Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0001314

Physical Location & Seq

Genomic Coordinates Reverse (-)

155803 .. 159437

Gene Structure 3635 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0002400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 627 bp

ATGTCGGACAAAGGTGGAAAGGGTTTTACTTTGCCCAATGGAAAAGGAGTGAAATCCACTCCTCTCAACGATGCTCCTCTCAAAGATAGCTCAGCCAAGTCCAAGAAGGCAAGAAATGTTCAGTTTTCTTCTCAAGGTTCAAAATCTGATAAGTCTGCTCCTGCTTCCAGCAAAGCTAATTCGGGAAAGGGAGGAAAAGGAGACAGTGGAATTGGAGGAAAGAAAGAACAAGAACCACTGCAGCTCAAAGTTGAGAATGAACTGCCTAAGGGTGCCAAATGTCTGATGGATTGTGAGGCTGCGGATATCTTGCAAGGAATCCAGGAGCAGATGGTCATATTGTCTAAAGATCCTACAATTAAACTCCCTGTATCCTTCGATAGGGGACTGCAGTACACCAAAAAAAGCACCCACTATACAGATCCTGAGTCTGTCAGACGAGTTCTTGAGAATCTCAAAACATATGGTGTCACAGACGGCGAGATATGTGTGATTGCCAATGTGTATCCAGAAACTGCCGATGAAGTTTTTGCTCTACTCCCTTCCTTGAAGGCTAGGAGAATCATGCTCGACGACCCAGTCAATGATGTTTTGAGTGAGCTAGCTAAGCTTAAAAAGTCAGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0003825 GO:0005975 GO:0005984 GO:0005991 GO:0005992 GO:0006793 GO:0006796 GO:0006950 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008152 GO:0008194 GO:0009058 GO:0009311 GO:0009312 GO:0009743 GO:0009756 GO:0009790 GO:0009791 GO:0009793 GO:0009832 GO:0009987 GO:0010033 GO:0010154 GO:0010182 GO:0016051 GO:0016311 GO:0016740 GO:0016757 GO:0016758 GO:0016787 GO:0016788 GO:0016791 GO:0022414 GO:0023052 GO:0032501 GO:0032502 GO:0033554 GO:0034637 GO:0035251 GO:0042221 GO:0042546 GO:0042578 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044262 GO:0046351 GO:0046527 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051301 GO:0051716 GO:0061458 GO:0065007 GO:0070413 GO:0070887 GO:0071310 GO:0071322 GO:0071554 GO:0071669 GO:0071704 GO:0071840 GO:1901576 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

ko00500 ko01100 map00500 map01100

Pfam Domains

Protein Families

Glyco_transf_20 Trehalose_PPase

Protein Analysis

208

Amino Acids

22.3

Weight (kDa)

9.08

Isoelectric Point (pI)

38.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb4	PF03874	94 - 204	3.4e-11	RNA polymerase Rpb4

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)

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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: OG0001314)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G78580 AT1G78580 AT1G78580 AT1G78580
fragaria_vesca	FvH4_3g06590 FvH4_3g06590 FvH4_3g17650 FvH4_3g17650
malus_domestica	MD03G1250300.v1.1 MD10G1270400.v1.1 MD11G1270400.v1.1
prunus_persica	Prupe.4G071400_v2.0.a1 Prupe.4G071400_v2.0.a1 Prupe.4G071400_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1 Prupe.4G155900_v2.0.a1
pyrus_communis	pycom03g19800 pycom10g22630 pycom11g23920
rosa_chinensis	RchiOBHm_Chr5g0012561 RchiOBHm_Chr5g0029381
rosa_laevigata	RLG00000031925 RLG00000033160
rosa_multiflora	Rmu_sc0003577.1_g000012 Rmu_sc0004373.1_g000021
rosa_roxburghii	Rroxscaffold_1G00050580 Rroxscaffold_1G00064100
rosa_rugosa	Rorug05G0002400 Rorug05G0002400 Rorug05G0002500 Rorug05G0002600 Rorug05G0114000 Rorug05G0114000 Rorug05G0114000 Rorug05G0114000 Rorug05G0114000
rosa_samantha	Rh5AG096400 Rh5AG205600 Rh5BG092600 Rh5BG204200 Rh5CG105500 Rh5DG092100 Rh5DG207800
rosa_wichuraiana	Rw5G008440 Rw5G018730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	578
AccB1I	GGYRCC	1 cut(s)	272
AciI	CCGC	1 cut(s)	302
AclWI	GGATC	2 cut(s)	344, 416
AfaI	GTAC	1 cut(s)	395
AfiI	CCNNNNNNNGG	1 cut(s)	381
AgsI	TTSAA	2 cut(s)	141, 550
AjnI	CCWGG	1 cut(s)	321
AluBI	AGCT	6 cut(s)	90, 176, 244, 601, 605, 610
AluI	AGCT	6 cut(s)	90, 176, 244, 601, 605, 610
Alw26I	GTCTC	1 cut(s)	195
AlwI	GGATC	2 cut(s)	344, 416
AlwNI	CAGNNNCTG	2 cut(s)	425, 515
ApeKI	GCWGC	2 cut(s)	241, 299
AsuNHI	GCTAGC	1 cut(s)	601
AxyI	CCTNAGG	1 cut(s)	267
BanI	GGYRCC	1 cut(s)	272
BbvI	GCAGC	2 cut(s)	253, 286
BccI	CCATC	2 cut(s)	280, 325
BceAI	ACGGC	1 cut(s)	493
BciT130I	CCWGG	1 cut(s)	323
BciVI	GTATCC	2 cut(s)	382, 516
BcoDI	GTCTC	1 cut(s)	195
BfaI	CTAG	2 cut(s)	555, 602
BfmI	CTRYAG	2 cut(s)	239, 389
BfuI	GTATCC	2 cut(s)	382, 516
BisI	GCNGC	2 cut(s)	242, 300
BlpI	GCTNAGC	2 cut(s)	91, 606
BlsI	GCNGC	2 cut(s)	243, 301
Bme1390I	CCNGG	1 cut(s)	323
BmiI	GGNNCC	1 cut(s)	274
BmrFI	CCNGG	1 cut(s)	323
BmrI	ACTGGG	1 cut(s)	572
BmsI	GCATC	1 cut(s)	61
BmtI	GCTAGC	1 cut(s)	605
BmuI	ACTGGG	1 cut(s)	572
Bpu1102I	GCTNAGC	2 cut(s)	91, 606
BpuEI	CTTGAG	2 cut(s)	117, 467
Bsc4I	CCNNNNNNNGG	1 cut(s)	381
Bse1I	ACTGG	1 cut(s)	578
Bse21I	CCTNAGG	1 cut(s)	267
BseBI	CCWGG	1 cut(s)	323
BseLI	CCNNNNNNNGG	1 cut(s)	381
BseMII	CTCAG	2 cut(s)	105, 417
BseNI	ACTGG	1 cut(s)	578
BseRI	GAGGAG	2 cut(s)	51, 66
BseXI	GCAGC	2 cut(s)	253, 286
BshNI	GGYRCC	1 cut(s)	272
BslFI	GGGAC	1 cut(s)	399
BslI	CCNNNNNNNGG	1 cut(s)	381
BsmAI	GTCTC	1 cut(s)	195
BsmFI	GGGAC	1 cut(s)	399
Bsp143I	GATC	2 cut(s)	349, 421
Bsp1720I	GCTNAGC	2 cut(s)	91, 606
BspACI	CCGC	1 cut(s)	302
BspCNI	CTCAG	2 cut(s)	104, 418
BspLI	GGNNCC	1 cut(s)	274
BspMAI	CTGCAG	2 cut(s)	243, 393
BspOI	GCTAGC	1 cut(s)	605
BspPI	GGATC	2 cut(s)	344, 416
BspT107I	GGYRCC	1 cut(s)	272
BsrI	ACTGG	1 cut(s)	578
BssMI	GATC	2 cut(s)	349, 421
Bst2UI	CCWGG	1 cut(s)	323
Bst4CI	ACNGT	1 cut(s)	206
BstC8I	GCNNGC	1 cut(s)	603
BstDEI	CTNAG	4 cut(s)	91, 267, 426, 606
BstENI	CCTNNNNNAGG	1 cut(s)	379
BstKTI	GATC	2 cut(s)	352, 424
BstMAI	GTCTC	1 cut(s)	195
BstMBI	GATC	2 cut(s)	349, 421
BstMWI	GCNNNNNNNGC	1 cut(s)	607
BstNI	CCWGG	1 cut(s)	323
BstSCI	CCNGG	1 cut(s)	321
BstSFI	CTRYAG	2 cut(s)	239, 389
BstV1I	GCAGC	2 cut(s)	253, 286
BstX2I	RGATCY	2 cut(s)	349, 421
BstYI	RGATCY	2 cut(s)	349, 421
Bsu36I	CCTNAGG	1 cut(s)	267
BsuI	GTATCC	2 cut(s)	382, 516
BtsI	GCAGTG	1 cut(s)	236
BtsIMutI	CAGTG	2 cut(s)	211, 236
Cac8I	GCNNGC	1 cut(s)	603
CaiI	CAGNNNCTG	2 cut(s)	425, 515
Csp6I	GTAC	1 cut(s)	394
CviAII	CATG	1 cut(s)	565
CviJI	RGCY	9 cut(s)	90, 95, 176, 244, 299, 554, 601, 605, 610
CviKI_1	RGCY	9 cut(s)	90, 95, 176, 244, 299, 554, 601, 605, 610
CviQI	GTAC	1 cut(s)	394
DdeI	CTNAG	4 cut(s)	91, 267, 426, 606
DpnI	GATC	2 cut(s)	351, 423
DpnII	GATC	2 cut(s)	349, 421
DrdI	GACNNNNNNGTC	1 cut(s)	578
DseDI	GACNNNNNNGTC	1 cut(s)	578
Eco32I	GATATC	1 cut(s)	307
Eco81I	CCTNAGG	1 cut(s)	267
EcoNI	CCTNNNNNAGG	1 cut(s)	379
EcoRII	CCWGG	1 cut(s)	321
EcoRV	GATATC	1 cut(s)	307
FaeI	CATG	1 cut(s)	568
FaiI	YATR	7 cut(s)	338, 417, 463, 465, 487, 566, 625
FaqI	GGGAC	1 cut(s)	399
FatI	CATG	1 cut(s)	564
FauNDI	CATATG	1 cut(s)	463
Fnu4HI	GCNGC	2 cut(s)	242, 300
Fsp4HI	GCNGC	2 cut(s)	242, 300
FspBI	CTAG	2 cut(s)	555, 602
GluI	GCNGC	2 cut(s)	242, 300
Hin1II	CATG	1 cut(s)	568
HindIII	AAGCTT	1 cut(s)	608
HinfI	GANTC	4 cut(s)	318, 428, 451, 561
Hpy166II	GTNNAC	1 cut(s)	396
Hpy188I	TCNGA	4 cut(s)	7, 148, 285, 437
Hpy188III	TCNNGA	4 cut(s)	183, 425, 446, 509
Hpy8I	GTNNAC	1 cut(s)	396
Hpy99I	CGWCG	1 cut(s)	575
HpyAV	CCTTC	4 cut(s)	100, 385, 544, 552
HpyCH4III	ACNGT	1 cut(s)	206
HpyCH4V	TGCA	3 cut(s)	241, 313, 391
HpyF10VI	GCNNNNNNNGC	1 cut(s)	607
HpyF3I	CTNAG	4 cut(s)	91, 267, 426, 606
Hsp92II	CATG	1 cut(s)	568
Kzo9I	GATC	2 cut(s)	349, 421
LmnI	GCTCC	3 cut(s)	79, 163, 325
LpnPI	CCDG	8 cut(s)	174, 181, 308, 335, 381, 438, 522, 591
Lsp1109I	GCAGC	2 cut(s)	253, 286
LweI	GCATC	1 cut(s)	61
MaeI	CTAG	2 cut(s)	555, 602
MaeIII	GTNAC	1 cut(s)	469
MalI	GATC	2 cut(s)	351, 423
MboI	GATC	2 cut(s)	349, 421
MboII	GAAGA	1 cut(s)	120
MflI	RGATCY	2 cut(s)	349, 421
MluCI	AATT	3 cut(s)	178, 210, 357
MlyI	GAGTC	1 cut(s)	437
MnlI	CCTC	5 cut(s)	72, 87, 185, 209, 289
MseI	TTAA	2 cut(s)	360, 612
MspR9I	CCNGG	1 cut(s)	323
MvaI	CCWGG	1 cut(s)	323
MwoI	GCNNNNNNNGC	1 cut(s)	607
NdeI	CATATG	1 cut(s)	463
NdeII	GATC	2 cut(s)	349, 421
NheI	GCTAGC	1 cut(s)	601
NlaIII	CATG	1 cut(s)	568
NlaIV	GGNNCC	1 cut(s)	274
NmuCI	GTSAC	1 cut(s)	469
PfeI	GAWTC	3 cut(s)	318, 451, 561
PflFI	GACNNNGTC	1 cut(s)	578
PfoI	TCCNGGA	1 cut(s)	321
PkrI	GCNGC	2 cut(s)	243, 301
PleI	GAGTC	1 cut(s)	436
PpsI	GAGTC	1 cut(s)	436
Psp6I	CCWGG	1 cut(s)	321
PspGI	CCWGG	1 cut(s)	321
PspN4I	GGNNCC	1 cut(s)	274
PstI	CTGCAG	2 cut(s)	243, 393
PstNI	CAGNNNCTG	2 cut(s)	425, 515
PsuI	RGATCY	2 cut(s)	349, 421
PsyI	GACNNNGTC	1 cut(s)	578
RsaI	GTAC	1 cut(s)	395
RsaNI	GTAC	1 cut(s)	394
SaqAI	TTAA	2 cut(s)	360, 612
SatI	GCNGC	2 cut(s)	242, 300
Sau3AI	GATC	2 cut(s)	349, 421
SchI	GAGTC	1 cut(s)	437
ScrFI	CCNGG	1 cut(s)	323
SetI	ASST	8 cut(s)	16, 92, 139, 178, 246, 603, 607, 612
SfaNI	GCATC	1 cut(s)	61
SfcI	CTRYAG	2 cut(s)	239, 389
SmlI	CTYRAG	2 cut(s)	132, 446
SmoI	CTYRAG	2 cut(s)	132, 446
Sse9I	AATT	3 cut(s)	178, 210, 357
SsiI	CCGC	1 cut(s)	302
SspMI	CTAG	2 cut(s)	555, 602
StyD4I	CCNGG	1 cut(s)	321
TaaI	ACNGT	1 cut(s)	206
TaqI	TCGA	2 cut(s)	378, 570
TasI	AATT	3 cut(s)	178, 210, 357
TatI	WGTACW	1 cut(s)	393
TfiI	GAWTC	3 cut(s)	318, 451, 561
Tru1I	TTAA	2 cut(s)	360, 612
Tru9I	TTAA	2 cut(s)	360, 612
TscAI	CASTG	2 cut(s)	211, 243
TseFI	GTSAC	1 cut(s)	469
TseI	GCWGC	2 cut(s)	241, 299
Tsp45I	GTSAC	1 cut(s)	469
TspDTI	ATGAA	2 cut(s)	273, 537
TspRI	CASTG	2 cut(s)	211, 243
Tth111I	GACNNNGTC	1 cut(s)	578
XagI	CCTNNNNNAGG	1 cut(s)	379
XcmI	CCANNNNNNNNNTGG	1 cut(s)	283
XspI	CTAG	2 cut(s)	555, 602

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