpy8I	GTNNAC	4 cut(s)	307, 341, 879, 904
HpyAV	CCTTC	7 cut(s)	157, 277, 316, 577, 694, 865, 1021
HpyCH4III	ACNGT	1 cut(s)	809
HpyCH4IV	ACGT	3 cut(s)	356, 881, 986
HpyCH4V	TGCA	5 cut(s)	97, 245, 549, 909, 953
HpyF10VI	GCNNNNNNNGC	3 cut(s)	103, 715, 1109
HpyF3I	CTNAG	2 cut(s)	198, 947
HpySE526I	ACGT	3 cut(s)	356, 881, 986
Hsp92II	CATG	6 cut(s)	535, 754, 796, 928, 1027, 1060
HspAI	GCGC	3 cut(s)	106, 299, 383
Ksp22I	TGATCA	2 cut(s)	501, 684
Kzo9I	GATC	4 cut(s)	144, 424, 501, 684
LmnI	GCTCC	2 cut(s)	1030, 1109
Lsp1109I	GCAGC	1 cut(s)	613
LweI	GCATC	3 cut(s)	84, 192, 469
MaeI	CTAG	4 cut(s)	765, 828, 1037, 1097
MaeII	ACGT	3 cut(s)	356, 881, 986
MaeIII	GTNAC	2 cut(s)	352, 809
MalI	GATC	4 cut(s)	146, 426, 503, 686
MboI	GATC	4 cut(s)	144, 424, 501, 684
MboII	GAAGA	3 cut(s)	607, 751, 1113
MflI	RGATCY	1 cut(s)	424
MluCI	AATT	8 cut(s)	31, 249, 409, 605, 676, 691, 1043, 1191
MlyI	GAGTC	5 cut(s)	397, 793, 806, 1141, 1148
MmeI	TCCRAC	1 cut(s)	270
MnlI	CCTC	4 cut(s)	1080, 1093, 1162, 1174
MseI	TTAA	7 cut(s)	264, 312, 420, 630, 675, 735, 885
MwoI	GCNNNNNNNGC	3 cut(s)	103, 715, 1109
NcoI	CCATGG	2 cut(s)	924, 1056
NdeII	GATC	4 cut(s)	144, 424, 501, 684
NlaIII	CATG	6 cut(s)	535, 754, 796, 928, 1027, 1060
NlaIV	GGNNCC	1 cut(s)	218
NmuCI	GTSAC	2 cut(s)	352, 809
NsbI	TGCGCA	1 cut(s)	384
PagI	TCATGA	1 cut(s)	792
PfeI	GAWTC	4 cut(s)	515, 584, 725, 854
PflMI	CCANNNNNTGG	1 cut(s)	1142
PkrI	GCNGC	2 cut(s)	221, 603
PleI	GAGTC	5 cut(s)	396, 792, 806, 1140, 1147
PpsI	GAGTC	5 cut(s)	396, 792, 806, 1140, 1147
Ppu21I	YACGTR	2 cut(s)	357, 987
PsiI	TTATAA	1 cut(s)	240
Psp1406I	AACGTT	1 cut(s)	881
PspN4I	GGNNCC	1 cut(s)	218
PstI	CTGCAG	1 cut(s)	911
PstNI	CAGNNNCTG	2 cut(s)	728, 1142
PsuI	RGATCY	1 cut(s)	424
RsaI	GTAC	2 cut(s)	308, 359
RsaNI	GTAC	2 cut(s)	307, 358
SaqAI	TTAA	7 cut(s)	264, 312, 420, 630, 675, 735, 885
SatI	GCNGC	2 cut(s)	220, 602
Sau3AI	GATC	4 cut(s)	144, 424, 501, 684
SchI	GAGTC	5 cut(s)	397, 793, 806, 1141, 1148
SfaNI	GCATC	3 cut(s)	84, 192, 469
SfcI	CTRYAG	1 cut(s)	907
SmlI	CTYRAG	1 cut(s)	370
SmoI	CTYRAG	1 cut(s)	370
SnaBI	TACGTA	1 cut(s)	987
Sse9I	AATT	8 cut(s)	31, 249, 409, 605, 676, 691, 1043, 1191
SsiI	CCGC	4 cut(s)	73, 119, 205, 220
SspI	AATATT	1 cut(s)	364
SspMI	CTAG	4 cut(s)	765, 828, 1037, 1097
StyI	CCWWGG	3 cut(s)	648, 924, 1056
TaaI	ACNGT	1 cut(s)	809
TaiI	ACGT	3 cut(s)	359, 884, 989
TaqI	TCGA	2 cut(s)	21, 391
TasI	AATT	8 cut(s)	31, 249, 409, 605, 676, 691, 1043, 1191
TatI	WGTACW	1 cut(s)	306
TauI	GCSGC	1 cut(s)	222
TfiI	GAWTC	4 cut(s)	515, 584, 725, 854
Tru1I	TTAA	7 cut(s)	264, 312, 420, 630, 675, 735, 885
Tru9I	TTAA	7 cut(s)	264, 312, 420, 630, 675, 735, 885
TseFI	GTSAC	2 cut(s)	352, 809
TseI	GCWGC	1 cut(s)	601
Tsp45I	GTSAC	2 cut(s)	352, 809
TspDTI	ATGAA	7 cut(s)	335, 548, 576, 760, 767, 884, 1040
TspGWI	ACGGA	1 cut(s)	190
Van91I	CCANNNNNTGG	1 cut(s)	1142
XapI	RAATTY	1 cut(s)	1191
XbaI	TCTAGA	2 cut(s)	1036, 1096
XmiI	GTMKAC	1 cut(s)	903
XspI	CTAG	4 cut(s)	765, 828, 1037, 1097

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