Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Forward (+)

46818343 .. 46820066

Gene Structure 1724 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000014081

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1128 bp

ATGACGAGTGGAAATGTGATGCCCAAGACTAGGACTTGTAATGAATTGTTGAGTTTGTTTTCGAAATTGAATCGGACCGAGATGGCTTGGGTTTTGTATGCTGGGATGTTTAGGTTGAAGATCGAGTCCAGTGTTTGTACTTTTAACATAATGATTAATGTGTTATGTAAAGAAGGGAAGTTGAAGATGACAAAGGAGTTTCTTGGGTTTATGGAGATTTTGGGGATTAAGCCTACTGTTGTTACTTATAATACTATCATTCATGGGTTTTGTTTGAGAGGCAGAGTTGGACAGGCTCAGATGATCTTTAGTGCTATGAAAGGGAGAGGAGTTCAGCTGGATTCTTACACGTATGGATTGCTTATTAGTGGGATGTGTAAGGAGAGAAGGCTTGATGAAGCGTCTGGTCTTTTTGATAAAATGCTGGAAACTGGGCTGCTTCCGAGTGCTGTTACTTATAACACATTGATTGACCGTTATTGCAATAACGGTGATCTAAACAGGGCTTTCGGATATAGAGATGAGATGGTAATGAAGGGTATAATGCCGACGGTGTCAACTTACAATTTGTTGATTCATAAATTGTTCATGGAAGGTAGGGTGAGTGAAGCTGATTGTACGGTTCGAGAAATGGAAGAGAAGGGAATGGTTCCTGATGCCATTACGTATAATATCCTGACTAGTGGCTACTGCAGGTCTGGGAATGCAAAGAAAGCATTTATCCTTCGCGATGAAATGTTGATTAAAGGGATAGAGCCCACTAAGGAAACTTCTACATCACGTATTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAGGATTTTGTGTGAGGGTGTTCTGCCAGATCTTGTGATGTTCAATGCCTTGATTGATGGTCATTGTGCTAATGGGAATATGGAGCGTGCATTTTTACTTTTGAGGGAGATGGATGAAATGAAGGTTCATCCAGATGAAGTGACTTACAATACCCTAATGCAAGGGCTCTGCAGGGAAGGGAAAGTTGAGGAAGTGCAGGAACTTCTGGATGAGATGAAGAGAAGGGGAATCAAGCCTGATTACATTAGTTACAACACCCTCATTAGTGGACTAGTAAACGAGGTGACATGA

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:0005737 GO:0005739 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:0044444 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 PPR_long

Protein Analysis

376

Amino Acids

42.63

Weight (kDa)

6.9

Isoelectric Point (pI)

28.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	8 - 57	1.6e-09	PPR repeat family
PPR_3	PF13812	36 - 88	1.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	43 - 72	7.8e-06	PPR repeat
PPR_2	PF13041	44 - 91	2.8e-13	PPR repeat family
PPR_1	PF12854	75 - 107	4.4e-12	PPR repeat
PPR_2	PF13041	78 - 127	8e-17	PPR repeat family
PPR	PF01535	81 - 111	4.4e-06	PPR repeat
PPR_3	PF13812	102 - 162	2e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	109 - 141	2.5e-10	PPR repeat
PPR	PF01535	116 - 145	1.2e-06	PPR repeat
PPR_2	PF13041	121 - 158	3.4e-10	PPR repeat family
PPR_1	PF12854	145 - 177	1.1e-10	PPR repeat
PPR_2	PF13041	148 - 195	2.7e-14	PPR repeat family
PPR	PF01535	151 - 181	1.6e-07	PPR repeat
PPR_3	PF13812	151 - 193	4.2e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	183 - 232	2e-13	PPR repeat family
PPR_1	PF12854	214 - 246	3e-10	PPR repeat
PPR	PF01535	221 - 251	2.9e-06	PPR repeat
PPR_long	PF17177	267 - 366	7.6e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	284 - 333	4.3e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	285 - 316	1e-10	PPR repeat
PPR_2	PF13041	288 - 337	1.4e-17	PPR repeat family
TPR_24	PF23276	291 - 371	6.1e-07	Fungal tetratrico peptide repeats
PPR	PF01535	291 - 320	6e-07	PPR repeat
PPR_3	PF13812	312 - 372	1.5e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	321 - 352	1.7e-12	PPR repeat
PPR_2	PF13041	323 - 372	1.1e-19	PPR repeat family
PPR	PF01535	326 - 356	5.1e-11	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15630
fragaria_vesca	FvH4_2g07360
malus_domestica	MD02G1234600.v1.1
prunus_persica	Prupe.8G019300_v2.0.a1
pyrus_communis	pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis	RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata	RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora	Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa	Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha	Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana	Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	249, 459
Acc36I	ACCTGC	1 cut(s)	684
AccII	CGCG	1 cut(s)	729
AfaI	GTAC	2 cut(s)	139, 619
AfiI	CCNNNNNNNGG	1 cut(s)	30
AflIII	ACRYGT	1 cut(s)	348
AgsI	TTSAA	4 cut(s)	70, 118, 184, 880
AhlI	ACTAGT	2 cut(s)	680, 1108
AluBI	AGCT	2 cut(s)	337, 611
AluI	AGCT	2 cut(s)	337, 611
ApeKI	GCWGC	1 cut(s)	436
AseI	ATTAAT	1 cut(s)	156
AspS9I	GGNCC	1 cut(s)	75
AsuHPI	GGTGA	2 cut(s)	503, 613
AsuII	TTCGAA	1 cut(s)	62
AvaII	GGWCC	1 cut(s)	75
BanII	GRGCYC	2 cut(s)	759, 1005
BbvI	GCAGC	1 cut(s)	423
BccI	CCATC	4 cut(s)	76, 520, 887, 940
BcuI	ACTAGT	2 cut(s)	680, 1108
BfaI	CTAG	3 cut(s)	30, 681, 1109
BfmI	CTRYAG	2 cut(s)	691, 1006
BfuAI	ACCTGC	1 cut(s)	684
BglII	AGATCT	1 cut(s)	865
BisI	GCNGC	1 cut(s)	437
BlsI	GCNGC	1 cut(s)	438
Bme18I	GGWCC	1 cut(s)	75
BmgT120I	GGNCC	1 cut(s)	75
BmiI	GGNNCC	1 cut(s)	651
BmrI	ACTGGG	1 cut(s)	441
BmsI	GCATC	2 cut(s)	9, 646
BmuI	ACTGGG	1 cut(s)	441
Bpu14I	TTCGAA	1 cut(s)	62
BsaAI	YACGTR	3 cut(s)	351, 666, 782
Bsc4I	CCNNNNNNNGG	1 cut(s)	30
Bse1I	ACTGG	2 cut(s)	129, 436
BseGI	GGATG	5 cut(s)	111, 378, 955, 964, 1051
BseLI	CCNNNNNNNGG	1 cut(s)	30
BseMII	CTCAG	1 cut(s)	311
BseNI	ACTGG	2 cut(s)	129, 436
BseRI	GAGGAG	1 cut(s)	342
BseXI	GCAGC	1 cut(s)	423
BseYI	CCCAGC	1 cut(s)	101
BsgI	GTGCAG	1 cut(s)	1052
Bsh1236I	CGCG	1 cut(s)	729
BslI	CCNNNNNNNGG	1 cut(s)	30
BsmI	GAATGC	1 cut(s)	709
Bsp119I	TTCGAA	1 cut(s)	62
Bsp1286I	GDGCHC	2 cut(s)	759, 1005
Bsp143I	GATC	4 cut(s)	120, 303, 493, 865
Bsp68I	TCGCGA	1 cut(s)	729
BspCNI	CTCAG	1 cut(s)	310
BspFNI	CGCG	1 cut(s)	729
BspLI	GGNNCC	1 cut(s)	651
BspMAI	CTGCAG	2 cut(s)	695, 1010
BspMI	ACCTGC	1 cut(s)	684
BspT104I	TTCGAA	1 cut(s)	62
BsrI	ACTGG	2 cut(s)	129, 436
BssMI	GATC	4 cut(s)	120, 303, 493, 865
Bst4CI	ACNGT	5 cut(s)	238, 476, 491, 553, 622
Bst6I	CTCTTC	3 cut(s)	630, 800, 1049
BstBAI	YACGTR	3 cut(s)	351, 666, 782
BstBI	TTCGAA	1 cut(s)	62
BstC8I	GCNNGC	1 cut(s)	924
BstDEI	CTNAG	2 cut(s)	297, 762
BstF5I	GGATG	5 cut(s)	111, 378, 955, 964, 1051
BstFNI	CGCG	1 cut(s)	729
BstKTI	GATC	4 cut(s)	123, 306, 496, 868
BstMBI	GATC	4 cut(s)	120, 303, 493, 865
BstMWI	GCNNNNNNNGC	1 cut(s)	713
BstSFI	CTRYAG	2 cut(s)	691, 1006
BstSNI	TACGTA	1 cut(s)	666
BstUI	CGCG	1 cut(s)	729
BstV1I	GCAGC	1 cut(s)	423
BstX2I	RGATCY	1 cut(s)	865
BstYI	RGATCY	1 cut(s)	865
BtgZI	GCGATG	1 cut(s)	744
BtsCI	GGATG	5 cut(s)	111, 378, 955, 964, 1051
BtsIMutI	CAGTG	1 cut(s)	136
BtuMI	TCGCGA	1 cut(s)	729
BveI	ACCTGC	1 cut(s)	684
Cac8I	GCNNGC	1 cut(s)	924
Cfr13I	GGNCC	1 cut(s)	75
CpoI	CGGWCCG	1 cut(s)	75
CseI	GACGC	1 cut(s)	390
Csp6I	GTAC	2 cut(s)	138, 618
CspI	CGGWCCG	1 cut(s)	75
CviAII	CATG	3 cut(s)	263, 589, 1125
CviQI	GTAC	2 cut(s)	138, 618
DdeI	CTNAG	2 cut(s)	297, 762
DpnI	GATC	4 cut(s)	122, 305, 495, 867
DpnII	GATC	4 cut(s)	120, 303, 493, 865
Eam1104I	CTCTTC	3 cut(s)	630, 800, 1049
EarI	CTCTTC	3 cut(s)	630, 800, 1049
Eco105I	TACGTA	1 cut(s)	666
Eco24I	GRGCYC	2 cut(s)	759, 1005
Eco47I	GGWCC	1 cut(s)	75
EcoT38I	GRGCYC	2 cut(s)	759, 1005
FaeI	CATG	3 cut(s)	266, 592, 1128
FatI	CATG	3 cut(s)	262, 588, 1124
Fnu4HI	GCNGC	1 cut(s)	437
FokI	GGATG	5 cut(s)	118, 385, 951, 962, 1058
FriOI	GRGCYC	2 cut(s)	759, 1005
Fsp4HI	GCNGC	1 cut(s)	437
FspBI	CTAG	3 cut(s)	30, 681, 1109
GluI	GCNGC	1 cut(s)	437
GsaI	CCCAGC	1 cut(s)	105
HgaI	GACGC	1 cut(s)	390
Hin1II	CATG	3 cut(s)	266, 592, 1128
HincII	GTYRAC	1 cut(s)	558
HindII	GTYRAC	1 cut(s)	558
HinfI	GANTC	5 cut(s)	70, 125, 341, 574, 1065
HphI	GGTGA	2 cut(s)	503, 613
Hpy166II	GTNNAC	3 cut(s)	558, 1106, 1114
Hpy188I	TCNGA	4 cut(s)	75, 300, 444, 512
Hpy188III	TCNNGA	6 cut(s)	626, 653, 676, 728, 968, 1043
Hpy8I	GTNNAC	3 cut(s)	558, 1106, 1114
Hpy99I	CGWCG	1 cut(s)	553
HpyAV	CCTTC	9 cut(s)	167, 381, 529, 587, 634, 734, 952, 1007, 1053
HpyCH4III	ACNGT	5 cut(s)	238, 476, 491, 553, 622
HpyCH4IV	ACGT	3 cut(s)	350, 665, 781
HpyCH4V	TGCA	7 cut(s)	483, 693, 707, 926, 997, 1008, 1033
HpyF10VI	GCNNNNNNNGC	1 cut(s)	713
HpyF3I	CTNAG	2 cut(s)	297, 762
HpySE526I	ACGT	3 cut(s)	350, 665, 781
Hsp92II	CATG	3 cut(s)	266, 592, 1128
Kzo9I	GATC	4 cut(s)	120, 303, 493, 865
LmnI	GCTCC	1 cut(s)	919
Lsp1109I	GCAGC	1 cut(s)	423
LweI	GCATC	2 cut(s)	9, 646
MaeI	CTAG	3 cut(s)	30, 681, 1109
MaeII	ACGT	3 cut(s)	350, 665, 781
MaeIII	GTNAC	5 cut(s)	241, 451, 976, 1085, 1120
MalI	GATC	4 cut(s)	122, 305, 495, 867
MboI	GATC	4 cut(s)	120, 303, 493, 865
MboII	GAAGA	5 cut(s)	130, 196, 647, 817, 1066
MflI	RGATCY	1 cut(s)	865
MhlI	GDGCHC	2 cut(s)	759, 1005
MluCI	AATT	4 cut(s)	44, 65, 565, 581
MlyI	GAGTC	1 cut(s)	134
MmeI	TCCRAC	1 cut(s)	268
MnlI	CCTC	9 cut(s)	272, 320, 811, 831, 844, 933, 1018, 1106, 1111
MseI	TTAA	4 cut(s)	144, 156, 228, 744
MslI	CAYNNNNRTG	1 cut(s)	969
MspA1I	CMGCKG	1 cut(s)	337
Mva1269I	GAATGC	1 cut(s)	709
MvnI	CGCG	1 cut(s)	729
MwoI	GCNNNNNNNGC	1 cut(s)	713
NdeII	GATC	4 cut(s)	120, 303, 493, 865
NlaIII	CATG	3 cut(s)	266, 592, 1128
NlaIV	GGNNCC	1 cut(s)	651
NmuCI	GTSAC	2 cut(s)	976, 1120
NruI	TCGCGA	1 cut(s)	729
NspV	TTCGAA	1 cut(s)	62
PctI	GAATGC	1 cut(s)	709
PfeI	GAWTC	4 cut(s)	70, 341, 574, 1065
PflFI	GACNNNGTC	1 cut(s)	553
PkrI	GCNGC	1 cut(s)	438
PleI	GAGTC	1 cut(s)	133
PpsI	GAGTC	1 cut(s)	133
Ppu21I	YACGTR	3 cut(s)	351, 666, 782
PshBI	ATTAAT	1 cut(s)	156
PsiI	TTATAA	2 cut(s)	249, 459
PspFI	CCCAGC	1 cut(s)	101
PspN4I	GGNNCC	1 cut(s)	651
PspPI	GGNCC	1 cut(s)	75
PstI	CTGCAG	2 cut(s)	695, 1010
PsuI	RGATCY	1 cut(s)	865
PsyI	GACNNNGTC	1 cut(s)	553
PvuII	CAGCTG	1 cut(s)	337
RruI	TCGCGA	1 cut(s)	729
RsaI	GTAC	2 cut(s)	139, 619
RsaNI	GTAC	2 cut(s)	138, 618
RseI	CAYNNNNRTG	1 cut(s)	969
Rsr2I	CGGWCCG	1 cut(s)	75
RsrII	CGGWCCG	1 cut(s)	75
SaqAI	TTAA	4 cut(s)	144, 156, 228, 744
SatI	GCNGC	1 cut(s)	437
Sau3AI	GATC	4 cut(s)	120, 303, 493, 865
Sau96I	GGNCC	1 cut(s)	75
SchI	GAGTC	1 cut(s)	134
SduI	GDGCHC	2 cut(s)	759, 1005
SfaNI	GCATC	2 cut(s)	9, 646
SfcI	CTRYAG	2 cut(s)	691, 1006
SfuI	TTCGAA	1 cut(s)	62
SinI	GGWCC	1 cut(s)	75
SmiMI	CAYNNNNRTG	1 cut(s)	969
SnaBI	TACGTA	1 cut(s)	666
SpeI	ACTAGT	2 cut(s)	680, 1108
Sse9I	AATT	4 cut(s)	44, 65, 565, 581
SspMI	CTAG	3 cut(s)	30, 681, 1109
TaaI	ACNGT	5 cut(s)	238, 476, 491, 553, 622
TaiI	ACGT	3 cut(s)	353, 668, 784
TaqI	TCGA	3 cut(s)	62, 123, 625
TaqII	GACCGA	1 cut(s)	92
TasI	AATT	4 cut(s)	44, 65, 565, 581
TatI	WGTACW	1 cut(s)	137
TfiI	GAWTC	4 cut(s)	70, 341, 574, 1065
Tru1I	TTAA	4 cut(s)	144, 156, 228, 744
Tru9I	TTAA	4 cut(s)	144, 156, 228, 744
TscAI	CASTG	1 cut(s)	136
TseFI	GTSAC	2 cut(s)	976, 1120
TseI	GCWGC	1 cut(s)	436
Tsp45I	GTSAC	2 cut(s)	976, 1120
TspRI	CASTG	1 cut(s)	136
Tth111I	GACNNNGTC	1 cut(s)	553
VpaK11BI	GGWCC	1 cut(s)	75
VspI	ATTAAT	1 cut(s)	156
XspI	CTAG	3 cut(s)	30, 681, 1109

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