Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004203

Physical Location & Seq

Genomic Coordinates Reverse (-)

44976554 .. 44979560

Gene Structure 3007 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019027

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGGCCTTGGGCTTTGCTGGGCAAGGCCCTGATGGCTTACACGTTGAAGAAGACACCACCAACCAACAACGACATCTCCTCAATTGCACCAAAAAACGACATGTCGTAACAAGGGAGCTCCAGTTTGAAAAGCGAAGAAACAAAAACGCAGAGGAATCCCAAGCCCTTCTTCACTTCAACTCCTCCCTCGTCACGTTTGAGTCTTCATCGCCTGGAGTAATACCTCTCACCGTCCCACGATTCAGCAAGTTCTGTAAAGAAATGGAACTTGGGACCCTTTCTGATCCCAGCCAATCCACATTCTCTTTGGTTGATGAGGACCACACATTTGCAAATGCTATCAGATTTACTTTGAATCAGGATCCAAGGACGAAATTCTGTGGGTACAGCATTCCTCATCCATCAGATAACCGGGTTAATATTAGAATCCAGACTACAGGTGATCCAGCAAAAGATGTATTCAAAGATGCATGTCAGGATCTCATGGTGATGTGCCAGCATGTGAGCAACACTTTTGACAAGGCTGTGGTTGATTTCAAAATGAGCAAGTCTGTGGATGGCATGGATATTGAATCAAATATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_L_2

Protein Analysis

195

Amino Acids

21.83

Weight (kDa)

5.96

Isoelectric Point (pI)

51.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L_2	PF13656	99 - 170	6.4e-27	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_L	PF01193	100 - 162	9.9e-10	RNA polymerase Rpb3/Rpb11 dimerisation domain

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

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004203)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29540 AT2G29540 AT2G29540
fragaria_vesca	FvH4_6g26980 FvH4_7g06540
malus_domestica	MD10G1078400.v1.1
prunus_persica	Prupe.2G047700_v2.0.a1 Prupe.2G047700_v2.0.a1 Prupe.3G125300_v2.0.a1 Prupe.3G125300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0334971 RchiOBHm_Chr2g0128821
rosa_laevigata	RLG00000019027
rosa_multiflora	Rmu_sc0007061.1_g000007 Rmu_sc0009556.1_g000001
rosa_roxburghii	Rroxscaffold_2G00115240 Rroxscaffold_4G00316330
rosa_rugosa	Rorug01G0118200 Rorug02G0281300 Rorug02G0281400 Rorug02G0281500 Rorug02G0281600 Rorug02G0281600
rosa_samantha	Rh1AG141500 Rh1BG110000 Rh1CG133400 Rh1DG146100 Rh2AG334100 Rh2BG342100 Rh2CG321000 Rh2DG358800
rosa_wichuraiana	Rw1G011740 Rw2G027000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	5 cut(s)	278, 356, 369, 437, 486
AcsI	RAATTY	1 cut(s)	374
AfaI	GTAC	1 cut(s)	386
AflIII	ACRYGT	2 cut(s)	40, 100
AgsI	TTSAA	7 cut(s)	47, 128, 178, 355, 463, 538, 572
AjnI	CCWGG	1 cut(s)	211
AjuI	GAANNNNNNNTTGG	4 cut(s)	153, 185, 252, 284
AluBI	AGCT	1 cut(s)	118
AluI	AGCT	1 cut(s)	118
Alw21I	GWGCWC	1 cut(s)	120
AlwI	GGATC	5 cut(s)	278, 356, 369, 437, 486
AoxI	GGCC	2 cut(s)	3, 25
ApoI	RAATTY	1 cut(s)	374
ArsI	GACNNNNNNTTYG	2 cut(s)	311, 343
AspS9I	GGNCC	3 cut(s)	26, 273, 319
AsuC2I	CCSGG	1 cut(s)	413
AsuHPI	GGTGA	3 cut(s)	220, 452, 499
AvaII	GGWCC	2 cut(s)	273, 319
BamHI	GGATCC	1 cut(s)	361
BanII	GRGCYC	1 cut(s)	120
BbsI	GAAGAC	2 cut(s)	57, 195
Bbv12I	GWGCWC	1 cut(s)	120
BccI	CCATC	3 cut(s)	26, 409, 551
BciT130I	CCWGG	1 cut(s)	213
BcnI	CCSGG	1 cut(s)	413
BfmI	CTRYAG	1 cut(s)	435
BglI	GCCNNNNNGGC	1 cut(s)	33
Bme1390I	CCNGG	2 cut(s)	213, 413
Bme18I	GGWCC	2 cut(s)	273, 319
BmgT120I	GGNCC	3 cut(s)	26, 273, 319
BmiI	GGNNCC	3 cut(s)	274, 275, 363
BmrFI	CCNGG	2 cut(s)	213, 413
BmsI	GCATC	1 cut(s)	457
BpiI	GAAGAC	2 cut(s)	57, 195
BpmI	CTGGAG	2 cut(s)	104, 234
BpuMI	CCSGG	1 cut(s)	413
BsaJI	CCNNGG	2 cut(s)	6, 365
BsaXI	ACNNNNNCTCC	6 cut(s)	60, 90, 107, 137, 164, 194
Bse1I	ACTGG	1 cut(s)	121
BseBI	CCWGG	1 cut(s)	213
BseDI	CCNNGG	2 cut(s)	6, 365
BseGI	GGATG	2 cut(s)	397, 562
BseNI	ACTGG	1 cut(s)	121
BseRI	GAGGAG	2 cut(s)	68, 172
BseYI	CCCAGC	2 cut(s)	17, 287
BshFI	GGCC	2 cut(s)	5, 27
BsiHKAI	GWGCWC	1 cut(s)	120
BsiSI	CCGG	1 cut(s)	412
BslFI	GGGAC	2 cut(s)	218, 286
BsmFI	GGGAC	2 cut(s)	218, 286
BsmI	GAATGC	1 cut(s)	390
BsnI	GGCC	2 cut(s)	5, 27
Bsp1286I	GDGCHC	1 cut(s)	120
Bsp143I	GATC	4 cut(s)	283, 361, 442, 478
BspANI	GGCC	2 cut(s)	5, 27
BspLI	GGNNCC	3 cut(s)	274, 275, 363
BspPI	GGATC	5 cut(s)	278, 356, 369, 437, 486
BsrI	ACTGG	1 cut(s)	121
BssECI	CCNNGG	2 cut(s)	6, 365
BssMI	GATC	4 cut(s)	283, 361, 442, 478
BssT1I	CCWWGG	2 cut(s)	6, 365
Bst2UI	CCWGG	1 cut(s)	213
Bst4CI	ACNGT	1 cut(s)	232
BstC8I	GCNNGC	1 cut(s)	497
BstF5I	GGATG	2 cut(s)	397, 562
BstKTI	GATC	4 cut(s)	286, 364, 445, 481
BstMBI	GATC	4 cut(s)	283, 361, 442, 478
BstMWI	GCNNNNNNNGC	1 cut(s)	33
BstNI	CCWGG	1 cut(s)	213
BstNSI	RCATGY	3 cut(s)	104, 474, 503
BstSCI	CCNGG	2 cut(s)	211, 411
BstSFI	CTRYAG	1 cut(s)	435
BstV2I	GAAGAC	2 cut(s)	57, 195
BstX2I	RGATCY	2 cut(s)	361, 478
BstYI	RGATCY	2 cut(s)	361, 478
BsuRI	GGCC	2 cut(s)	5, 27
BtgZI	GCGATG	1 cut(s)	192
BtsCI	GGATG	2 cut(s)	397, 562
Cac8I	GCNNGC	1 cut(s)	497
Cfr13I	GGNCC	3 cut(s)	26, 273, 319
Csp6I	GTAC	1 cut(s)	385
CviAII	CATG	5 cut(s)	101, 471, 484, 500, 562
CviJI	RGCY	8 cut(s)	5, 12, 27, 36, 118, 164, 291, 524
CviKI_1	RGCY	8 cut(s)	5, 12, 27, 36, 118, 164, 291, 524
CviQI	GTAC	1 cut(s)	385
DpnI	GATC	4 cut(s)	285, 363, 444, 480
DpnII	GATC	4 cut(s)	283, 361, 442, 478
Ecl136II	GAGCTC	1 cut(s)	118
Eco130I	CCWWGG	2 cut(s)	6, 365
Eco24I	GRGCYC	1 cut(s)	120
Eco47I	GGWCC	2 cut(s)	273, 319
Eco53kI	GAGCTC	1 cut(s)	118
EcoICRI	GAGCTC	1 cut(s)	118
EcoO109I	RGGNCCY	2 cut(s)	26, 273
EcoRII	CCWGG	1 cut(s)	211
EcoT14I	CCWWGG	2 cut(s)	6, 365
EcoT22I	ATGCAT	1 cut(s)	472
EcoT38I	GRGCYC	1 cut(s)	120
ErhI	CCWWGG	2 cut(s)	6, 365
FaeI	CATG	5 cut(s)	104, 474, 487, 503, 565
FaiI	YATR	5 cut(s)	102, 472, 485, 501, 563
FalI	AAGNNNNNCTT	2 cut(s)	153, 185
FaqI	GGGAC	2 cut(s)	218, 286
FatI	CATG	5 cut(s)	100, 470, 483, 499, 561
FokI	GGATG	2 cut(s)	384, 569
FriOI	GRGCYC	1 cut(s)	120
GsaI	CCCAGC	2 cut(s)	21, 291
GsuI	CTGGAG	2 cut(s)	104, 234
HaeIII	GGCC	2 cut(s)	5, 27
HapII	CCGG	1 cut(s)	412
Hin1II	CATG	5 cut(s)	104, 474, 487, 503, 565
HinfI	GANTC	6 cut(s)	155, 200, 240, 355, 426, 572
HpaII	CCGG	1 cut(s)	412
HphI	GGTGA	3 cut(s)	220, 452, 499
Hpy188I	TCNGA	3 cut(s)	283, 344, 406
Hpy188III	TCNNGA	3 cut(s)	359, 430, 476
HpyAV	CCTTC	1 cut(s)	176
HpyCH4III	ACNGT	1 cut(s)	232
HpyCH4IV	ACGT	2 cut(s)	42, 194
HpyCH4V	TGCA	3 cut(s)	87, 332, 470
HpyF10VI	GCNNNNNNNGC	1 cut(s)	33
HpySE526I	ACGT	2 cut(s)	42, 194
Hsp92II	CATG	5 cut(s)	104, 474, 487, 503, 565
KflI	GGGWCCC	1 cut(s)	273
Kzo9I	GATC	4 cut(s)	283, 361, 442, 478
LmnI	GCTCC	2 cut(s)	115, 123
LweI	GCATC	1 cut(s)	457
MaeII	ACGT	2 cut(s)	42, 194
MaeIII	GTNAC	2 cut(s)	106, 190
MalI	GATC	4 cut(s)	285, 363, 444, 480
MboI	GATC	4 cut(s)	283, 361, 442, 478
MboII	GAAGA	5 cut(s)	59, 62, 147, 161, 195
MfeI	CAATTG	1 cut(s)	82
MflI	RGATCY	2 cut(s)	361, 478
MhlI	GDGCHC	1 cut(s)	120
MluCI	AATT	2 cut(s)	82, 374
MlyI	GAGTC	1 cut(s)	209
MnlI	CCTC	7 cut(s)	89, 145, 193, 197, 234, 310, 405
Mph1103I	ATGCAT	1 cut(s)	472
MseI	TTAA	2 cut(s)	417, 583
MslI	CAYNNNNRTG	1 cut(s)	488
MspI	CCGG	1 cut(s)	412
MspR9I	CCNGG	2 cut(s)	213, 413
MunI	CAATTG	1 cut(s)	82
Mva1269I	GAATGC	1 cut(s)	390
MvaI	CCWGG	1 cut(s)	213
MwoI	GCNNNNNNNGC	1 cut(s)	33
NciI	CCSGG	1 cut(s)	413
NdeII	GATC	4 cut(s)	283, 361, 442, 478
NlaIII	CATG	5 cut(s)	104, 474, 487, 503, 565
NlaIV	GGNNCC	3 cut(s)	274, 275, 363
NmuCI	GTSAC	1 cut(s)	190
NsiI	ATGCAT	1 cut(s)	472
NspI	RCATGY	3 cut(s)	104, 474, 503
PciI	ACATGT	1 cut(s)	100
PctI	GAATGC	1 cut(s)	390
PfeI	GAWTC	5 cut(s)	155, 240, 355, 426, 572
PleI	GAGTC	1 cut(s)	208
PpsI	GAGTC	1 cut(s)	208
PpuMI	RGGWCCY	1 cut(s)	273
PscI	ACATGT	1 cut(s)	100
Psp124BI	GAGCTC	1 cut(s)	120
Psp5II	RGGWCCY	1 cut(s)	273
Psp6I	CCWGG	1 cut(s)	211
PspFI	CCCAGC	2 cut(s)	17, 287
PspGI	CCWGG	1 cut(s)	211
PspN4I	GGNNCC	3 cut(s)	274, 275, 363
PspPI	GGNCC	3 cut(s)	26, 273, 319
PspPPI	RGGWCCY	1 cut(s)	273
PsuI	RGATCY	2 cut(s)	361, 478
RsaI	GTAC	1 cut(s)	386
RsaNI	GTAC	1 cut(s)	385
RseI	CAYNNNNRTG	1 cut(s)	488
SacI	GAGCTC	1 cut(s)	120
SaqAI	TTAA	2 cut(s)	417, 583
Sau3AI	GATC	4 cut(s)	283, 361, 442, 478
Sau96I	GGNCC	3 cut(s)	26, 273, 319
SchI	GAGTC	1 cut(s)	209
ScrFI	CCNGG	2 cut(s)	213, 413
SduI	GDGCHC	1 cut(s)	120
SetI	ASST	5 cut(s)	45, 120, 197, 226, 442
SfaNI	GCATC	1 cut(s)	457
SfcI	CTRYAG	1 cut(s)	435
SinI	GGWCC	2 cut(s)	273, 319
SmiMI	CAYNNNNRTG	1 cut(s)	488
Sse9I	AATT	2 cut(s)	82, 374
SspI	AATATT	2 cut(s)	421, 580
SstI	GAGCTC	1 cut(s)	120
StyD4I	CCNGG	2 cut(s)	211, 411
StyI	CCWWGG	2 cut(s)	6, 365
TaaI	ACNGT	1 cut(s)	232
TaiI	ACGT	2 cut(s)	45, 197
TasI	AATT	2 cut(s)	82, 374
TfiI	GAWTC	5 cut(s)	155, 240, 355, 426, 572
Tru1I	TTAA	2 cut(s)	417, 583
Tru9I	TTAA	2 cut(s)	417, 583
TseFI	GTSAC	1 cut(s)	190
Tsp45I	GTSAC	1 cut(s)	190
TspDTI	ATGAA	1 cut(s)	195
VpaK11BI	GGWCC	2 cut(s)	273, 319
XapI	RAATTY	1 cut(s)	374
XceI	RCATGY	3 cut(s)	104, 474, 503
XcmI	CCANNNNNNNNNTGG	1 cut(s)	304
Zsp2I	ATGCAT	1 cut(s)	472

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