Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0005882

Physical Location & Seq

Genomic Coordinates Forward (+)

432980 .. 433678

Gene Structure 699 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000000299

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGCTTGGAGGTGGAAATGAGGCAATATCTACAATACCTGGATTTAATCAGATACAATTTGAAGGGTTTTGTAGGTTCATTGATCAGGGCTTAACAGAGGAACTTTATAAGTTTCCAAAAATTGAAGATACAGATCAAGAAATTGAATTTCAATTATTTGTGGAAACATATCAATTGGTAGAACCGTTGATAAAAGAAAGAGATGCTGTATATGAATCACTCACATATTCTTCGGAATTATATGTATCCGCGGGATTAATTTGGAAAAACAGTAGGGATATGCAAGAACAAACAATTTTTATTGGAAATATTCCTCTAATGAATTCCCTGGGAACTTCTATAGTAAACGGAATATACAGAATTGTGATCAATCAAATATTGCAAAGCCCTGGTATCTATTACCGGTCAGAACTGGACCATAACGGAATTTCAGTCTATACCGGCATCATAATATCAGATTGGGGAGGGAGATTAGAATTAGAGATTGATAGAAAAGCAAGGATATGGGCTCGTGTCAGTAGGAAACAAAAAATATCTATTCTAGTTCTATCATCAGCTATGGGTTCGAATCTAAGAGAAATTCTAGAGAATGCTCGCTACCCCGAAATTTTCTTGTCTTTCCTGAATGATAAGGAGAAAAAAAAATCGGGTCAAAAGAAAATGCCATTTTGGAGTTTTATCAACAATTTGCTTGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0030880 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0061695 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

233

Amino Acids

26.7

Weight (kDa)

5.27

Isoelectric Point (pI)

38.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb2_1	PF04563	17 - 107	7.3e-07	RNA polymerase beta subunit
RNA_pol_Rpb2_2	PF04561	128 - 229	6.1e-21	RNA polymerase Rpb2, domain 2

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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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)
AanI	TTATAA	1 cut(s)	108
AccII	CGCG	1 cut(s)	251
AciI	CCGC	2 cut(s)	249, 251
AcsI	RAATTY	5 cut(s)	146, 322, 426, 579, 606
AgeI	ACCGGT	1 cut(s)	402
AgsI	TTSAA	4 cut(s)	62, 125, 146, 152
AjnI	CCWGG	3 cut(s)	37, 327, 388
AluBI	AGCT	1 cut(s)	557
AluI	AGCT	1 cut(s)	557
ApoI	RAATTY	5 cut(s)	146, 322, 426, 579, 606
AseI	ATTAAT	1 cut(s)	257
AsiGI	ACCGGT	1 cut(s)	402
AspS9I	GGNCC	1 cut(s)	415
AsuII	TTCGAA	1 cut(s)	566
AvaII	GGWCC	1 cut(s)	415
BanII	GRGCYC	1 cut(s)	511
BauI	CACGAG	1 cut(s)	510
BciT130I	CCWGG	3 cut(s)	39, 329, 390
BciVI	GTATCC	1 cut(s)	256
BclI	TGATCA	2 cut(s)	82, 366
BfaI	CTAG	2 cut(s)	542, 584
BfmI	CTRYAG	1 cut(s)	339
BfuI	GTATCC	1 cut(s)	256
Bme1390I	CCNGG	3 cut(s)	39, 329, 390
Bme18I	GGWCC	1 cut(s)	415
BmgT120I	GGNCC	1 cut(s)	415
BmrFI	CCNGG	3 cut(s)	39, 329, 390
BmsI	GCATC	2 cut(s)	193, 453
Bpu14I	TTCGAA	1 cut(s)	566
BsaBI	GATNNNNATC	1 cut(s)	132
BsaJI	CCNNGG	4 cut(s)	249, 327, 328, 388
BsaWI	WCCGGW	1 cut(s)	402
Bse118I	RCCGGY	2 cut(s)	402, 440
Bse1I	ACTGG	1 cut(s)	417
Bse8I	GATNNNNATC	1 cut(s)	132
BseBI	CCWGG	3 cut(s)	39, 329, 390
BseDI	CCNNGG	4 cut(s)	249, 327, 328, 388
BseJI	GATNNNNATC	1 cut(s)	132
BseNI	ACTGG	1 cut(s)	417
Bsh1236I	CGCG	1 cut(s)	251
BshTI	ACCGGT	1 cut(s)	402
BsiSI	CCGG	2 cut(s)	403, 441
BsmI	GAATGC	1 cut(s)	595
Bsp119I	TTCGAA	1 cut(s)	566
Bsp1286I	GDGCHC	1 cut(s)	511
Bsp143I	GATC	3 cut(s)	82, 133, 366
BspACI	CCGC	2 cut(s)	249, 251
BspFNI	CGCG	1 cut(s)	251
BspT104I	TTCGAA	1 cut(s)	566
BsrFI	RCCGGY	2 cut(s)	402, 440
BsrI	ACTGG	1 cut(s)	417
BssAI	RCCGGY	2 cut(s)	402, 440
BssECI	CCNNGG	4 cut(s)	249, 327, 328, 388
BssMI	GATC	3 cut(s)	82, 133, 366
BssSI	CACGAG	1 cut(s)	510
Bst2BI	CACGAG	1 cut(s)	510
Bst2UI	CCWGG	3 cut(s)	39, 329, 390
Bst4CI	ACNGT	2 cut(s)	186, 272
BstBI	TTCGAA	1 cut(s)	566
BstC8I	GCNNGC	1 cut(s)	595
BstDEI	CTNAG	1 cut(s)	572
BstDSI	CCRYGG	1 cut(s)	249
BstFNI	CGCG	1 cut(s)	251
BstKTI	GATC	3 cut(s)	85, 136, 369
BstMBI	GATC	3 cut(s)	82, 133, 366
BstNI	CCWGG	3 cut(s)	39, 329, 390
BstSCI	CCNGG	3 cut(s)	37, 327, 388
BstSFI	CTRYAG	1 cut(s)	339
BstUI	CGCG	1 cut(s)	251
BsuI	GTATCC	1 cut(s)	256
BtgI	CCRYGG	1 cut(s)	249
Cac8I	GCNNGC	1 cut(s)	595
Cfr10I	RCCGGY	2 cut(s)	402, 440
Cfr13I	GGNCC	1 cut(s)	415
Cfr42I	CCGCGG	1 cut(s)	252
CspAI	ACCGGT	1 cut(s)	402
CviJI	RGCY	4 cut(s)	90, 387, 509, 557
CviKI_1	RGCY	4 cut(s)	90, 387, 509, 557
DdeI	CTNAG	1 cut(s)	572
DpnI	GATC	3 cut(s)	84, 135, 368
DpnII	GATC	3 cut(s)	82, 133, 366
Eco24I	GRGCYC	1 cut(s)	511
Eco47I	GGWCC	1 cut(s)	415
EcoRI	GAATTC	1 cut(s)	322
EcoRII	CCWGG	3 cut(s)	37, 327, 388
EcoT38I	GRGCYC	1 cut(s)	511
FauI	CCCGC	1 cut(s)	244
FbaI	TGATCA	2 cut(s)	82, 366
FriOI	GRGCYC	1 cut(s)	511
FspBI	CTAG	2 cut(s)	542, 584
HapII	CCGG	2 cut(s)	403, 441
HinfI	GANTC	2 cut(s)	215, 568
HpaII	CCGG	2 cut(s)	403, 441
Hpy166II	GTNNAC	1 cut(s)	346
Hpy188I	TCNGA	4 cut(s)	51, 235, 409, 457
Hpy188III	TCNNGA	3 cut(s)	137, 584, 622
Hpy8I	GTNNAC	1 cut(s)	346
HpyAV	CCTTC	1 cut(s)	56
HpyCH4III	ACNGT	2 cut(s)	186, 272
HpyCH4V	TGCA	2 cut(s)	283, 382
HpyF3I	CTNAG	1 cut(s)	572
Ksp22I	TGATCA	2 cut(s)	82, 366
KspI	CCGCGG	1 cut(s)	252
Kzo9I	GATC	3 cut(s)	82, 133, 366
LweI	GCATC	2 cut(s)	193, 453
MaeI	CTAG	2 cut(s)	542, 584
MalI	GATC	3 cut(s)	84, 135, 368
MboI	GATC	3 cut(s)	82, 133, 366
MboII	GAAGA	2 cut(s)	137, 222
MfeI	CAATTG	1 cut(s)	173
MhlI	GDGCHC	1 cut(s)	511
MnlI	CCTC	4 cut(s)	13, 91, 324, 458
MseI	TTAA	3 cut(s)	45, 92, 257
MspA1I	CMGCKG	1 cut(s)	251
MspI	CCGG	2 cut(s)	403, 441
MspR9I	CCNGG	3 cut(s)	39, 329, 390
MunI	CAATTG	1 cut(s)	173
Mva1269I	GAATGC	1 cut(s)	595
MvaI	CCWGG	3 cut(s)	39, 329, 390
MvnI	CGCG	1 cut(s)	251
NdeII	GATC	3 cut(s)	82, 133, 366
NspV	TTCGAA	1 cut(s)	566
PasI	CCCWGGG	1 cut(s)	328
PctI	GAATGC	1 cut(s)	595
PfeI	GAWTC	2 cut(s)	215, 568
PinAI	ACCGGT	1 cut(s)	402
PshBI	ATTAAT	1 cut(s)	257
PsiI	TTATAA	1 cut(s)	108
Psp6I	CCWGG	3 cut(s)	37, 327, 388
PspGI	CCWGG	3 cut(s)	37, 327, 388
PspPI	GGNCC	1 cut(s)	415
SacII	CCGCGG	1 cut(s)	252
SaqAI	TTAA	3 cut(s)	45, 92, 257
Sau3AI	GATC	3 cut(s)	82, 133, 366
Sau96I	GGNCC	1 cut(s)	415
ScrFI	CCNGG	3 cut(s)	39, 329, 390
SduI	GDGCHC	1 cut(s)	511
SetI	ASST	4 cut(s)	13, 40, 77, 559
SfaNI	GCATC	2 cut(s)	193, 453
SfcI	CTRYAG	1 cut(s)	339
Sfr303I	CCGCGG	1 cut(s)	252
SfuI	TTCGAA	1 cut(s)	566
SgrBI	CCGCGG	1 cut(s)	252
SinI	GGWCC	1 cut(s)	415
SsiI	CCGC	2 cut(s)	249, 251
SspI	AATATT	2 cut(s)	310, 378
SspMI	CTAG	2 cut(s)	542, 584
StyD4I	CCNGG	3 cut(s)	37, 327, 388
TaaI	ACNGT	2 cut(s)	186, 272
TaqI	TCGA	1 cut(s)	566
TfiI	GAWTC	2 cut(s)	215, 568
Tru1I	TTAA	3 cut(s)	45, 92, 257
Tru9I	TTAA	3 cut(s)	45, 92, 257
TspDTI	ATGAA	3 cut(s)	67, 228, 335
TspGWI	ACGGA	2 cut(s)	363, 438
VpaK11BI	GGWCC	1 cut(s)	415
VspI	ATTAAT	1 cut(s)	257
XapI	RAATTY	5 cut(s)	146, 322, 426, 579, 606
XbaI	TCTAGA	1 cut(s)	583
XspI	CTAG	2 cut(s)	542, 584

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