Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001363

Physical Location & Seq

Genomic Coordinates Forward (+)

59553394 .. 59554907

Gene Structure 1514 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030317

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGTACTTCAAATGCGGCGATGAGGGCGATGAATGCCAGGTGTTTGATAAAATGTTTGTGAGGAATTTGTACTCGTGGAACAATATGATATCTGGGAATGCGAAGATGAGGAATCTGAAGGAGGCCCGGAGCTTGTTTGAGAAAATGCCTGAGAGGGATGTTGTGTCCTGGAACACCATGGCTCATGGGCAGGTTTTGGTTGCTGGGTTTTTGTCGAATGTGGTGCTTTCGAGTTCAGTGGTGGATGCTTATGCCAAGTGTGGGGAGATGGCGGATGCCAGGAGATTGTTCGATGAGATGGCTGTGAGGGATGCTCTTGCTTGGACCACTCTGGTTTCGGGATATGCCAAATGGGGTGATATGAAATCAGCTAGTGAGTTGTTTGATCGGATGCCTGAGAAGAACCCGATTTCATGGACATCTATGATTTCGGGGTATGCTAGGAATGGATTGGGGCATGAAGCGCTTGCATTGTTTGCAGAGATGATGCTGTTTCAAGTCAGGCCTGATCATTTGGGGGCCGAAAGGCAGGTTTTCAAGCTCATGGGTGATAAGCAAGACATCGTGTTATGGAACACAATGATGTCTGCCTTAGCACAGCATGGTCATGGTATAGAGGCATTGCAGATGTTTGAAGACATGGTTAGTTCAGGTGTAAAGCCGGTTACGACCACCTTGGTTGTCATTCTCAATGCTTGTAGTCATTCTGGTCTAGTGCAGGAAGGGCGTAGGATTTTCAAGTCCATGACTGATGATTATGGCATTGTCCCCGATGAGGAACATTATGCATGCTTAATTGATCTCTTGGGTCGAGCTGGATGTTTTGATGAGTTGATGAACCAGCTCGAAAATATGCCATACCGGCTACATCCTCTGAAAGAGGAAATATACTCAGTTTTGAAACAGTTATCTGACCAGATGGAAGAAGAGGCTTCAGTAACTAACGCCAAGAACTAG

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

319

Amino Acids

35.89

Weight (kDa)

5.11

Isoelectric Point (pI)

41.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	24 - 53	4.2e-07	PPR repeat
PPR	PF01535	107 - 135	4.1e-07	PPR repeat
PPR_2	PF13041	135 - 171	5.2e-06	PPR repeat family
PPR	PF01535	137 - 163	2.9e-08	PPR repeat
PPR_2	PF13041	187 - 234	2.3e-10	PPR repeat family
PPR	PF01535	189 - 219	3.6e-08	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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0001363)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21090
fragaria_vesca	FvH4_1g26660
malus_domestica	MD05G1117900.v1.1 MD10G1120900.v1.1
prunus_persica	Prupe.8G162400_v2.0.a1
pyrus_communis	pycom05g11190 pycom10g10410 pycom10g10420
rosa_chinensis	RchiOBHm_Chr1g0323421 RchiOBHm_Chr1g0323511 RchiOBHm_Chr1g0323621 RchiOBHm_Chr1g0323681 RchiOBHm_Chr1g0323771
rosa_laevigata	RLG00000030297 RLG00000030299 RLG00000030300 RLG00000030302 RLG00000030317 RLG00000030324
rosa_multiflora	Rmu_sc0000252.1_g000001 Rmu_sc0000252.1_g000002 Rmu_sc0000252.1_g000009 Rmu_sc0000252.1_g000012 Rmu_sc0000252.1_g000023 Rmu_sc0000252.1_g000030 Rmu_sc0000804.1_g000006 Rmu_sc0002634.1_g000016 Rmu_sc0002634.1_g000019 Rmu_sc0008902.1_g000002 Rmu_sc0036879.1_g000001 Rmu_sc0036879.1_g000002
rosa_roxburghii	Rroxscaffold_4G00326420 Rroxscaffold_4G00326490 Rroxscaffold_4G00326520 Rroxscaffold_4G00326590
rosa_rugosa	Rorug01G0038100 Rorug01G0038200 Rorug01G0038300 Rorug01G0039100.1 Rorug01G0039200 Rorug01G0039500
rosa_samantha	Rh1AG055800 Rh1AG055900 Rh1AG056300 Rh1AG056400 Rh1AG056500 Rh1AG056700 Rh1BG047700 Rh1CG056700 Rh1CG058000 Rh1DG061800
rosa_wichuraiana	Rw1G004810 Rw1G004820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	181, 520
AciI	CCGC	2 cut(s)	15, 272
AcsI	RAATTY	1 cut(s)	64
AcuI	CTGAAG	2 cut(s)	137, 918
AfaI	GTAC	2 cut(s)	5, 71
AfeI	AGCGCT	1 cut(s)	465
AfiI	CCNNNNNNNGG	2 cut(s)	261, 775
AgsI	TTSAA	6 cut(s)	10, 497, 538, 635, 739, 901
AjnI	CCWGG	3 cut(s)	36, 167, 278
AluBI	AGCT	5 cut(s)	132, 371, 541, 815, 844
AluI	AGCT	5 cut(s)	132, 371, 541, 815, 844
Aor51HI	AGCGCT	1 cut(s)	465
AoxI	GGCC	3 cut(s)	123, 503, 519
ApoI	RAATTY	1 cut(s)	64
AspLEI	GCGC	1 cut(s)	466
AspS9I	GGNCC	3 cut(s)	124, 324, 519
AsuC2I	CCSGG	1 cut(s)	127
AsuHPI	GGTGA	2 cut(s)	368, 560
AvaII	GGWCC	1 cut(s)	324
BauI	CACGAG	1 cut(s)	73
BbsI	GAAGAC	1 cut(s)	642
BccI	CCATC	3 cut(s)	262, 292, 913
BcgI	CGANNNNNNTGC	2 cut(s)	205, 239
BciT130I	CCWGG	3 cut(s)	38, 169, 280
BclI	TGATCA	1 cut(s)	508
BcnI	CCSGG	1 cut(s)	127
BfaI	CTAG	4 cut(s)	372, 441, 713, 955
BfoI	RGCGCY	1 cut(s)	467
BfuAI	ACCTGC	2 cut(s)	181, 520
BglI	GCCNNNNNGGC	1 cut(s)	862
BisI	GCNGC	1 cut(s)	16
BlsI	GCNGC	1 cut(s)	17
Bme1390I	CCNGG	4 cut(s)	38, 127, 169, 280
Bme18I	GGWCC	1 cut(s)	324
BmgT120I	GGNCC	3 cut(s)	124, 324, 519
BmiI	GGNNCC	1 cut(s)	520
BmrFI	CCNGG	4 cut(s)	38, 127, 169, 280
BmsI	GCATC	5 cut(s)	235, 265, 301, 381, 477
BpiI	GAAGAC	1 cut(s)	642
BplI	GAGNNNNNCTC	2 cut(s)	298, 330
Bpu10I	CCTNAGC	1 cut(s)	592
BpuMI	CCSGG	1 cut(s)	127
BsaJI	CCNNGG	2 cut(s)	177, 675
Bsc4I	CCNNNNNNNGG	2 cut(s)	261, 775
Bse118I	RCCGGY	2 cut(s)	661, 861
Bse3DI	GCAATG	1 cut(s)	620
BseBI	CCWGG	3 cut(s)	38, 169, 280
BseDI	CCNNGG	2 cut(s)	177, 675
BseGI	GGATG	7 cut(s)	163, 250, 280, 316, 396, 824, 868
BseLI	CCNNNNNNNGG	2 cut(s)	261, 775
BseMI	GCAATG	1 cut(s)	620
BseMII	CTCAG	3 cut(s)	141, 387, 906
BseYI	CCCAGC	1 cut(s)	203
BsgI	GTGCAG	1 cut(s)	737
BshFI	GGCC	3 cut(s)	125, 505, 521
BsiSI	CCGG	3 cut(s)	127, 662, 862
BslFI	GGGAC	1 cut(s)	752
BslI	CCNNNNNNNGG	2 cut(s)	261, 775
BsmFI	GGGAC	1 cut(s)	752
BsmI	GAATGC	2 cut(s)	38, 103
BsnI	GGCC	3 cut(s)	125, 505, 521
Bsp143I	GATC	3 cut(s)	385, 508, 799
Bsp19I	CCATGG	1 cut(s)	177
BspACI	CCGC	2 cut(s)	15, 272
BspANI	GGCC	3 cut(s)	125, 505, 521
BspCNI	CTCAG	3 cut(s)	142, 388, 905
BspLI	GGNNCC	1 cut(s)	520
BspMI	ACCTGC	2 cut(s)	181, 520
BsrDI	GCAATG	1 cut(s)	620
BsrFI	RCCGGY	2 cut(s)	661, 861
BssAI	RCCGGY	2 cut(s)	661, 861
BssECI	CCNNGG	2 cut(s)	177, 675
BssMI	GATC	3 cut(s)	385, 508, 799
BssSI	CACGAG	1 cut(s)	73
BssT1I	CCWWGG	2 cut(s)	177, 675
Bst2BI	CACGAG	1 cut(s)	73
Bst2UI	CCWGG	3 cut(s)	38, 169, 280
Bst4CI	ACNGT	1 cut(s)	906
Bst6I	CTCTTC	1 cut(s)	921
BstAPI	GCANNNNNTGC	1 cut(s)	476
BstC8I	GCNNGC	2 cut(s)	468, 790
BstDEI	CTNAG	4 cut(s)	150, 396, 592, 892
BstDSI	CCRYGG	1 cut(s)	177
BstF5I	GGATG	7 cut(s)	163, 250, 280, 316, 396, 824, 868
BstH2I	RGCGCY	1 cut(s)	467
BstHHI	GCGC	1 cut(s)	466
BstKTI	GATC	3 cut(s)	388, 511, 802
BstMBI	GATC	3 cut(s)	385, 508, 799
BstMWI	GCNNNNNNNGC	6 cut(s)	24, 33, 463, 476, 724, 862
BstNI	CCWGG	3 cut(s)	38, 169, 280
BstNSI	RCATGY	1 cut(s)	792
BstSCI	CCNGG	4 cut(s)	36, 125, 167, 278
BstV2I	GAAGAC	1 cut(s)	642
BsuRI	GGCC	3 cut(s)	125, 505, 521
BtgI	CCRYGG	1 cut(s)	177
BtgZI	GCGATG	2 cut(s)	33, 42
BtsCI	GGATG	7 cut(s)	163, 250, 280, 316, 396, 824, 868
BtsIMutI	CAGTG	1 cut(s)	243
BveI	ACCTGC	2 cut(s)	181, 520
Cac8I	GCNNGC	2 cut(s)	468, 790
CfoI	GCGC	1 cut(s)	466
Cfr10I	RCCGGY	2 cut(s)	661, 861
Cfr13I	GGNCC	3 cut(s)	124, 324, 519
Csp6I	GTAC	2 cut(s)	4, 70
CspCI	CAANNNNNGTGG	2 cut(s)	661, 696
CviQI	GTAC	2 cut(s)	4, 70
DdeI	CTNAG	4 cut(s)	150, 396, 592, 892
DpnI	GATC	3 cut(s)	387, 510, 801
DpnII	GATC	3 cut(s)	385, 508, 799
Eam1104I	CTCTTC	1 cut(s)	921
EarI	CTCTTC	1 cut(s)	921
EciI	GGCGGA	1 cut(s)	287
Eco130I	CCWWGG	2 cut(s)	177, 675
Eco147I	AGGCCT	1 cut(s)	505
Eco32I	GATATC	1 cut(s)	90
Eco47I	GGWCC	1 cut(s)	324
Eco47III	AGCGCT	1 cut(s)	465
Eco57I	CTGAAG	2 cut(s)	137, 918
EcoRII	CCWGG	3 cut(s)	36, 167, 278
EcoRV	GATATC	1 cut(s)	90
EcoT14I	CCWWGG	2 cut(s)	177, 675
EcoT22I	ATGCAT	1 cut(s)	790
ErhI	CCWWGG	2 cut(s)	177, 675
FaqI	GGGAC	1 cut(s)	752
FbaI	TGATCA	1 cut(s)	508
Fnu4HI	GCNGC	1 cut(s)	16
FokI	GGATG	7 cut(s)	170, 257, 287, 323, 403, 831, 855
Fsp4HI	GCNGC	1 cut(s)	16
FspBI	CTAG	4 cut(s)	372, 441, 713, 955
GlaI	GCGC	1 cut(s)	465
GluI	GCNGC	1 cut(s)	16
GsaI	CCCAGC	1 cut(s)	207
HaeII	RGCGCY	1 cut(s)	467
HaeIII	GGCC	3 cut(s)	125, 505, 521
HapII	CCGG	3 cut(s)	127, 662, 862
HhaI	GCGC	1 cut(s)	466
Hin6I	GCGC	1 cut(s)	464
HinP1I	GCGC	1 cut(s)	464
HinfI	GANTC	1 cut(s)	112
HpaII	CCGG	3 cut(s)	127, 662, 862
HphI	GGTGA	2 cut(s)	368, 560
Hpy188I	TCNGA	4 cut(s)	117, 390, 876, 913
Hpy188III	TCNNGA	1 cut(s)	339
HpyAV	CCTTC	2 cut(s)	112, 716
HpyCH4III	ACNGT	1 cut(s)	906
HpyCH4V	TGCA	5 cut(s)	470, 479, 625, 718, 788
HpyF10VI	GCNNNNNNNGC	6 cut(s)	24, 33, 463, 476, 724, 862
HpyF3I	CTNAG	4 cut(s)	150, 396, 592, 892
HspAI	GCGC	1 cut(s)	464
Ksp22I	TGATCA	1 cut(s)	508
Kzo9I	GATC	3 cut(s)	385, 508, 799
LmnI	GCTCC	1 cut(s)	129
LweI	GCATC	5 cut(s)	235, 265, 301, 381, 477
MaeI	CTAG	4 cut(s)	372, 441, 713, 955
MaeIII	GTNAC	2 cut(s)	664, 937
MalI	GATC	3 cut(s)	387, 510, 801
MboI	GATC	3 cut(s)	385, 508, 799
MboII	GAAGA	5 cut(s)	115, 412, 647, 935, 938
MluCI	AATT	2 cut(s)	64, 795
Mph1103I	ATGCAT	1 cut(s)	790
MseI	TTAA	1 cut(s)	794
MslI	CAYNNNNRTG	2 cut(s)	581, 606
MspI	CCGG	3 cut(s)	127, 662, 862
MspR9I	CCNGG	4 cut(s)	38, 127, 169, 280
Mva1269I	GAATGC	2 cut(s)	38, 103
MvaI	CCWGG	3 cut(s)	38, 169, 280
MwoI	GCNNNNNNNGC	6 cut(s)	24, 33, 463, 476, 724, 862
NciI	CCSGG	1 cut(s)	127
NcoI	CCATGG	1 cut(s)	177
NdeII	GATC	3 cut(s)	385, 508, 799
NlaIV	GGNNCC	1 cut(s)	520
NsiI	ATGCAT	1 cut(s)	790
NspI	RCATGY	1 cut(s)	792
PaeI	GCATGC	1 cut(s)	792
PceI	AGGCCT	1 cut(s)	505
PctI	GAATGC	2 cut(s)	38, 103
PfeI	GAWTC	1 cut(s)	112
PfoI	TCCNGGA	1 cut(s)	167
PkrI	GCNGC	1 cut(s)	17
Psp6I	CCWGG	3 cut(s)	36, 167, 278
PspFI	CCCAGC	1 cut(s)	203
PspGI	CCWGG	3 cut(s)	36, 167, 278
PspN4I	GGNNCC	1 cut(s)	520
PspPI	GGNCC	3 cut(s)	124, 324, 519
RsaI	GTAC	2 cut(s)	5, 71
RsaNI	GTAC	2 cut(s)	4, 70
RseI	CAYNNNNRTG	2 cut(s)	581, 606
SaqAI	TTAA	1 cut(s)	794
SatI	GCNGC	1 cut(s)	16
Sau3AI	GATC	3 cut(s)	385, 508, 799
Sau96I	GGNCC	3 cut(s)	124, 324, 519
ScrFI	CCNGG	4 cut(s)	38, 127, 169, 280
SfaNI	GCATC	5 cut(s)	235, 265, 301, 381, 477
SinI	GGWCC	1 cut(s)	324
SmiMI	CAYNNNNRTG	2 cut(s)	581, 606
SphI	GCATGC	1 cut(s)	792
Sse9I	AATT	2 cut(s)	64, 795
SseBI	AGGCCT	1 cut(s)	505
SsiI	CCGC	2 cut(s)	15, 272
SspMI	CTAG	4 cut(s)	372, 441, 713, 955
StuI	AGGCCT	1 cut(s)	505
StyD4I	CCNGG	4 cut(s)	36, 125, 167, 278
StyI	CCWWGG	2 cut(s)	177, 675
TaaI	ACNGT	1 cut(s)	906
TaqI	TCGA	5 cut(s)	215, 230, 291, 811, 846
TasI	AATT	2 cut(s)	64, 795
TatI	WGTACW	2 cut(s)	3, 69
TauI	GCSGC	1 cut(s)	18
TfiI	GAWTC	1 cut(s)	112
Tru1I	TTAA	1 cut(s)	794
Tru9I	TTAA	1 cut(s)	794
TscAI	CASTG	1 cut(s)	243
TspDTI	ATGAA	5 cut(s)	45, 377, 402, 474, 851
TspRI	CASTG	1 cut(s)	243
VpaK11BI	GGWCC	1 cut(s)	324
XapI	RAATTY	1 cut(s)	64
XceI	RCATGY	1 cut(s)	792
XspI	CTAG	4 cut(s)	372, 441, 713, 955
Zsp2I	ATGCAT	1 cut(s)	790

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