Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0002752

Physical Location & Seq

Genomic Coordinates Forward (+)

27968221 .. 27971484

Gene Structure 3264 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000013222

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1293 bp

ATGACACAAGACGTGGAGATGAAAGAGGTCCCGGCCCCTTCCAATTCAGTCTCTTCTACTACTCCCACAACTCTCCACCATTTGAAGGAGATTGCTTCGCTTCTTGAGACCGCTGCGTACACCAAGGAGGTCCGGCGAGTGGTCCGCGCCGTTAGGCTGACGATGGCGAAGAGGCGGAAGCTGAGTGTTTCTGTGCTCTCGGCGTTTCTCAGTTTCGCCTTTTCGCCGGGATCTGAGGCTAAAGCTTGTGCCACAGCTGGCATTGCTCGACTAAAGAACATGAATAGGAGAACTATTGATGTTCTGGCATCAAGGCTTTACTTCTATTACTCTCTTAGCTATGAATATACCGGTGATCTCGCAGAAATTAGAGGGAACCTTCTTAATCTTCACCGGATTGCAACTTTGCGCCGTGATGAGCTGGGTCAGGAGACACTTCTGAACCTTCTGCTTCGCAATTACCTGTCATATAACCTATATGATCAGGCAGAGAAACTGAGGTCCAAGGCTCCCCGATTTGAGGCTCACTCAAACCAGCAGTTTTGTCGGTATCTCTTTTATCTGGGAAAGATCAGAACCATTCAGTTGGAGTATACTGATGCAAAGGAGTCCCTTCTTCAAGCTGCTAGGAAAGCCCCTGTAGCTGCCCTTGGCTTTCGAATTCAATGTAACAAGTGGGCAGTTATCGTACGCTTGTTGCTTGGAGAAATCCCTGAGAGGACTGTGTTTATGCAAAAAGGAATGGAGAAGGCTTTGAGGCCATATTTTGAACTAACAAATGCTGTGAGGATTGGTGACTTGGAACTATTCAGAACTATAGCTGACAAGTTCTCGAATGTGTTTAGCTCAGACGGAACCCACAATTTGATTGTGAGGCTGCGACATAATGTTATAAGAACAGGGTTGCGTAACATTAGCATCTCGTATTCTCGAATTTCTCTGGCTGATGTTGCCAAAAAGCTGAGATTGGACTCCCCCAACCCTGTTGCTGATGCTGAAAGTATTGTGGCCAAGGCAATCCGAGATGGTGCAATTGATGCCACTCTGGATCATGCAAATGGATATATGGTGTCAAAGGAAACTGGAGATATCTACTCTACAAATGAGCCCCAAGCTGCATTTGATACAAGGATTGCTTTCTGCCTCAATTTGCACAATGATGCTGTGCGAGCACTAAGGTTTCCACCAAATTCTCACAAGGAGAAAGAAAGTGCTGAGAAAAGGAGGGAGAGACAGCAGCAGGAGCAAGAGCTTGCAAAGCATATAGCTGAGGAGGATGATGACGAATTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

PCI Rpn3_C

Protein Analysis

431

Amino Acids

48.85

Weight (kDa)

9.34

Isoelectric Point (pI)

44.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_PSMD3_N	PF25573	78 - 259	3.9e-82	PSMD3-like, N-terminal TPR repeats
PCI	PF01399	277 - 359	6.2e-20	PCI domain
Rpn3_C	PF08375	363 - 428	3.4e-27	Proteasome regulatory subunit C-terminal

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: OG0002752)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G20200 AT1G75990
fragaria_vesca	FvH4_2g15510 FvH4_2g15510
malus_domestica	MD05G1123400.v1.1 MD08G1008900.v1.1 MD10G1126400.v1.1
prunus_persica	Prupe.1G360600_v2.0.a1 Prupe.1G360600_v2.0.a1 Prupe.8G167300_v2.0.a1
pyrus_communis	pycom05g11770 pycom06g20010 pycom10g10860
rosa_chinensis	RchiOBHm_Chr6g0278511
rosa_laevigata	RLG00000007962 RLG00000013222
rosa_multiflora	Rmu_sc0000258.1_g000009 Rmu_sc0002777.1_g000004
rosa_roxburghii	Rroxscaffold_1G00029920 Rroxscaffold_4G00323800 Rroxscaffold_7G00189830 Rroxscaffold_7G00190320
rosa_rugosa	Rorug06G0117600
rosa_samantha	Rh2AG183600 Rh2AG196400 Rh2BG209000 Rh2DG190000 Rh2DG204200 Rh4AG134600 Rh4AG183800 Rh4DG179200 Rh5AG337600 Rh6AG226700 Rh6BG230900 Rh6CG234000 Rh6DG225300
rosa_wichuraiana	Rw0G003080 Rw4G016480 Rw6G019790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	893
AccI	GTMKAC	1 cut(s)	593
AccII	CGCG	1 cut(s)	147
AciI	CCGC	3 cut(s)	111, 145, 175
AclWI	GGATC	2 cut(s)	238, 1056
AcoI	YGGCCR	1 cut(s)	1008
AcsI	RAATTY	4 cut(s)	660, 933, 1189, 1286
AfaI	GTAC	2 cut(s)	119, 690
AfiI	CCNNNNNNNGG	3 cut(s)	85, 139, 520
AgeI	ACCGGT	1 cut(s)	350
AgsI	TTSAA	4 cut(s)	85, 620, 665, 770
AjiI	CACGTC	1 cut(s)	13
Alw21I	GWGCWC	2 cut(s)	198, 1174
Alw26I	GTCTC	4 cut(s)	55, 101, 425, 1225
AlwI	GGATC	2 cut(s)	238, 1056
AoxI	GGCC	3 cut(s)	33, 758, 1008
ApeKI	GCWGC	6 cut(s)	113, 623, 644, 877, 1115, 1237
ApoI	RAATTY	4 cut(s)	660, 933, 1189, 1286
AsiGI	ACCGGT	1 cut(s)	350
AspLEI	GCGC	2 cut(s)	149, 411
AspS9I	GGNCC	5 cut(s)	28, 34, 130, 142, 501
AsuC2I	CCSGG	2 cut(s)	32, 228
AsuHPI	GGTGA	3 cut(s)	365, 383, 806
AsuII	TTCGAA	1 cut(s)	658
AvaII	GGWCC	4 cut(s)	28, 130, 142, 501
BalI	TGGCCA	1 cut(s)	1010
BanII	GRGCYC	1 cut(s)	1110
Bbv12I	GWGCWC	2 cut(s)	198, 1174
BbvCI	CCTCAGC	1 cut(s)	1269
BbvI	GCAGC	6 cut(s)	100, 610, 631, 864, 1102, 1249
BccI	CCATC	2 cut(s)	157, 1019
BceAI	ACGGC	2 cut(s)	134, 396
BcgI	CGANNNNNNTGC	2 cut(s)	527, 561
BclI	TGATCA	1 cut(s)	481
BcnI	CCSGG	2 cut(s)	32, 228
BcoDI	GTCTC	4 cut(s)	55, 101, 425, 1225
BfaI	CTAG	1 cut(s)	627
BfmI	CTRYAG	2 cut(s)	639, 816
BisI	GCNGC	6 cut(s)	114, 624, 645, 878, 1116, 1238
BlsI	GCNGC	6 cut(s)	115, 625, 646, 879, 1117, 1239
Bme1390I	CCNGG	2 cut(s)	32, 228
Bme18I	GGWCC	4 cut(s)	28, 130, 142, 501
BmgBI	CACGTC	1 cut(s)	13
BmgT120I	GGNCC	5 cut(s)	28, 34, 130, 142, 501
BmiI	GGNNCC	5 cut(s)	30, 36, 377, 510, 856
BmrFI	CCNGG	2 cut(s)	32, 228
BmsI	GCATC	6 cut(s)	317, 589, 927, 982, 1027, 1150
BplI	GAGNNNNNCTC	2 cut(s)	512, 544
BpmI	CTGGAG	1 cut(s)	1104
Bpu10I	CCTNAGC	1 cut(s)	1269
Bpu14I	TTCGAA	1 cut(s)	658
BpuEI	CTTGAG	1 cut(s)	125
BpuMI	CCSGG	2 cut(s)	32, 228
BsaI	GGTCTC	1 cut(s)	101
BsaJI	CCNNGG	4 cut(s)	123, 504, 649, 1011
BsaWI	WCCGGW	2 cut(s)	350, 393
Bsc4I	CCNNNNNNNGG	3 cut(s)	85, 139, 520
Bse118I	RCCGGY	1 cut(s)	350
Bse1I	ACTGG	1 cut(s)	1087
Bse3DI	GCAATG	1 cut(s)	261
BseDI	CCNNGG	4 cut(s)	123, 504, 649, 1011
BseGI	GGATG	1 cut(s)	1282
BseLI	CCNNNNNNNGG	3 cut(s)	85, 139, 520
BseMI	GCAATG	1 cut(s)	261
BseMII	CTCAG	9 cut(s)	173, 223, 225, 488, 705, 861, 953, 1206, 1260
BseNI	ACTGG	1 cut(s)	1087
BseRI	GAGGAG	1 cut(s)	1286
BseXI	GCAGC	6 cut(s)	100, 610, 631, 864, 1102, 1249
BseYI	CCCAGC	1 cut(s)	421
Bsh1236I	CGCG	1 cut(s)	147
BshFI	GGCC	3 cut(s)	35, 760, 1010
BshTI	ACCGGT	1 cut(s)	350
BsiHKAI	GWGCWC	2 cut(s)	198, 1174
BsiSI	CCGG	5 cut(s)	32, 133, 227, 351, 394
BsiWI	CGTACG	1 cut(s)	688
BslFI	GGGAC	2 cut(s)	14, 595
BslI	CCNNNNNNNGG	3 cut(s)	85, 139, 520
BsmAI	GTCTC	4 cut(s)	55, 101, 425, 1225
BsmFI	GGGAC	2 cut(s)	14, 595
BsnI	GGCC	3 cut(s)	35, 760, 1010
Bso31I	GGTCTC	1 cut(s)	101
Bsp119I	TTCGAA	1 cut(s)	658
Bsp1286I	GDGCHC	3 cut(s)	198, 1110, 1174
Bsp143I	GATC	5 cut(s)	230, 355, 481, 570, 1048
BspACI	CCGC	3 cut(s)	111, 145, 175
BspANI	GGCC	3 cut(s)	35, 760, 1010
BspCNI	CTCAG	9 cut(s)	174, 222, 226, 489, 706, 860, 954, 1207, 1261
BspFNI	CGCG	1 cut(s)	147
BspLI	GGNNCC	5 cut(s)	30, 36, 377, 510, 856
BspPI	GGATC	2 cut(s)	238, 1056
BspT104I	TTCGAA	1 cut(s)	658
BspTNI	GGTCTC	1 cut(s)	101
BsrDI	GCAATG	1 cut(s)	261
BsrFI	RCCGGY	1 cut(s)	350
BsrI	ACTGG	1 cut(s)	1087
BssAI	RCCGGY	1 cut(s)	350
BssECI	CCNNGG	4 cut(s)	123, 504, 649, 1011
BssMI	GATC	5 cut(s)	230, 355, 481, 570, 1048
BssNAI	GTATAC	1 cut(s)	594
BssT1I	CCWWGG	4 cut(s)	123, 504, 649, 1011
Bst1107I	GTATAC	1 cut(s)	594
Bst4CI	ACNGT	1 cut(s)	724
Bst6I	CTCTTC	2 cut(s)	58, 164
BstAPI	GCANNNNNTGC	1 cut(s)	1037
BstBI	TTCGAA	1 cut(s)	658
BstC8I	GCNNGC	3 cut(s)	259, 1170, 1254
BstF5I	GGATG	1 cut(s)	1282
BstFNI	CGCG	1 cut(s)	147
BstHHI	GCGC	2 cut(s)	149, 411
BstKTI	GATC	5 cut(s)	233, 358, 484, 573, 1051
BstMAI	GTCTC	4 cut(s)	55, 101, 425, 1225
BstMBI	GATC	5 cut(s)	230, 355, 481, 570, 1048
BstMWI	GCNNNNNNNGC	8 cut(s)	263, 632, 641, 950, 1037, 1169, 1243, 1258
BstSCI	CCNGG	2 cut(s)	30, 226
BstSFI	CTRYAG	2 cut(s)	639, 816
BstUI	CGCG	1 cut(s)	147
BstV1I	GCAGC	6 cut(s)	100, 610, 631, 864, 1102, 1249
BstX2I	RGATCY	1 cut(s)	230
BstXI	CCANNNNNNTGG	1 cut(s)	586
BstYI	RGATCY	1 cut(s)	230
BstZ17I	GTATAC	1 cut(s)	594
BsuRI	GGCC	3 cut(s)	35, 760, 1010
BtrI	CACGTC	1 cut(s)	13
BtsCI	GGATG	1 cut(s)	1282
Cac8I	GCNNGC	3 cut(s)	259, 1170, 1254
CfoI	GCGC	2 cut(s)	149, 411
Cfr10I	RCCGGY	1 cut(s)	350
Cfr13I	GGNCC	5 cut(s)	28, 34, 130, 142, 501
Csp6I	GTAC	2 cut(s)	118, 689
CspAI	ACCGGT	1 cut(s)	350
CviAII	CATG	2 cut(s)	280, 1052
CviQI	GTAC	2 cut(s)	118, 689
DpnI	GATC	5 cut(s)	232, 357, 483, 572, 1050
DpnII	GATC	5 cut(s)	230, 355, 481, 570, 1048
EaeI	YGGCCR	1 cut(s)	1008
Eam1104I	CTCTTC	2 cut(s)	58, 164
EarI	CTCTTC	2 cut(s)	58, 164
EciI	GGCGGA	1 cut(s)	190
Eco130I	CCWWGG	4 cut(s)	123, 504, 649, 1011
Eco24I	GRGCYC	1 cut(s)	1110
Eco31I	GGTCTC	1 cut(s)	101
Eco32I	GATATC	1 cut(s)	1090
Eco47I	GGWCC	4 cut(s)	28, 130, 142, 501
EcoO109I	RGGNCCY	1 cut(s)	28
EcoRI	GAATTC	1 cut(s)	660
EcoRV	GATATC	1 cut(s)	1090
EcoT14I	CCWWGG	4 cut(s)	123, 504, 649, 1011
EcoT38I	GRGCYC	1 cut(s)	1110
ErhI	CCWWGG	4 cut(s)	123, 504, 649, 1011
FaeI	CATG	2 cut(s)	283, 1055
FalI	AAGNNNNNCTT	2 cut(s)	1120, 1152
FaqI	GGGAC	2 cut(s)	14, 595
FatI	CATG	2 cut(s)	279, 1051
FbaI	TGATCA	1 cut(s)	481
FblI	GTMKAC	1 cut(s)	593
Fnu4HI	GCNGC	6 cut(s)	114, 624, 645, 878, 1116, 1238
FokI	GGATG	1 cut(s)	1289
FriOI	GRGCYC	1 cut(s)	1110
Fsp4HI	GCNGC	6 cut(s)	114, 624, 645, 878, 1116, 1238
FspBI	CTAG	1 cut(s)	627
GlaI	GCGC	2 cut(s)	148, 410
GluI	GCNGC	6 cut(s)	114, 624, 645, 878, 1116, 1238
GsaI	CCCAGC	1 cut(s)	425
GsuI	CTGGAG	1 cut(s)	1104
HaeIII	GGCC	3 cut(s)	35, 760, 1010
HapII	CCGG	5 cut(s)	32, 133, 227, 351, 394
HhaI	GCGC	2 cut(s)	149, 411
Hin1II	CATG	2 cut(s)	283, 1055
Hin6I	GCGC	2 cut(s)	147, 409
HinP1I	GCGC	2 cut(s)	147, 409
HindIII	AAGCTT	1 cut(s)	243
HinfI	GANTC	2 cut(s)	608, 971
HpaII	CCGG	5 cut(s)	32, 133, 227, 351, 394
HphI	GGTGA	3 cut(s)	365, 383, 806
Hpy166II	GTNNAC	2 cut(s)	120, 594
Hpy188I	TCNGA	6 cut(s)	235, 441, 575, 812, 850, 1022
Hpy188III	TCNNGA	5 cut(s)	104, 428, 832, 930, 1046
Hpy8I	GTNNAC	2 cut(s)	120, 594
HpyAV	CCTTC	6 cut(s)	48, 79, 389, 455, 623, 742
HpyCH4III	ACNGT	1 cut(s)	724
HpyCH4IV	ACGT	1 cut(s)	12
HpyCH4V	TGCA	8 cut(s)	401, 602, 733, 1031, 1055, 1118, 1153, 1256
HpyF10VI	GCNNNNNNNGC	8 cut(s)	263, 632, 641, 950, 1037, 1169, 1243, 1258
HpySE526I	ACGT	1 cut(s)	12
Hsp92II	CATG	2 cut(s)	283, 1055
HspAI	GCGC	2 cut(s)	147, 409
Ksp22I	TGATCA	1 cut(s)	481
Kzo9I	GATC	5 cut(s)	230, 355, 481, 570, 1048
LmnI	GCTCC	2 cut(s)	514, 1243
Lsp1109I	GCAGC	6 cut(s)	100, 610, 631, 864, 1102, 1249
LweI	GCATC	6 cut(s)	317, 589, 927, 982, 1027, 1150
MaeI	CTAG	1 cut(s)	627
MaeII	ACGT	1 cut(s)	12
MaeIII	GTNAC	3 cut(s)	668, 794, 908
MalI	GATC	5 cut(s)	232, 357, 483, 572, 1050
MboI	GATC	5 cut(s)	230, 355, 481, 570, 1048
MboII	GAAGA	4 cut(s)	45, 181, 380, 608
MfeI	CAATTG	1 cut(s)	1032
MflI	RGATCY	1 cut(s)	230
MhlI	GDGCHC	3 cut(s)	198, 1110, 1174
MlsI	TGGCCA	1 cut(s)	1010
MluNI	TGGCCA	1 cut(s)	1010
MlyI	GAGTC	2 cut(s)	617, 965
MmeI	TCCRAC	1 cut(s)	567
Mox20I	TGGCCA	1 cut(s)	1010
MscI	TGGCCA	1 cut(s)	1010
MseI	TTAA	1 cut(s)	384
MslI	CAYNNNNRTG	2 cut(s)	1056, 1158
Msp20I	TGGCCA	1 cut(s)	1010
MspA1I	CMGCKG	2 cut(s)	113, 257
MspI	CCGG	5 cut(s)	32, 133, 227, 351, 394
MspR9I	CCNGG	2 cut(s)	32, 228
MunI	CAATTG	1 cut(s)	1032
MvnI	CGCG	1 cut(s)	147
MwoI	GCNNNNNNNGC	8 cut(s)	263, 632, 641, 950, 1037, 1169, 1243, 1258
NciI	CCSGG	2 cut(s)	32, 228
NdeII	GATC	5 cut(s)	230, 355, 481, 570, 1048
NlaIII	CATG	2 cut(s)	283, 1055
NlaIV	GGNNCC	5 cut(s)	30, 36, 377, 510, 856
NmeAIII	GCCGAG	1 cut(s)	179
NmuCI	GTSAC	1 cut(s)	794
NspV	TTCGAA	1 cut(s)	658
Pfl23II	CGTACG	1 cut(s)	688
PinAI	ACCGGT	1 cut(s)	350
PkrI	GCNGC	6 cut(s)	115, 625, 646, 879, 1117, 1239
PleI	GAGTC	2 cut(s)	616, 965
PpsI	GAGTC	2 cut(s)	616, 965
PpuMI	RGGWCCY	1 cut(s)	28
PsiI	TTATAA	1 cut(s)	893
Psp5II	RGGWCCY	1 cut(s)	28
PspFI	CCCAGC	1 cut(s)	421
PspLI	CGTACG	1 cut(s)	688
PspN4I	GGNNCC	5 cut(s)	30, 36, 377, 510, 856
PspPI	GGNCC	5 cut(s)	28, 34, 130, 142, 501
PspPPI	RGGWCCY	1 cut(s)	28
PsuI	RGATCY	1 cut(s)	230
PvuII	CAGCTG	1 cut(s)	257
RsaI	GTAC	2 cut(s)	119, 690
RsaNI	GTAC	2 cut(s)	118, 689
RseI	CAYNNNNRTG	2 cut(s)	1056, 1158
SaqAI	TTAA	1 cut(s)	384
SatI	GCNGC	6 cut(s)	114, 624, 645, 878, 1116, 1238
Sau3AI	GATC	5 cut(s)	230, 355, 481, 570, 1048
Sau96I	GGNCC	5 cut(s)	28, 34, 130, 142, 501
SchI	GAGTC	2 cut(s)	617, 965
ScrFI	CCNGG	2 cut(s)	32, 228
SduI	GDGCHC	3 cut(s)	198, 1110, 1174
SfaNI	GCATC	6 cut(s)	317, 589, 927, 982, 1027, 1150
SfcI	CTRYAG	2 cut(s)	639, 816
SfuI	TTCGAA	1 cut(s)	658
SinI	GGWCC	4 cut(s)	28, 130, 142, 501
SmiMI	CAYNNNNRTG	2 cut(s)	1056, 1158
SmlI	CTYRAG	1 cut(s)	104
SmoI	CTYRAG	1 cut(s)	104
SsiI	CCGC	3 cut(s)	111, 145, 175
SspMI	CTAG	1 cut(s)	627
StyD4I	CCNGG	2 cut(s)	30, 226
StyI	CCWWGG	4 cut(s)	123, 504, 649, 1011
TaaI	ACNGT	1 cut(s)	724
TaiI	ACGT	1 cut(s)	15
TaqI	TCGA	4 cut(s)	268, 658, 833, 931
Tru1I	TTAA	1 cut(s)	384
Tru9I	TTAA	1 cut(s)	384
TseFI	GTSAC	1 cut(s)	794
TseI	GCWGC	6 cut(s)	113, 623, 644, 877, 1115, 1237
Tsp45I	GTSAC	1 cut(s)	794
TspDTI	ATGAA	3 cut(s)	35, 296, 357
TspGWI	ACGGA	1 cut(s)	867
VpaK11BI	GGWCC	4 cut(s)	28, 130, 142, 501
XapI	RAATTY	4 cut(s)	660, 933, 1189, 1286
XmiI	GTMKAC	1 cut(s)	593
XspI	CTAG	1 cut(s)	627

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