Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0000874

Physical Location & Seq

Genomic Coordinates Forward (+)

23324080 .. 23325251

Gene Structure 1172 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000028484

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1047 bp

ATGGCTAAGCAAACCAACCACCTCTGCACCAATCCCAATTCCGATCCGAACCAACCACCCCAAGATGACGATTCCCTCATAACCCAAGTCCTCCAACTCCTCCGACCCAATGAGAAAGACTGGAACTTTGACCAACTCCACACCCTCCTCTTCCCCAACTCAACCTCTCCTTCTCTTCGCTCCCTTTTCCTCATCACTTGCCTCCTCGGGGCTCCCTCCAAAGCCCTCAAATTCTGCGATTACGTCTCCGAAAACGTGGCCGGAACCCCTCCAGGATCCAAGGCTCTGCTCTCCTCCGCATTCCAAGCCCTTCTGGAGCTCACATTGAGGAAGCCCACCTTGGAAAAGAAGCTCTTTGAGATTTACAAGATGGCTAAGGACCGGAATGTCCCGCTGAATCTCAAGGCCGCAGGTCTGCTTGTTCGATCCATGGGAGCGGCTGGGATGGAGGACGAGGCTCTCACAGTGTTTAACGAGCTTCATTTGGGGTTGAAAACTACTCATATTCGCAATGTGGTGATTAGGTTGTTGCTGAAGATTGGGCATGTAGATGATGCACTGAAGGTGCTCGACGAAATGCTTCACCCAGAAGCGAAGTTTCAGGTTGATGACTTTATCGGCGATGTTGTGATCGGCTCATTATTAAGGAGAGAGCAGATAGGGAGGAGCGTCAGTGAGGAAGAAATTGTGGAGTTGGTGTCGAAATTTGAAGCTACTTCGTGCAATGCGCTTTTGACAGCTTTGGGAAGAGCTAATGATTTTAAGAGGATGAGTGAGCTTATGGCGAAGATGGAAGAGATGGGCATTAAGCCCAATGTTATAACTTTTGGTATTCTTATTAATCAGTTATGCAAGTCTAGGAGAATAAATGTTGCCTTGGAGGTGTTTGAAAAGATGAGTGGAGGGGTAAAGGGGGTTTCCGCTGAACCAGATGTGATCGTCTATAACACTCTGATTGATGGACTTTGCAAAGTGGGAAGGCAGGAAGAAGGATTGCGTTTGTGGATTCCGATCTGCCTTTTTGTGATAAAGAGGAGAGATGAGTAG

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

ko03018 map03018

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

349

Amino Acids

38.78

Weight (kDa)

6.35

Isoelectric Point (pI)

47.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	235 - 282	1.3e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	240 - 285	1.9e-11	PPR repeat family
PPR_1	PF12854	267 - 300	8.6e-11	PPR repeat
PPR_1	PF12854	309 - 334	7.2e-08	PPR repeat

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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Publication-ready

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Orthologous Genes (Group: OG0000874)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61520 AT5G28370 AT5G28460
fragaria_vesca	FvH4_5g03011 FvH4_5g03011 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_7g15360
malus_domestica	MD01G1071400.v1.1 MD07G1131300.v1.1
prunus_persica	Prupe.2G177500_v2.0.a1
pyrus_communis	pycom01g10040 pycom04g02360 pycom07g12830
rosa_chinensis	RchiOBHm_Chr1g0357681 RchiOBHm_Chr3g0468501 RchiOBHm_Chr5g0017031 RchiOBHm_Chr7g0228211 RchiOBHm_Chr7g0228281 RchiOBHm_Chr7g0228291
rosa_laevigata	RLG00000001577 RLG00000005833 RLG00000009015 RLG00000009124 RLG00000012161 RLG00000028007 RLG00000028484
rosa_multiflora	Rmu_sc0001062.1_g000004 Rmu_sc0001626.1_g000014 Rmu_sc0001626.1_g000015 Rmu_sc0002582.1_g000009 Rmu_sc0003490.1_g000025 Rmu_sc0003490.1_g000026 Rmu_sc0004842.1_g000011 Rmu_sc0004842.1_g000012 Rmu_sc0004842.1_g000020 Rmu_ssc0000425.1_g000002
rosa_roxburghii	Rroxscaffold_3G00231300 Rroxscaffold_4G00298600 Rroxscaffold_6G00429570
rosa_rugosa	Rorug01G0257700 Rorug02G0051500 Rorug02G0572600 Rorug07G0246900.1 Rorug07G0247000 Rorug07G0247000
rosa_samantha	Rh1AG271700 Rh1BG238800 Rh1CG255600 Rh1DG267200 Rh3AG143700 Rh3BG166200 Rh3BG166300 Rh5AG043600 Rh7AG400900 Rh7AG401200 Rh7BG382400 Rh7CG420000 Rh7DG396900 Rh7DG397300
rosa_wichuraiana	Rw1G024230 Rw7G033300 Rw7G033330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	821
AasI	GACNNNNNNGTC	1 cut(s)	386
Acc36I	ACCTGC	1 cut(s)	401
AccBSI	CCGCTC	1 cut(s)	437
AciI	CCGC	5 cut(s)	297, 392, 408, 437, 921
AclWI	GGATC	4 cut(s)	38, 270, 283, 420
AcoI	YGGCCR	1 cut(s)	258
AcsI	RAATTY	2 cut(s)	230, 704
AcuI	CTGAAG	2 cut(s)	554, 581
AfiI	CCNNNNNNNGG	1 cut(s)	208
AgsI	TTSAA	3 cut(s)	493, 710, 890
AjnI	CCWGG	1 cut(s)	271
AjuI	GAANNNNNNNTTGG	2 cut(s)	323, 355
AluBI	AGCT	7 cut(s)	319, 352, 478, 713, 740, 752, 778
AluI	AGCT	7 cut(s)	319, 352, 478, 713, 740, 752, 778
Alw21I	GWGCWC	2 cut(s)	321, 570
Alw26I	GTCTC	1 cut(s)	250
AlwI	GGATC	4 cut(s)	38, 270, 283, 420
Ama87I	CYCGRG	1 cut(s)	206
AoxI	GGCC	2 cut(s)	258, 405
ApoI	RAATTY	2 cut(s)	230, 704
ArsI	GACNNNNNNTTYG	2 cut(s)	110, 142
AseI	ATTAAT	1 cut(s)	840
Asp700I	GAANNNNTTC	1 cut(s)	579
AspLEI	GCGC	1 cut(s)	730
AspS9I	GGNCC	1 cut(s)	379
AsuHPI	GGTGA	2 cut(s)	529, 575
AvaI	CYCGRG	1 cut(s)	206
AvaII	GGWCC	1 cut(s)	379
BamHI	GGATCC	1 cut(s)	275
BanII	GRGCYC	2 cut(s)	214, 321
Bbv12I	GWGCWC	2 cut(s)	321, 570
BccI	CCATC	5 cut(s)	364, 439, 784, 793, 953
BciT130I	CCWGG	1 cut(s)	273
BcoDI	GTCTC	1 cut(s)	250
BfaI	CTAG	1 cut(s)	858
BfuAI	ACCTGC	1 cut(s)	401
BisI	GCNGC	2 cut(s)	408, 438
BlpI	GCTNAGC	1 cut(s)	6
BlsI	GCNGC	2 cut(s)	409, 439
Bme1390I	CCNGG	1 cut(s)	273
Bme18I	GGWCC	1 cut(s)	379
BmeT110I	CYCGRG	1 cut(s)	206
BmgT120I	GGNCC	1 cut(s)	379
BmiI	GGNNCC	3 cut(s)	213, 265, 277
BmrFI	CCNGG	1 cut(s)	273
BmsI	GCATC	1 cut(s)	544
BpmI	CTGGAG	2 cut(s)	255, 335
Bpu10I	CCTNAGC	1 cut(s)	375
Bpu1102I	GCTNAGC	1 cut(s)	6
BpuEI	CTTGAG	1 cut(s)	386
BsaBI	GATNNNNATC	1 cut(s)	1010
BsaJI	CCNNGG	5 cut(s)	205, 279, 339, 429, 876
BsaWI	WCCGGW	1 cut(s)	381
BsaXI	ACNNNNNCTCC	4 cut(s)	658, 683, 688, 713
Bsc4I	CCNNNNNNNGG	1 cut(s)	208
Bse1I	ACTGG	1 cut(s)	125
Bse3DI	GCAATG	2 cut(s)	517, 730
Bse8I	GATNNNNATC	1 cut(s)	1010
BseBI	CCWGG	1 cut(s)	273
BseDI	CCNNGG	5 cut(s)	205, 279, 339, 429, 876
BseGI	GGATG	2 cut(s)	450, 774
BseJI	GATNNNNATC	1 cut(s)	1010
BseLI	CCNNNNNNNGG	1 cut(s)	208
BseMI	GCAATG	2 cut(s)	517, 730
BseNI	ACTGG	1 cut(s)	125
BseRI	GAGGAG	5 cut(s)	89, 137, 194, 283, 679
BseYI	CCCAGC	1 cut(s)	440
BsgI	GTGCAG	1 cut(s)	10
BshFI	GGCC	2 cut(s)	260, 407
BsiHKAI	GWGCWC	2 cut(s)	321, 570
BsiHKCI	CYCGRG	1 cut(s)	206
BsiSI	CCGG	2 cut(s)	261, 382
BslFI	GGGAC	1 cut(s)	374
BslI	CCNNNNNNNGG	1 cut(s)	208
BsmAI	GTCTC	1 cut(s)	250
BsmBI	CGTCTC	1 cut(s)	250
BsmFI	GGGAC	1 cut(s)	374
BsmI	GAATGC	1 cut(s)	299
BsnI	GGCC	2 cut(s)	260, 407
BsoBI	CYCGRG	1 cut(s)	206
Bsp1286I	GDGCHC	3 cut(s)	214, 321, 570
Bsp143I	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
Bsp1720I	GCTNAGC	1 cut(s)	6
Bsp19I	CCATGG	1 cut(s)	429
BspACI	CCGC	5 cut(s)	297, 392, 408, 437, 921
BspANI	GGCC	2 cut(s)	260, 407
BspLI	GGNNCC	3 cut(s)	213, 265, 277
BspMI	ACCTGC	1 cut(s)	401
BspPI	GGATC	4 cut(s)	38, 270, 283, 420
BspQI	GCTCTTC	1 cut(s)	742
BsrBI	CCGCTC	1 cut(s)	437
BsrDI	GCAATG	2 cut(s)	517, 730
BsrI	ACTGG	1 cut(s)	125
BssECI	CCNNGG	5 cut(s)	205, 279, 339, 429, 876
BssMI	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
BssT1I	CCWWGG	4 cut(s)	279, 339, 429, 876
Bst2UI	CCWGG	1 cut(s)	273
Bst4CI	ACNGT	1 cut(s)	466
Bst6I	CTCTTC	4 cut(s)	155, 180, 742, 789
BstDEI	CTNAG	2 cut(s)	6, 375
BstDSI	CCRYGG	1 cut(s)	429
BstF5I	GGATG	2 cut(s)	450, 774
BstHHI	GCGC	1 cut(s)	730
BstKTI	GATC	6 cut(s)	46, 278, 428, 633, 939, 1014
BstMAI	GTCTC	1 cut(s)	250
BstMBI	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
BstMWI	GCNNNNNNNGC	1 cut(s)	305
BstNI	CCWGG	1 cut(s)	273
BstNSI	RCATGY	1 cut(s)	548
BstSCI	CCNGG	1 cut(s)	271
BstX2I	RGATCY	1 cut(s)	275
BstYI	RGATCY	1 cut(s)	275
BsuRI	GGCC	2 cut(s)	260, 407
BtgI	CCRYGG	1 cut(s)	429
BtgZI	GCGATG	1 cut(s)	636
BtsCI	GGATG	2 cut(s)	450, 774
BtsIMutI	CAGTG	3 cut(s)	471, 557, 679
BveI	ACCTGC	1 cut(s)	401
CfoI	GCGC	1 cut(s)	730
Cfr13I	GGNCC	1 cut(s)	379
CseI	GACGC	1 cut(s)	658
CviAII	CATG	2 cut(s)	430, 545
DdeI	CTNAG	2 cut(s)	6, 375
DpnI	GATC	6 cut(s)	45, 277, 427, 632, 938, 1013
DpnII	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
DrdI	GACNNNNNNGTC	1 cut(s)	386
DseDI	GACNNNNNNGTC	1 cut(s)	386
EaeI	YGGCCR	1 cut(s)	258
Eam1104I	CTCTTC	4 cut(s)	155, 180, 742, 789
EarI	CTCTTC	4 cut(s)	155, 180, 742, 789
Ecl136II	GAGCTC	1 cut(s)	319
Eco130I	CCWWGG	4 cut(s)	279, 339, 429, 876
Eco24I	GRGCYC	2 cut(s)	214, 321
Eco47I	GGWCC	1 cut(s)	379
Eco53kI	GAGCTC	1 cut(s)	319
Eco57I	CTGAAG	2 cut(s)	554, 581
Eco88I	CYCGRG	1 cut(s)	206
EcoICRI	GAGCTC	1 cut(s)	319
EcoRII	CCWGG	1 cut(s)	271
EcoT14I	CCWWGG	4 cut(s)	279, 339, 429, 876
EcoT38I	GRGCYC	2 cut(s)	214, 321
ErhI	CCWWGG	4 cut(s)	279, 339, 429, 876
Esp3I	CGTCTC	1 cut(s)	250
FaeI	CATG	2 cut(s)	433, 548
FaiI	YATR	8 cut(s)	80, 431, 504, 546, 782, 821, 850, 945
FalI	AAGNNNNNCTT	4 cut(s)	323, 355, 338, 370
FaqI	GGGAC	1 cut(s)	374
FatI	CATG	2 cut(s)	429, 544
FauI	CCCGC	1 cut(s)	399
Fnu4HI	GCNGC	2 cut(s)	408, 438
FokI	GGATG	2 cut(s)	457, 781
FriOI	GRGCYC	2 cut(s)	214, 321
Fsp4HI	GCNGC	2 cut(s)	408, 438
FspBI	CTAG	1 cut(s)	858
GlaI	GCGC	1 cut(s)	729
GluI	GCNGC	2 cut(s)	408, 438
GsaI	CCCAGC	1 cut(s)	444
GsuI	CTGGAG	2 cut(s)	255, 335
HaeIII	GGCC	2 cut(s)	260, 407
HapII	CCGG	2 cut(s)	261, 382
HgaI	GACGC	1 cut(s)	658
HhaI	GCGC	1 cut(s)	730
Hin1II	CATG	2 cut(s)	433, 548
Hin6I	GCGC	1 cut(s)	728
HinP1I	GCGC	1 cut(s)	728
HinfI	GANTC	3 cut(s)	71, 397, 1006
HpaII	CCGG	2 cut(s)	261, 382
HphI	GGTGA	2 cut(s)	529, 575
Hpy188I	TCNGA	6 cut(s)	43, 48, 104, 250, 954, 1011
Hpy188III	TCNNGA	1 cut(s)	314
Hpy99I	CGWCG	1 cut(s)	575
HpyAV	CCTTC	5 cut(s)	180, 320, 556, 972, 983
HpyCH4III	ACNGT	1 cut(s)	466
HpyCH4IV	ACGT	2 cut(s)	243, 255
HpyCH4V	TGCA	5 cut(s)	27, 557, 723, 852, 969
HpyF10VI	GCNNNNNNNGC	1 cut(s)	305
HpyF3I	CTNAG	2 cut(s)	6, 375
HpySE526I	ACGT	2 cut(s)	243, 255
Hsp92II	CATG	2 cut(s)	433, 548
HspAI	GCGC	1 cut(s)	728
Kzo9I	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
LguI	GCTCTTC	1 cut(s)	742
LmnI	GCTCC	5 cut(s)	185, 217, 316, 434, 666
LweI	GCATC	1 cut(s)	544
MaeI	CTAG	1 cut(s)	858
MaeII	ACGT	2 cut(s)	243, 255
MalI	GATC	6 cut(s)	45, 277, 427, 632, 938, 1013
MbiI	CCGCTC	1 cut(s)	437
MboI	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
MboII	GAAGA	8 cut(s)	142, 167, 547, 692, 759, 799, 806, 998
MflI	RGATCY	1 cut(s)	275
MhlI	GDGCHC	3 cut(s)	214, 321, 570
MluCI	AATT	4 cut(s)	37, 230, 684, 704
MmeI	TCCRAC	2 cut(s)	118, 127
MroXI	GAANNNNTTC	1 cut(s)	579
MseI	TTAA	5 cut(s)	471, 644, 762, 807, 840
MslI	CAYNNNNRTG	1 cut(s)	549
MspA1I	CMGCKG	2 cut(s)	394, 923
MspI	CCGG	2 cut(s)	261, 382
MspR9I	CCNGG	1 cut(s)	273
Mva1269I	GAATGC	1 cut(s)	299
MvaI	CCWGG	1 cut(s)	273
MwoI	GCNNNNNNNGC	1 cut(s)	305
NcoI	CCATGG	1 cut(s)	429
NdeII	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
NlaIII	CATG	2 cut(s)	433, 548
NlaIV	GGNNCC	3 cut(s)	213, 265, 277
NspI	RCATGY	1 cut(s)	548
PciSI	GCTCTTC	1 cut(s)	742
PctI	GAATGC	1 cut(s)	299
PdmI	GAANNNNTTC	1 cut(s)	579
PfeI	GAWTC	3 cut(s)	71, 397, 1006
PfoI	TCCNGGA	1 cut(s)	271
PkrI	GCNGC	2 cut(s)	409, 439
PshBI	ATTAAT	1 cut(s)	840
PsiI	TTATAA	1 cut(s)	821
Psp124BI	GAGCTC	1 cut(s)	321
Psp6I	CCWGG	1 cut(s)	271
PspFI	CCCAGC	1 cut(s)	440
PspGI	CCWGG	1 cut(s)	271
PspN4I	GGNNCC	3 cut(s)	213, 265, 277
PspPI	GGNCC	1 cut(s)	379
PsuI	RGATCY	1 cut(s)	275
RseI	CAYNNNNRTG	1 cut(s)	549
SacI	GAGCTC	1 cut(s)	321
SapI	GCTCTTC	1 cut(s)	742
SaqAI	TTAA	5 cut(s)	471, 644, 762, 807, 840
SatI	GCNGC	2 cut(s)	408, 438
Sau3AI	GATC	6 cut(s)	43, 275, 425, 630, 936, 1011
Sau96I	GGNCC	1 cut(s)	379
ScrFI	CCNGG	1 cut(s)	273
SduI	GDGCHC	3 cut(s)	214, 321, 570
SfaNI	GCATC	1 cut(s)	544
SinI	GGWCC	1 cut(s)	379
SmiMI	CAYNNNNRTG	1 cut(s)	549
SmlI	CTYRAG	1 cut(s)	401
SmoI	CTYRAG	1 cut(s)	401
Sse9I	AATT	4 cut(s)	37, 230, 684, 704
SsiI	CCGC	5 cut(s)	297, 392, 408, 437, 921
SspMI	CTAG	1 cut(s)	858
SstI	GAGCTC	1 cut(s)	321
StyD4I	CCNGG	1 cut(s)	271
StyI	CCWWGG	4 cut(s)	279, 339, 429, 876
TaaI	ACNGT	1 cut(s)	466
TaiI	ACGT	2 cut(s)	246, 258
TaqI	TCGA	3 cut(s)	424, 570, 701
TasI	AATT	4 cut(s)	37, 230, 684, 704
TauI	GCSGC	2 cut(s)	410, 440
TfiI	GAWTC	3 cut(s)	71, 397, 1006
Tru1I	TTAA	5 cut(s)	471, 644, 762, 807, 840
Tru9I	TTAA	5 cut(s)	471, 644, 762, 807, 840
TscAI	CASTG	3 cut(s)	471, 564, 679
TspDTI	ATGAA	1 cut(s)	470
TspRI	CASTG	3 cut(s)	471, 564, 679
VpaK11BI	GGWCC	1 cut(s)	379
VspI	ATTAAT	1 cut(s)	840
XapI	RAATTY	2 cut(s)	230, 704
XceI	RCATGY	1 cut(s)	548
XmnI	GAANNNNTTC	1 cut(s)	579
XspI	CTAG	1 cut(s)	858

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