Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0005882

Physical Location & Seq

Genomic Coordinates Forward (+)

433774 .. 435053

Gene Structure 1280 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000000300

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGAACCGAAGGCTGAATCTTGATATCCCTCAGAACAACACATTTTTGTTACCGCGAGATATATTGGCAGCTGCGGATCATTTGATTGGAATGAAATTTGGAATGGGTACACTTGACGATATGAATCATTTGAAAAATAAACGTATTCGGTCTGTCGCGGATCTTTTACAAGACCAATTCGGATTGGCCCTGGTTCGTTTAGAAAATATGGTTAGAGGGACTATATGCGGAGCAATTAAGCATAAATTGATACCCACTCCTCAGAATTTGGTAACTTCAACTCCATTAACAACCACTTATGAATCTTTTTTTGGATTACACCCATTATCTCAAGTTTTGGATCAAACTAATCCATTGACCCAAATAGTTCATGGGAGAAAATCGAGTTATCTGGGCCCTGGAGGATTGACAGGGCGAACTGCTAGTTTTCGGATACGAGATATTCACCCCAGTCACTACGGACGCATTTGCCCCATTGACACCTCTGAAGGAATCAATGTTGGACTTATTGGATCCTTAGCAATTCATGCGAAGATTGGTTATTGGGGGTCTCTAGAAAGTCCGTTTTATGAAATTTCTGAGAGATCAAAAAAAGTACGGATGCTTTATTTATCACCAAGTAAAGATGAATACTATATGATAGCGGCAGGAAATTCTTTGGCCTTGAATCGAGGTATTCAGGAAGAACAGGTTGTTCCAGCTCGATACCGTCAAGAATTCCTGACTGTTGAATGGGAACAGGTTCATCTTCGAAGTATTTTTCCCTTCCAATATTTTTCTATTGGAGCTTCCCTGATTCCTTTTATTGAGCATAATGATGCGAATCGAGCTTTAATGAGTTCTAATATGCAACGTCAAGCAGTTCCGCTCTCTCGGTCTGAAAAGTGCATTGTTGGAACTGGGTTGGAACGCCAAGTGGCTTTAGATTCCGGGGTTCCCGCTATAGCCGAACATGAGGGAAAGATCATTTATACGGATACTGACAAGATAATTTTATCGGGCAATGGGGATACTCTAAACATTCCATTAGTTATATACCAACGTTCCAACAAAAATACGTGTATGCACCAAAAACCCCAGGTTCAGCGAGGTAAATGTATTAAAAAGGGACAAATTTTAGCGGATGGTGCTGCTACGGTTGGTGGCGAACTCGCTTTGGGAAAAAATGTATTAGTAGCTTATATGCCGTGGGAGGGTTACAATTCTGAAGATGCGGTACTTATTAGTGAGCGTCTGGAAATATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006354 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009295 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0061695 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

415

Amino Acids

46.05

Weight (kDa)

8.66

Isoelectric Point (pI)

39.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_2	PF04561	1 - 50	6.6e-13	RNA polymerase Rpb2, domain 2
RNA_pol_Rpb2_3	PF04565	111 - 179	1.6e-23	RNA polymerase Rpb2, domain 3
RNA_pol_Rpb2_6	PF00562	316 - 412	2.7e-15	RNA polymerase Rpb2, domain 6

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005882)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00190
malus_domestica	MD01G1093300.v1.1 MD16G1169300.v1.1
pyrus_communis	pycom12397g00320 pycom14g07090
rosa_chinensis	RchiOBHm_CPg0502401
rosa_laevigata	RLG00000000047 RLG00000000087 RLG00000000116 RLG00000000175 RLG00000000231 RLG00000000246 RLG00000000284 RLG00000000299 RLG00000000300 RLG00000000314 RLG00000000318 RLG00000000340
rosa_multiflora	Rmu_sc0002986.1_g000010 Rmu_sc0008812.1_g000013 Rmu_sc0011830.1_g000003
rosa_roxburghii	Rroxscaffold_2G00119070
rosa_rugosa	Rorug02G0490800 RorugMtG0001900
rosa_samantha	Rh2AG293900 Rh2AG294000 Rh2DG317800 Rh2DG317900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	868
AccII	CGCG	2 cut(s)	55, 158
AciI	CCGC	9 cut(s)	53, 74, 158, 228, 644, 866, 939, 1121, 1214
AclI	AACGTT	1 cut(s)	1042
AclWI	GGATC	5 cut(s)	84, 168, 348, 507, 520
AcsI	RAATTY	6 cut(s)	95, 265, 573, 652, 716, 1113
AcuI	CTGAAG	2 cut(s)	507, 1227
AfaI	GTAC	3 cut(s)	109, 597, 1218
AfiI	CCNNNNNNNGG	1 cut(s)	1193
AflIII	ACRYGT	1 cut(s)	1058
AgsI	TTSAA	4 cut(s)	133, 279, 667, 731
AjnI	CCWGG	3 cut(s)	189, 397, 1077
AjuI	GAANNNNNNNTTGG	2 cut(s)	294, 326
AluBI	AGCT	5 cut(s)	71, 701, 788, 830, 1178
AluI	AGCT	5 cut(s)	71, 701, 788, 830, 1178
Alw26I	GTCTC	1 cut(s)	555
AlwI	GGATC	5 cut(s)	84, 168, 348, 507, 520
AoxI	GGCC	3 cut(s)	186, 394, 660
ApaI	GGGCCC	1 cut(s)	398
ApeKI	GCWGC	3 cut(s)	68, 71, 1130
ApoI	RAATTY	6 cut(s)	95, 265, 573, 652, 716, 1113
Asp700I	GAANNNNTTC	1 cut(s)	741
AspS9I	GGNCC	3 cut(s)	187, 394, 395
AsuC2I	CCSGG	1 cut(s)	931
AsuHPI	GGTGA	2 cut(s)	437, 606
AsuII	TTCGAA	1 cut(s)	751
BaeGI	GKGCMC	1 cut(s)	398
BamHI	GGATCC	1 cut(s)	512
BanII	GRGCYC	1 cut(s)	398
BarI	GAAGNNNNNNTAC	2 cut(s)	1200, 1232
BbvI	GCAGC	3 cut(s)	58, 80, 1117
BccI	CCATC	1 cut(s)	1118
BceAI	ACGGC	1 cut(s)	1171
BciT130I	CCWGG	3 cut(s)	191, 399, 1079
BciVI	GTATCC	3 cut(s)	426, 970, 1003
BcnI	CCSGG	1 cut(s)	931
BcoDI	GTCTC	1 cut(s)	555
BfaI	CTAG	2 cut(s)	423, 554
BfmI	CTRYAG	1 cut(s)	942
BfuI	GTATCC	3 cut(s)	426, 970, 1003
BisI	GCNGC	4 cut(s)	69, 72, 645, 1131
BlsI	GCNGC	4 cut(s)	70, 73, 646, 1132
Bme1390I	CCNGG	4 cut(s)	191, 399, 931, 1079
BmgT120I	GGNCC	3 cut(s)	187, 394, 395
BmiI	GGNNCC	3 cut(s)	396, 514, 936
BmrFI	CCNGG	4 cut(s)	191, 399, 931, 1079
BmrI	ACTGGG	2 cut(s)	444, 909
BmsI	GCATC	3 cut(s)	591, 808, 1201
BmuI	ACTGGG	2 cut(s)	444, 909
BpmI	CTGGAG	1 cut(s)	420
Bpu10I	CCTNAGC	1 cut(s)	517
Bpu14I	TTCGAA	1 cut(s)	751
BpuEI	CTTGAG	1 cut(s)	315
BpuMI	CCSGG	1 cut(s)	931
BsaAI	YACGTR	1 cut(s)	1059
BsaBI	GATNNNNATC	2 cut(s)	123, 822
BsaI	GGTCTC	1 cut(s)	555
BsaJI	CCNNGG	5 cut(s)	189, 397, 930, 1077, 1187
BsaXI	ACNNNNNCTCC	2 cut(s)	265, 295
Bsc4I	CCNNNNNNNGG	1 cut(s)	1193
Bse1I	ACTGG	2 cut(s)	450, 904
Bse3DI	GCAATG	1 cut(s)	1009
Bse8I	GATNNNNATC	2 cut(s)	123, 822
BseBI	CCWGG	3 cut(s)	191, 399, 1079
BseDI	CCNNGG	5 cut(s)	189, 397, 930, 1077, 1187
BseGI	GGATG	2 cut(s)	606, 1129
BseJI	GATNNNNATC	2 cut(s)	123, 822
BseLI	CCNNNNNNNGG	1 cut(s)	1193
BseMI	GCAATG	1 cut(s)	1009
BseMII	CTCAG	3 cut(s)	44, 275, 570
BseNI	ACTGG	2 cut(s)	450, 904
BseRI	GAGGAG	1 cut(s)	249
BseSI	GKGCMC	1 cut(s)	398
BseXI	GCAGC	3 cut(s)	58, 80, 1117
Bsh1236I	CGCG	2 cut(s)	55, 158
BshFI	GGCC	3 cut(s)	188, 396, 662
BsiSI	CCGG	1 cut(s)	930
BslFI	GGGAC	2 cut(s)	232, 1122
BslI	CCNNNNNNNGG	1 cut(s)	1193
BsmAI	GTCTC	1 cut(s)	555
BsmFI	GGGAC	2 cut(s)	232, 1122
BsnI	GGCC	3 cut(s)	188, 396, 662
Bso31I	GGTCTC	1 cut(s)	555
Bsp119I	TTCGAA	1 cut(s)	751
Bsp120I	GGGCCC	1 cut(s)	394
Bsp1286I	GDGCHC	1 cut(s)	398
Bsp143I	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
BspACI	CCGC	9 cut(s)	53, 74, 158, 228, 644, 866, 939, 1121, 1214
BspANI	GGCC	3 cut(s)	188, 396, 662
BspCNI	CTCAG	3 cut(s)	43, 274, 571
BspFNI	CGCG	2 cut(s)	55, 158
BspLI	GGNNCC	3 cut(s)	396, 514, 936
BspPI	GGATC	5 cut(s)	84, 168, 348, 507, 520
BspT104I	TTCGAA	1 cut(s)	751
BspTNI	GGTCTC	1 cut(s)	555
BsrBI	CCGCTC	1 cut(s)	868
BsrDI	GCAATG	1 cut(s)	1009
BsrI	ACTGG	2 cut(s)	450, 904
BssECI	CCNNGG	5 cut(s)	189, 397, 930, 1077, 1187
BssMI	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
Bst2UI	CCWGG	3 cut(s)	191, 399, 1079
Bst4CI	ACNGT	3 cut(s)	710, 727, 1138
BstAPI	GCANNNNNTGC	1 cut(s)	527
BstBAI	YACGTR	1 cut(s)	1059
BstBI	TTCGAA	1 cut(s)	751
BstDEI	CTNAG	4 cut(s)	30, 261, 517, 579
BstDSI	CCRYGG	1 cut(s)	1187
BstF5I	GGATG	2 cut(s)	606, 1129
BstFNI	CGCG	2 cut(s)	55, 158
BstKTI	GATC	6 cut(s)	79, 163, 343, 515, 587, 966
BstMAI	GTCTC	1 cut(s)	555
BstMBI	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
BstMWI	GCNNNNNNNGC	3 cut(s)	527, 827, 1127
BstNI	CCWGG	3 cut(s)	191, 399, 1079
BstSCI	CCNGG	4 cut(s)	189, 397, 929, 1077
BstSFI	CTRYAG	1 cut(s)	942
BstSLI	GKGCMC	1 cut(s)	398
BstUI	CGCG	2 cut(s)	55, 158
BstV1I	GCAGC	3 cut(s)	58, 80, 1117
BstX2I	RGATCY	2 cut(s)	160, 512
BstYI	RGATCY	2 cut(s)	160, 512
BsuI	GTATCC	3 cut(s)	426, 970, 1003
BsuRI	GGCC	3 cut(s)	188, 396, 662
BtgI	CCRYGG	1 cut(s)	1187
BtsCI	GGATG	2 cut(s)	606, 1129
Cfr13I	GGNCC	3 cut(s)	187, 394, 395
CseI	GACGC	2 cut(s)	471, 1220
Csp6I	GTAC	3 cut(s)	108, 596, 1217
CviAII	CATG	3 cut(s)	371, 527, 953
CviQI	GTAC	3 cut(s)	108, 596, 1217
DdeI	CTNAG	4 cut(s)	30, 261, 517, 579
DpnI	GATC	6 cut(s)	78, 162, 342, 514, 586, 965
DpnII	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
Eco24I	GRGCYC	1 cut(s)	398
Eco31I	GGTCTC	1 cut(s)	555
Eco32I	GATATC	1 cut(s)	25
Eco57I	CTGAAG	2 cut(s)	507, 1227
EcoO109I	RGGNCCY	1 cut(s)	395
EcoRI	GAATTC	1 cut(s)	716
EcoRII	CCWGG	3 cut(s)	189, 397, 1077
EcoRV	GATATC	1 cut(s)	25
EcoT38I	GRGCYC	1 cut(s)	398
FaeI	CATG	3 cut(s)	374, 530, 956
FaqI	GGGAC	2 cut(s)	232, 1122
FatI	CATG	3 cut(s)	370, 526, 952
FauI	CCCGC	1 cut(s)	946
Fnu4HI	GCNGC	4 cut(s)	69, 72, 645, 1131
FokI	GGATG	2 cut(s)	613, 1136
FriOI	GRGCYC	1 cut(s)	398
Fsp4HI	GCNGC	4 cut(s)	69, 72, 645, 1131
FspBI	CTAG	2 cut(s)	423, 554
GluI	GCNGC	4 cut(s)	69, 72, 645, 1131
GsuI	CTGGAG	1 cut(s)	420
HaeIII	GGCC	3 cut(s)	188, 396, 662
HapII	CCGG	1 cut(s)	930
HgaI	GACGC	2 cut(s)	471, 1220
Hin1II	CATG	3 cut(s)	374, 530, 956
HinfI	GANTC	8 cut(s)	16, 124, 302, 492, 667, 796, 823, 926
HpaII	CCGG	1 cut(s)	930
HphI	GGTGA	2 cut(s)	437, 606
Hpy166II	GTNNAC	1 cut(s)	110
Hpy188I	TCNGA	8 cut(s)	33, 182, 264, 432, 487, 580, 880, 1207
Hpy188III	TCNNGA	6 cut(s)	20, 554, 680, 713, 721, 1235
Hpy8I	GTNNAC	1 cut(s)	110
HpyAV	CCTTC	3 cut(s)	3, 482, 775
HpyCH4III	ACNGT	3 cut(s)	710, 727, 1138
HpyCH4IV	ACGT	4 cut(s)	142, 853, 1042, 1058
HpyCH4V	TGCA	3 cut(s)	850, 888, 1066
HpyF10VI	GCNNNNNNNGC	3 cut(s)	527, 827, 1127
HpyF3I	CTNAG	4 cut(s)	30, 261, 517, 579
HpySE526I	ACGT	4 cut(s)	142, 853, 1042, 1058
Hsp92II	CATG	3 cut(s)	374, 530, 956
Kzo9I	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
LmnI	GCTCC	2 cut(s)	230, 785
Lsp1109I	GCAGC	3 cut(s)	58, 80, 1117
LweI	GCATC	3 cut(s)	591, 808, 1201
MaeI	CTAG	2 cut(s)	423, 554
MaeII	ACGT	4 cut(s)	142, 853, 1042, 1058
MaeIII	GTNAC	4 cut(s)	48, 271, 452, 1196
MalI	GATC	6 cut(s)	78, 162, 342, 514, 586, 965
MbiI	CCGCTC	1 cut(s)	868
MboI	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
MboII	GAAGA	4 cut(s)	544, 695, 740, 1220
MflI	RGATCY	2 cut(s)	160, 512
MhlI	GDGCHC	1 cut(s)	398
MmeI	TCCRAC	4 cut(s)	481, 874, 885, 1071
MnlI	CCTC	9 cut(s)	39, 209, 270, 395, 493, 665, 949, 1082, 1186
MroXI	GAANNNNTTC	1 cut(s)	741
MseI	TTAA	4 cut(s)	237, 287, 833, 1101
MslI	CAYNNNNRTG	1 cut(s)	816
MspA1I	CMGCKG	1 cut(s)	71
MspI	CCGG	1 cut(s)	930
MspR9I	CCNGG	4 cut(s)	191, 399, 931, 1079
MvaI	CCWGG	3 cut(s)	191, 399, 1079
MvnI	CGCG	2 cut(s)	55, 158
MwoI	GCNNNNNNNGC	3 cut(s)	527, 827, 1127
NciI	CCSGG	1 cut(s)	931
NdeII	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
NlaIII	CATG	3 cut(s)	374, 530, 956
NlaIV	GGNNCC	3 cut(s)	396, 514, 936
NmuCI	GTSAC	1 cut(s)	452
NspV	TTCGAA	1 cut(s)	751
PdmI	GAANNNNTTC	1 cut(s)	741
PfeI	GAWTC	8 cut(s)	16, 124, 302, 492, 667, 796, 823, 926
PkrI	GCNGC	4 cut(s)	70, 73, 646, 1132
Ppu21I	YACGTR	1 cut(s)	1059
Psp1406I	AACGTT	1 cut(s)	1042
Psp6I	CCWGG	3 cut(s)	189, 397, 1077
PspGI	CCWGG	3 cut(s)	189, 397, 1077
PspN4I	GGNNCC	3 cut(s)	396, 514, 936
PspOMI	GGGCCC	1 cut(s)	394
PspPI	GGNCC	3 cut(s)	187, 394, 395
PsuI	RGATCY	2 cut(s)	160, 512
PvuII	CAGCTG	1 cut(s)	71
RsaI	GTAC	3 cut(s)	109, 597, 1218
RsaNI	GTAC	3 cut(s)	108, 596, 1217
RseI	CAYNNNNRTG	1 cut(s)	816
SaqAI	TTAA	4 cut(s)	237, 287, 833, 1101
SatI	GCNGC	4 cut(s)	69, 72, 645, 1131
Sau3AI	GATC	6 cut(s)	76, 160, 340, 512, 584, 963
Sau96I	GGNCC	3 cut(s)	187, 394, 395
ScrFI	CCNGG	4 cut(s)	191, 399, 931, 1079
SduI	GDGCHC	1 cut(s)	398
SfaNI	GCATC	3 cut(s)	591, 808, 1201
SfcI	CTRYAG	1 cut(s)	942
SfuI	TTCGAA	1 cut(s)	751
SmiMI	CAYNNNNRTG	1 cut(s)	816
SmlI	CTYRAG	1 cut(s)	330
SmoI	CTYRAG	1 cut(s)	330
SsiI	CCGC	9 cut(s)	53, 74, 158, 228, 644, 866, 939, 1121, 1214
SspI	AATATT	1 cut(s)	773
SspMI	CTAG	2 cut(s)	423, 554
StyD4I	CCNGG	4 cut(s)	189, 397, 929, 1077
TaaI	ACNGT	3 cut(s)	710, 727, 1138
TaiI	ACGT	4 cut(s)	145, 856, 1045, 1061
TaqI	TCGA	5 cut(s)	383, 670, 703, 751, 826
TaqII	GACCGA	2 cut(s)	138, 864
TauI	GCSGC	1 cut(s)	647
TfiI	GAWTC	8 cut(s)	16, 124, 302, 492, 667, 796, 823, 926
Tru1I	TTAA	4 cut(s)	237, 287, 833, 1101
Tru9I	TTAA	4 cut(s)	237, 287, 833, 1101
TseFI	GTSAC	1 cut(s)	452
TseI	GCWGC	3 cut(s)	68, 71, 1130
Tsp45I	GTSAC	1 cut(s)	452
TspDTI	ATGAA	9 cut(s)	17, 107, 137, 315, 359, 515, 585, 642, 734
TspGWI	ACGGA	4 cut(s)	474, 552, 613, 989
XapI	RAATTY	6 cut(s)	95, 265, 573, 652, 716, 1113
XbaI	TCTAGA	1 cut(s)	553
XcmI	CCANNNNNNNNNTGG	1 cut(s)	368
XmnI	GAANNNNTTC	1 cut(s)	741
XspI	CTAG	2 cut(s)	423, 554

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