Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0004335

Physical Location & Seq

Genomic Coordinates Forward (+)

14556310 .. 14558198

Gene Structure 1889 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000027736

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGGATGGGAAATCGTACCAGAGGTTCCCTCGGGTGAAAATCCCTGAAATCAGGCACGATTACCTCAAGTTCAAGCTCCACGACACCGACGGGAGAGTGGCCAACGGGCTCCGGCGCGTGATGCTAGCCGAGGTCCCGACCGTCTCCATCGACCTCGTCGAGATCGAAATCAACTCCTCCGTCCTCAAAGACGAGTTTGTCGCCCACCGCCTCGGCCTCATCCCCTTGACCAACGATCGCGCCATGAGCTTGCGCTTCTCACGTGACTGCGCGATGCCTGCGACGCTCCGACCACACCGTCGTCCCGTCAATTTCTCCGACTCATCCGGTTACAAAGCTTCCAAACAGAGAGGGATTATCATATTGAAGTTGCAAAGGGGGCAAGAGCTGAGGCTGAGGGCTATTGCTAGAAAAGGGATTGATTCATTGAGTGGATTGGTTGCTGTTGTTATGGGATTGATGAGGACACCCATAATGGTGGACAAGAACTTCTATTTCCAGTTTATCAAGTCTTTCAGTGCAGGGATACAATGCAGCTCTCAAGAACTAATTCTTTTGATATCCTTGTCATCTTCCTTCCTCAATGCCCTTAGACTCTGGGAAAGAGATGGGACCCGAGTTTTGGTTCCAACTGCAGGAGGGTTTATGATTGAGTTGTTTGTCTCCAAAGATGTCTCCGAGGACCAGCATGTCATTGATTTCATCACAGCACAATTCAACATTTGGTGCGAGCAAGACACCCTGATCAGTGCAAGCAACACATGTAGTACAAACACCCCTGTATTTTCCCCATCAATGGCATCATTGGATCCTCATATATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0003002 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005730 GO:0005737 GO:0007275 GO:0007389 GO:0008150 GO:0009791 GO:0009888 GO:0010374 GO:0010375 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0048856 GO:0055029 GO:0061695 GO:0070013 GO:0090558 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_A_bac RNA_pol_L

Protein Analysis

274

Amino Acids

30.73

Weight (kDa)

9.25

Isoelectric Point (pI)

43.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L	PF01193	23 - 125	1.1e-06	RNA polymerase Rpb3/Rpb11 dimerisation domain

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: OG0004335)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15400 AT2G15400 AT2G15430 AT2G15430 AT2G15430
fragaria_vesca	FvH4_2g05450
malus_domestica	MD05G1087400.v1.1 MD10G1096200.v1.1
prunus_persica	Prupe.8G132000_v2.0.a1 Prupe.8G132000_v2.0.a1 Prupe.8G132400_v2.0.a1
pyrus_communis	pycom05g08690
rosa_chinensis	RchiOBHm_Chr5g0063881 RchiOBHm_Chr6g0255731
rosa_laevigata	RLG00000014818 RLG00000027736
rosa_multiflora	Rmu_sc0009240.1_g000038 Rmu_ssc0000136.1_g000018
rosa_roxburghii	Rroxscaffold_7G00209720
rosa_rugosa	Rorug05G0560800 Rorug06G0006400
rosa_samantha	Rh1DG021100 Rh2DG345600 Rh2DG346900 Rh5CG269200 Rh6AG078900 Rh6BG072000 Rh6CG070100 Rh6DG067300 Rh7AG302700 Rh7CG321200
rosa_wichuraiana	Rw6G006800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	3 cut(s)	197, 297, 689
AccII	CGCG	3 cut(s)	117, 240, 272
AciI	CCGC	1 cut(s)	208
AclWI	GGATC	2 cut(s)	803, 816
AcoI	YGGCCR	1 cut(s)	99
AcvI	CACGTG	1 cut(s)	263
AfaI	GTAC	2 cut(s)	17, 769
AfiI	CCNNNNNNNGG	3 cut(s)	622, 635, 796
AflIII	ACRYGT	1 cut(s)	761
AgsI	TTSAA	3 cut(s)	73, 367, 718
AluBI	AGCT	5 cut(s)	76, 249, 338, 388, 537
AluI	AGCT	5 cut(s)	76, 249, 338, 388, 537
Alw26I	GTCTC	3 cut(s)	148, 667, 679
AlwI	GGATC	2 cut(s)	803, 816
Ama87I	CYCGRG	2 cut(s)	30, 615
AoxI	GGCC	2 cut(s)	99, 214
ApeKI	GCWGC	1 cut(s)	534
ArsI	GACNNNNNNTTYG	2 cut(s)	604, 636
Asp700I	GAANNNNTTC	1 cut(s)	549
AspLEI	GCGC	4 cut(s)	117, 242, 255, 272
AspS9I	GGNCC	3 cut(s)	133, 612, 682
AsuHPI	GGTGA	1 cut(s)	46
AsuNHI	GCTAGC	1 cut(s)	124
AvaI	CYCGRG	2 cut(s)	30, 615
AvaII	GGWCC	3 cut(s)	133, 612, 682
BalI	TGGCCA	1 cut(s)	101
BamHI	GGATCC	1 cut(s)	808
BanII	GRGCYC	1 cut(s)	111
BbrPI	CACGTG	1 cut(s)	263
BbvCI	CCTCAGC	2 cut(s)	389, 395
BbvI	GCAGC	1 cut(s)	546
BccI	CCATC	3 cut(s)	155, 602, 799
BciVI	GTATCC	1 cut(s)	519
BclI	TGATCA	1 cut(s)	744
BcoDI	GTCTC	3 cut(s)	148, 667, 679
BfaI	CTAG	2 cut(s)	125, 408
BfmI	CTRYAG	1 cut(s)	633
BfuI	GTATCC	1 cut(s)	519
BisI	GCNGC	1 cut(s)	535
BlsI	GCNGC	1 cut(s)	536
Bme18I	GGWCC	3 cut(s)	133, 612, 682
BmeT110I	CYCGRG	2 cut(s)	30, 615
BmgT120I	GGNCC	3 cut(s)	133, 612, 682
BmiI	GGNNCC	7 cut(s)	26, 110, 135, 613, 614, 627, 810
BmsI	GCATC	3 cut(s)	111, 264, 809
BmtI	GCTAGC	1 cut(s)	128
BplI	GAGNNNNNCTC	2 cut(s)	13, 45
Bpu10I	CCTNAGC	2 cut(s)	389, 395
BpuEI	CTTGAG	2 cut(s)	50, 525
BsaAI	YACGTR	1 cut(s)	263
BsaBI	GATNNNNATC	1 cut(s)	167
BsaJI	CCNNGG	4 cut(s)	29, 129, 211, 678
BsaWI	WCCGGW	1 cut(s)	326
Bsc4I	CCNNNNNNNGG	3 cut(s)	622, 635, 796
Bse1I	ACTGG	1 cut(s)	499
Bse8I	GATNNNNATC	1 cut(s)	167
BseDI	CCNNGG	4 cut(s)	29, 129, 211, 678
BseGI	GGATG	3 cut(s)	10, 219, 323
BseJI	GATNNNNATC	1 cut(s)	167
BseLI	CCNNNNNNNGG	3 cut(s)	622, 635, 796
BseMII	CTCAG	2 cut(s)	380, 386
BseNI	ACTGG	1 cut(s)	499
BseRI	GAGGAG	1 cut(s)	166
BseXI	GCAGC	1 cut(s)	546
BsgI	GTGCAG	1 cut(s)	540
Bsh1236I	CGCG	3 cut(s)	117, 240, 272
Bsh1285I	CGRYCG	2 cut(s)	141, 238
BshFI	GGCC	2 cut(s)	101, 216
BsiEI	CGRYCG	2 cut(s)	141, 238
BsiHKCI	CYCGRG	2 cut(s)	30, 615
BsiSI	CCGG	2 cut(s)	112, 327
BslFI	GGGAC	3 cut(s)	119, 288, 625
BslI	CCNNNNNNNGG	3 cut(s)	622, 635, 796
BsmAI	GTCTC	3 cut(s)	148, 667, 679
BsmBI	CGTCTC	1 cut(s)	148
BsmFI	GGGAC	3 cut(s)	119, 288, 625
BsnI	GGCC	2 cut(s)	101, 216
BsoBI	CYCGRG	2 cut(s)	30, 615
Bsp1286I	GDGCHC	1 cut(s)	111
Bsp143I	GATC	4 cut(s)	162, 235, 744, 808
BspACI	CCGC	1 cut(s)	208
BspANI	GGCC	2 cut(s)	101, 216
BspCNI	CTCAG	2 cut(s)	381, 387
BspFNI	CGCG	3 cut(s)	117, 240, 272
BspLI	GGNNCC	7 cut(s)	26, 110, 135, 613, 614, 627, 810
BspMAI	CTGCAG	1 cut(s)	637
BspOI	GCTAGC	1 cut(s)	128
BspPI	GGATC	2 cut(s)	803, 816
BsrI	ACTGG	1 cut(s)	499
BssECI	CCNNGG	4 cut(s)	29, 129, 211, 678
BssMI	GATC	4 cut(s)	162, 235, 744, 808
Bst4CI	ACNGT	2 cut(s)	142, 299
BstBAI	YACGTR	1 cut(s)	263
BstC8I	GCNNGC	5 cut(s)	126, 251, 279, 731, 754
BstDEI	CTNAG	3 cut(s)	389, 395, 590
BstF5I	GGATG	3 cut(s)	10, 219, 323
BstFNI	CGCG	3 cut(s)	117, 240, 272
BstHHI	GCGC	4 cut(s)	117, 242, 255, 272
BstKTI	GATC	4 cut(s)	165, 238, 747, 811
BstMAI	GTCTC	3 cut(s)	148, 667, 679
BstMBI	GATC	4 cut(s)	162, 235, 744, 808
BstMCI	CGRYCG	2 cut(s)	141, 238
BstMWI	GCNNNNNNNGC	5 cut(s)	121, 246, 278, 283, 379
BstNSI	RCATGY	2 cut(s)	692, 765
BstSFI	CTRYAG	1 cut(s)	633
BstUI	CGCG	3 cut(s)	117, 240, 272
BstV1I	GCAGC	1 cut(s)	546
BstX2I	RGATCY	1 cut(s)	808
BstXI	CCANNNNNNTGG	1 cut(s)	478
BstYI	RGATCY	1 cut(s)	808
BsuI	GTATCC	1 cut(s)	519
BsuRI	GGCC	2 cut(s)	101, 216
BtgZI	GCGATG	1 cut(s)	287
BtsCI	GGATG	3 cut(s)	10, 219, 323
BtsIMutI	CAGTG	2 cut(s)	523, 754
Cac8I	GCNNGC	5 cut(s)	126, 251, 279, 731, 754
CfoI	GCGC	4 cut(s)	117, 242, 255, 272
Cfr13I	GGNCC	3 cut(s)	133, 612, 682
CseI	GACGC	1 cut(s)	292
Csp6I	GTAC	2 cut(s)	16, 768
CviAII	CATG	3 cut(s)	244, 689, 762
CviQI	GTAC	2 cut(s)	16, 768
DdeI	CTNAG	3 cut(s)	389, 395, 590
DpnI	GATC	4 cut(s)	164, 237, 746, 810
DpnII	GATC	4 cut(s)	162, 235, 744, 808
DrdI	GACNNNNNNGTC	3 cut(s)	197, 297, 689
DseDI	GACNNNNNNGTC	3 cut(s)	197, 297, 689
EaeI	YGGCCR	1 cut(s)	99
Eco24I	GRGCYC	1 cut(s)	111
Eco32I	GATATC	1 cut(s)	561
Eco47I	GGWCC	3 cut(s)	133, 612, 682
Eco72I	CACGTG	1 cut(s)	263
Eco88I	CYCGRG	2 cut(s)	30, 615
EcoO109I	RGGNCCY	2 cut(s)	133, 612
EcoRV	GATATC	1 cut(s)	561
EcoT38I	GRGCYC	1 cut(s)	111
Esp3I	CGTCTC	1 cut(s)	148
FaeI	CATG	3 cut(s)	247, 692, 765
FaqI	GGGAC	3 cut(s)	119, 288, 625
FatI	CATG	3 cut(s)	243, 688, 761
FbaI	TGATCA	1 cut(s)	744
Fnu4HI	GCNGC	1 cut(s)	535
FokI	GGATG	3 cut(s)	17, 206, 310
FriOI	GRGCYC	1 cut(s)	111
Fsp4HI	GCNGC	1 cut(s)	535
FspBI	CTAG	2 cut(s)	125, 408
GlaI	GCGC	4 cut(s)	116, 241, 254, 271
GluI	GCNGC	1 cut(s)	535
HaeIII	GGCC	2 cut(s)	101, 216
HapII	CCGG	2 cut(s)	112, 327
HgaI	GACGC	1 cut(s)	292
HhaI	GCGC	4 cut(s)	117, 242, 255, 272
Hin1II	CATG	3 cut(s)	247, 692, 765
Hin6I	GCGC	4 cut(s)	115, 240, 253, 270
HinP1I	GCGC	4 cut(s)	115, 240, 253, 270
HindIII	AAGCTT	1 cut(s)	336
HinfI	GANTC	3 cut(s)	320, 422, 594
HpaII	CCGG	2 cut(s)	112, 327
HphI	GGTGA	1 cut(s)	46
Hpy166II	GTNNAC	1 cut(s)	481
Hpy188I	TCNGA	3 cut(s)	290, 319, 679
Hpy188III	TCNNGA	3 cut(s)	136, 160, 542
Hpy8I	GTNNAC	1 cut(s)	481
Hpy99I	CGWCG	4 cut(s)	92, 161, 286, 303
HpyAV	CCTTC	1 cut(s)	586
HpyCH4III	ACNGT	2 cut(s)	142, 299
HpyCH4IV	ACGT	1 cut(s)	262
HpyCH4V	TGCA	5 cut(s)	373, 521, 534, 635, 752
HpyF10VI	GCNNNNNNNGC	5 cut(s)	121, 246, 278, 283, 379
HpyF3I	CTNAG	3 cut(s)	389, 395, 590
HpySE526I	ACGT	1 cut(s)	262
Hsp92II	CATG	3 cut(s)	247, 692, 765
HspAI	GCGC	4 cut(s)	115, 240, 253, 270
KflI	GGGWCCC	1 cut(s)	612
Ksp22I	TGATCA	1 cut(s)	744
Kzo9I	GATC	4 cut(s)	162, 235, 744, 808
LmnI	GCTCC	3 cut(s)	81, 114, 291
Lsp1109I	GCAGC	1 cut(s)	546
LweI	GCATC	3 cut(s)	111, 264, 809
MaeI	CTAG	2 cut(s)	125, 408
MaeII	ACGT	1 cut(s)	262
MaeIII	GTNAC	2 cut(s)	263, 329
MalI	GATC	4 cut(s)	164, 237, 746, 810
MboI	GATC	4 cut(s)	162, 235, 744, 808
MboII	GAAGA	1 cut(s)	564
MflI	RGATCY	1 cut(s)	808
MhlI	GDGCHC	1 cut(s)	111
MlsI	TGGCCA	1 cut(s)	101
MluCI	AATT	3 cut(s)	310, 549, 713
MluNI	TGGCCA	1 cut(s)	101
MlyI	GAGTC	2 cut(s)	314, 588
MmeI	TCCRAC	3 cut(s)	313, 342, 653
Mox20I	TGGCCA	1 cut(s)	101
MroXI	GAANNNNTTC	1 cut(s)	549
MscI	TGGCCA	1 cut(s)	101
MslI	CAYNNNNRTG	1 cut(s)	476
Msp20I	TGGCCA	1 cut(s)	101
MspI	CCGG	2 cut(s)	112, 327
MvnI	CGCG	3 cut(s)	117, 240, 272
MwoI	GCNNNNNNNGC	5 cut(s)	121, 246, 278, 283, 379
NdeII	GATC	4 cut(s)	162, 235, 744, 808
NheI	GCTAGC	1 cut(s)	124
NlaIII	CATG	3 cut(s)	247, 692, 765
NlaIV	GGNNCC	7 cut(s)	26, 110, 135, 613, 614, 627, 810
NmeAIII	GCCGAG	2 cut(s)	154, 192
NmuCI	GTSAC	1 cut(s)	263
NspI	RCATGY	2 cut(s)	692, 765
PciI	ACATGT	1 cut(s)	761
PcsI	WCGNNNNNNNCGW	2 cut(s)	156, 162
PdmI	GAANNNNTTC	1 cut(s)	549
PfeI	GAWTC	1 cut(s)	422
PflFI	GACNNNGTC	1 cut(s)	155
PkrI	GCNGC	1 cut(s)	536
Ple19I	CGATCG	1 cut(s)	238
PleI	GAGTC	2 cut(s)	314, 588
PmaCI	CACGTG	1 cut(s)	263
PmlI	CACGTG	1 cut(s)	263
PpsI	GAGTC	2 cut(s)	314, 588
Ppu21I	YACGTR	1 cut(s)	263
PpuMI	RGGWCCY	2 cut(s)	133, 612
PscI	ACATGT	1 cut(s)	761
Psp5II	RGGWCCY	2 cut(s)	133, 612
PspCI	CACGTG	1 cut(s)	263
PspN4I	GGNNCC	7 cut(s)	26, 110, 135, 613, 614, 627, 810
PspPI	GGNCC	3 cut(s)	133, 612, 682
PspPPI	RGGWCCY	2 cut(s)	133, 612
PsrI	GAACNNNNNNTAC	2 cut(s)	8, 40
PstI	CTGCAG	1 cut(s)	637
PsuI	RGATCY	1 cut(s)	808
PsyI	GACNNNGTC	1 cut(s)	155
PvuI	CGATCG	1 cut(s)	238
RsaI	GTAC	2 cut(s)	17, 769
RsaNI	GTAC	2 cut(s)	16, 768
RseI	CAYNNNNRTG	1 cut(s)	476
SatI	GCNGC	1 cut(s)	535
Sau3AI	GATC	4 cut(s)	162, 235, 744, 808
Sau96I	GGNCC	3 cut(s)	133, 612, 682
SchI	GAGTC	2 cut(s)	314, 588
SduI	GDGCHC	1 cut(s)	111
SfaNI	GCATC	3 cut(s)	111, 264, 809
SfcI	CTRYAG	1 cut(s)	633
SinI	GGWCC	3 cut(s)	133, 612, 682
SmiMI	CAYNNNNRTG	1 cut(s)	476
SmlI	CTYRAG	2 cut(s)	65, 540
SmoI	CTYRAG	2 cut(s)	65, 540
Sse9I	AATT	3 cut(s)	310, 549, 713
SsiI	CCGC	1 cut(s)	208
SspMI	CTAG	2 cut(s)	125, 408
TaaI	ACNGT	2 cut(s)	142, 299
TaiI	ACGT	1 cut(s)	265
TaqI	TCGA	3 cut(s)	150, 159, 165
TasI	AATT	3 cut(s)	310, 549, 713
TatI	WGTACW	1 cut(s)	767
TfiI	GAWTC	1 cut(s)	422
TscAI	CASTG	2 cut(s)	523, 754
TseFI	GTSAC	1 cut(s)	263
TseI	GCWGC	1 cut(s)	534
Tsp45I	GTSAC	1 cut(s)	263
TspDTI	ATGAA	2 cut(s)	414, 691
TspGWI	ACGGA	1 cut(s)	169
TspRI	CASTG	2 cut(s)	523, 754
Tth111I	GACNNNGTC	1 cut(s)	155
VpaK11BI	GGWCC	3 cut(s)	133, 612, 682
XceI	RCATGY	2 cut(s)	692, 765
XmnI	GAANNNNTTC	1 cut(s)	549
XspI	CTAG	2 cut(s)	125, 408

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