Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0003823

Physical Location & Seq

Genomic Coordinates Forward (+)

4562321 .. 4563130

Gene Structure 810 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0036000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGGGGTTCAACAAACAAAACTTAATAGCCGTATGCTCCACAGCTTTGATCCTAATTACTTATGTCCCTCTAGCAAGTACAGTCGAAGACGACAGTGGCTTCCTCAAAGCACACAATGAGGTTCGTAAAGAGCACGGTCTCCCGCCACTGCAATGGAATAAAACCTTAGCTGAGTATGCGCAAAATTATGCCAATAAAAGATCTGTGGACTGCGCAATGGAGCATTCAGATGCTCCTTATTCTGAGAACATTGCGAGTGGTTTGGGTATGACCGGTGAAGCAGCGACAAAGTACTGGTGCACCGAGAAAGCCGAATACGACTACAACACAAATAAATGTACCGGTCCTGAGGAAGACGGTTGCCGCCACTACACTATTATAGTTACGAGGATAACAACCCAACTTGGTTGCGCTAGGGCCAAGTGCAAAAATGGCGATATGTTTGTATCCTGCAACTATGATCCTTCTGGAGAACCCGACCAGCGTCCTTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0008150 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:0097159 GO:1901363 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_Rpc34

Protein Analysis

164

Amino Acids

18.25

Weight (kDa)

5.35

Isoelectric Point (pI)

51.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAP	PF00188	35 - 153	5.5e-22	Cysteine-rich secretory protein family

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: OG0003823)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G23710
fragaria_vesca	FvH4_6g29950 FvH4_6g29950 FvH4_6g41460
malus_domestica	MD08G1239800.v1.1 MD15G1431400.v1.1
prunus_persica	Prupe.1G576300_v2.0.a1 Prupe.5G067300_v2.0.a1
pyrus_communis	pycom08g20810 pycom15g38120
rosa_chinensis	RchiOBHm_Chr2g0135951 RchiOBHm_Chr6g0271261 RchiOBHm_Chr6g0271271
rosa_laevigata	RLG00000019491 RLG00000020962
rosa_multiflora	Rmu_sc0004866.1_g000010 Rmu_ssc0000343.1_g000019
rosa_roxburghii	Rroxscaffold_2G00108750 Rroxscaffold_7G00200610
rosa_rugosa	Rorug02G0327000 Rorug02G0457600 Rorug06G0035800 Rorug06G0036000
rosa_samantha	Rh2BG385300 Rh2CG364400 Rh2DG401600 Rh6AG179300 Rh6BG182300 Rh6CG179200 Rh6DG170900
rosa_wichuraiana	Rw2G030860 Rw2G031070 Rw2G043270 Rw6G015420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	180, 214
AciI	CCGC	2 cut(s)	143, 364
AclWI	GGATC	2 cut(s)	43, 455
AfaI	GTAC	3 cut(s)	79, 293, 340
AgeI	ACCGGT	2 cut(s)	272, 341
AgsI	TTSAA	1 cut(s)	10
AluBI	AGCT	2 cut(s)	44, 170
AluI	AGCT	2 cut(s)	44, 170
Alw21I	GWGCWC	2 cut(s)	135, 302
Alw26I	GTCTC	1 cut(s)	143
Alw44I	GTGCAC	1 cut(s)	298
AlwI	GGATC	2 cut(s)	43, 455
AoxI	GGCC	1 cut(s)	417
ApaLI	GTGCAC	1 cut(s)	298
ApeKI	GCWGC	1 cut(s)	281
AsiGI	ACCGGT	2 cut(s)	272, 341
AspLEI	GCGC	3 cut(s)	181, 215, 413
AspS9I	GGNCC	2 cut(s)	344, 417
AsuHPI	GGTGA	1 cut(s)	287
AvaII	GGWCC	1 cut(s)	344
AxyI	CCTNAGG	1 cut(s)	348
BaeGI	GKGCMC	1 cut(s)	302
BbsI	GAAGAC	2 cut(s)	93, 360
Bbv12I	GWGCWC	2 cut(s)	135, 302
BbvI	GCAGC	1 cut(s)	293
BceAI	ACGGC	1 cut(s)	14
BciVI	GTATCC	1 cut(s)	457
BcoDI	GTCTC	1 cut(s)	143
BfaI	CTAG	2 cut(s)	71, 414
BfuI	GTATCC	1 cut(s)	457
BglII	AGATCT	1 cut(s)	200
BisI	GCNGC	2 cut(s)	282, 364
BlsI	GCNGC	2 cut(s)	283, 365
BmcAI	AGTACT	1 cut(s)	293
Bme18I	GGWCC	1 cut(s)	344
BmgT120I	GGNCC	2 cut(s)	344, 417
BmsI	GCATC	1 cut(s)	220
BoxI	GACNNNNGTC	1 cut(s)	483
BpiI	GAAGAC	2 cut(s)	93, 360
BpmI	CTGGAG	1 cut(s)	489
Bpu10I	CCTNAGC	1 cut(s)	166
BsaI	GGTCTC	1 cut(s)	143
BsaWI	WCCGGW	2 cut(s)	272, 341
Bse118I	RCCGGY	2 cut(s)	272, 341
Bse1I	ACTGG	1 cut(s)	299
Bse21I	CCTNAGG	1 cut(s)	348
Bse3DI	GCAATG	3 cut(s)	158, 222, 249
BseMI	GCAATG	3 cut(s)	158, 222, 249
BseMII	CTCAG	3 cut(s)	162, 234, 339
BseNI	ACTGG	1 cut(s)	299
BseSI	GKGCMC	1 cut(s)	302
BseXI	GCAGC	1 cut(s)	293
BshFI	GGCC	1 cut(s)	419
BshTI	ACCGGT	2 cut(s)	272, 341
BsiHKAI	GWGCWC	2 cut(s)	135, 302
BsiSI	CCGG	2 cut(s)	273, 342
BslFI	GGGAC	1 cut(s)	50
BsmAI	GTCTC	1 cut(s)	143
BsmFI	GGGAC	1 cut(s)	50
BsmI	GAATGC	1 cut(s)	223
BsnI	GGCC	1 cut(s)	419
Bso31I	GGTCTC	1 cut(s)	143
Bsp1286I	GDGCHC	2 cut(s)	135, 302
Bsp143I	GATC	3 cut(s)	48, 200, 460
BspACI	CCGC	2 cut(s)	143, 364
BspANI	GGCC	1 cut(s)	419
BspCNI	CTCAG	3 cut(s)	163, 235, 340
BspPI	GGATC	2 cut(s)	43, 455
BspTNI	GGTCTC	1 cut(s)	143
BsrDI	GCAATG	3 cut(s)	158, 222, 249
BsrFI	RCCGGY	2 cut(s)	272, 341
BsrI	ACTGG	1 cut(s)	299
BssAI	RCCGGY	2 cut(s)	272, 341
BssMI	GATC	3 cut(s)	48, 200, 460
Bst4CI	ACNGT	4 cut(s)	82, 95, 137, 359
BstDEI	CTNAG	4 cut(s)	166, 171, 243, 348
BstHHI	GCGC	3 cut(s)	181, 215, 413
BstKTI	GATC	3 cut(s)	51, 203, 463
BstMAI	GTCTC	1 cut(s)	143
BstMBI	GATC	3 cut(s)	48, 200, 460
BstMWI	GCNNNNNNNGC	2 cut(s)	176, 432
BstPAI	GACNNNNGTC	1 cut(s)	483
BstSLI	GKGCMC	1 cut(s)	302
BstV1I	GCAGC	1 cut(s)	293
BstV2I	GAAGAC	2 cut(s)	93, 360
BstX2I	RGATCY	1 cut(s)	200
BstXI	CCANNNNNNTGG	1 cut(s)	153
BstYI	RGATCY	1 cut(s)	200
Bsu36I	CCTNAGG	1 cut(s)	348
BsuI	GTATCC	1 cut(s)	457
BsuRI	GGCC	1 cut(s)	419
BtsI	GCAGTG	1 cut(s)	146
BtsIMutI	CAGTG	2 cut(s)	100, 146
CfoI	GCGC	3 cut(s)	181, 215, 413
Cfr10I	RCCGGY	2 cut(s)	272, 341
Cfr13I	GGNCC	2 cut(s)	344, 417
CseI	GACGC	1 cut(s)	473
Csp6I	GTAC	3 cut(s)	78, 292, 339
CspAI	ACCGGT	2 cut(s)	272, 341
CviJI	RGCY	6 cut(s)	29, 44, 99, 170, 311, 419
CviKI_1	RGCY	6 cut(s)	29, 44, 99, 170, 311, 419
CviQI	GTAC	3 cut(s)	78, 292, 339
DdeI	CTNAG	4 cut(s)	166, 171, 243, 348
DpnI	GATC	3 cut(s)	50, 202, 462
DpnII	GATC	3 cut(s)	48, 200, 460
Eco31I	GGTCTC	1 cut(s)	143
Eco47I	GGWCC	1 cut(s)	344
Eco81I	CCTNAGG	1 cut(s)	348
FaiI	YATR	8 cut(s)	34, 63, 177, 189, 269, 380, 440, 459
FaqI	GGGAC	1 cut(s)	50
FauI	CCCGC	1 cut(s)	150
Fnu4HI	GCNGC	2 cut(s)	282, 364
Fsp4HI	GCNGC	2 cut(s)	282, 364
FspBI	CTAG	2 cut(s)	71, 414
FspI	TGCGCA	2 cut(s)	180, 214
GlaI	GCGC	3 cut(s)	180, 214, 412
GluI	GCNGC	2 cut(s)	282, 364
GsuI	CTGGAG	1 cut(s)	489
HaeIII	GGCC	1 cut(s)	419
HapII	CCGG	2 cut(s)	273, 342
HgaI	GACGC	1 cut(s)	473
HhaI	GCGC	3 cut(s)	181, 215, 413
Hin6I	GCGC	3 cut(s)	179, 213, 411
HinP1I	GCGC	3 cut(s)	179, 213, 411
HpaII	CCGG	2 cut(s)	273, 342
HphI	GGTGA	1 cut(s)	287
Hpy166II	GTNNAC	2 cut(s)	208, 300
Hpy188I	TCNGA	2 cut(s)	229, 244
Hpy188III	TCNNGA	2 cut(s)	347, 468
Hpy8I	GTNNAC	2 cut(s)	208, 300
HpyAV	CCTTC	1 cut(s)	474
HpyCH4III	ACNGT	4 cut(s)	82, 95, 137, 359
HpyCH4V	TGCA	4 cut(s)	151, 300, 426, 453
HpyF10VI	GCNNNNNNNGC	2 cut(s)	176, 432
HpyF3I	CTNAG	4 cut(s)	166, 171, 243, 348
HspAI	GCGC	3 cut(s)	179, 213, 411
Kzo9I	GATC	3 cut(s)	48, 200, 460
LmnI	GCTCC	3 cut(s)	41, 220, 238
LpnPI	CCDG	6 cut(s)	280, 286, 355, 360, 453, 463
Lsp1109I	GCAGC	1 cut(s)	293
LweI	GCATC	1 cut(s)	220
MaeI	CTAG	2 cut(s)	71, 414
MaeIII	GTNAC	1 cut(s)	382
MalI	GATC	3 cut(s)	50, 202, 462
MboI	GATC	3 cut(s)	48, 200, 460
MboII	GAAGA	2 cut(s)	98, 365
MflI	RGATCY	1 cut(s)	200
MhlI	GDGCHC	2 cut(s)	135, 302
MluCI	AATT	2 cut(s)	54, 184
MnlI	CCTC	5 cut(s)	78, 112, 113, 343, 381
MseI	TTAA	1 cut(s)	23
MslI	CAYNNNNRTG	2 cut(s)	151, 228
MspI	CCGG	2 cut(s)	273, 342
Mva1269I	GAATGC	1 cut(s)	223
MwoI	GCNNNNNNNGC	2 cut(s)	176, 432
NdeII	GATC	3 cut(s)	48, 200, 460
NsbI	TGCGCA	2 cut(s)	180, 214
PctI	GAATGC	1 cut(s)	223
PinAI	ACCGGT	2 cut(s)	272, 341
PkrI	GCNGC	2 cut(s)	283, 365
PshAI	GACNNNNGTC	1 cut(s)	483
PspPI	GGNCC	2 cut(s)	344, 417
PsuI	RGATCY	1 cut(s)	200
RsaI	GTAC	3 cut(s)	79, 293, 340
RsaNI	GTAC	3 cut(s)	78, 292, 339
RseI	CAYNNNNRTG	2 cut(s)	151, 228
SaqAI	TTAA	1 cut(s)	23
SatI	GCNGC	2 cut(s)	282, 364
Sau3AI	GATC	3 cut(s)	48, 200, 460
Sau96I	GGNCC	2 cut(s)	344, 417
ScaI	AGTACT	1 cut(s)	293
SduI	GDGCHC	2 cut(s)	135, 302
SetI	ASST	4 cut(s)	46, 123, 167, 172
SfaNI	GCATC	1 cut(s)	220
SinI	GGWCC	1 cut(s)	344
SmiMI	CAYNNNNRTG	2 cut(s)	151, 228
Sse9I	AATT	2 cut(s)	54, 184
SsiI	CCGC	2 cut(s)	143, 364
SspMI	CTAG	2 cut(s)	71, 414
TaaI	ACNGT	4 cut(s)	82, 95, 137, 359
TaqI	TCGA	1 cut(s)	84
TasI	AATT	2 cut(s)	54, 184
TatI	WGTACW	2 cut(s)	77, 291
TauI	GCSGC	1 cut(s)	366
Tru1I	TTAA	1 cut(s)	23
Tru9I	TTAA	1 cut(s)	23
TscAI	CASTG	2 cut(s)	100, 153
TseI	GCWGC	1 cut(s)	281
TspRI	CASTG	2 cut(s)	100, 153
VneI	GTGCAC	1 cut(s)	298
VpaK11BI	GGWCC	1 cut(s)	344
XspI	CTAG	2 cut(s)	71, 414
ZrmI	AGTACT	1 cut(s)	293

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