Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0006106

Physical Location & Seq

Genomic Coordinates Reverse (-)

41204381 .. 41207307

Gene Structure 2927 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0342300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 507 bp

ATGAGGTTAGACATTCTTCTATCGATGCTCAAATTATACAAATTGCCAGATTTTGATGCAATTTTTCTGGTTGGTGGCGGAATGATGAAGGTTGGCCTAGTGAAAAGAAAGACGCCTTCAGAACTGAGAGTGGGGGCTAAAGACTCGATGAACTTAGGAGATCGAATTTGTCTTCCTAGTTCTGTGAAAGAGTTCCCTGCTGATAAACAAGAAGAGGGACATTGTAGTGAAGAAGAAGTCAAGTTTATTCGTAGTCTCGTGTTGTATAAGGATCCAGCTATTGTCGTCATCAATAAACCTCCTGGATTGCCTGTTCAGGGCGGGATTGGAATCAAAAGGAGTTTAGATGAACTGGCTGCCACTTGTTTAAGTTACGGCTTTTCAGAACCCCCTCGTCTGGTACACAGACTTGACAGAGATTGTAGTGGTATCCTTGTGATGGGACGGACACAAACAAGTGCAACAGTTTTGCATTCCCTCTTCCGTGAGAAAACTTTTGGAGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0001558 GO:0003006 GO:0003674 GO:0003824 GO:0004672 GO:0004674 GO:0005575 GO:0005623 GO:0005886 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009653 GO:0009826 GO:0009846 GO:0009856 GO:0009860 GO:0009932 GO:0009987 GO:0010769 GO:0016020 GO:0016043 GO:0016049 GO:0016301 GO:0016310 GO:0016324 GO:0016740 GO:0016772 GO:0016773 GO:0019538 GO:0022414 GO:0022603 GO:0022604 GO:0030154 GO:0032501 GO:0032502 GO:0032989 GO:0036211 GO:0040007 GO:0040008 GO:0042995 GO:0043170 GO:0043412 GO:0043900 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044425 GO:0044459 GO:0044464 GO:0044706 GO:0045177 GO:0045595 GO:0048468 GO:0048588 GO:0048589 GO:0048638 GO:0048856 GO:0048868 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051128 GO:0051239 GO:0051510 GO:0051704 GO:0060284 GO:0060560 GO:0065007 GO:0071704 GO:0071840 GO:0071944 GO:0080092 GO:0090406 GO:0098590 GO:0120025 GO:0140096 GO:1901564 GO:2000241

KEGG Pathways

Metabolic & Signaling

ko04010 ko04064 ko04620 ko04624 ko04722 ko05133 ko05140 ko05142 ko05145 ko05152 ko05162 ko05169 map04010 map04064 map04620 map04624 map04722 map05133 map05140 map05142 map05145 map05152 map05162 map05169

Pfam Domains

Protein Families

LRRNT_2 LRR_8 Pkinase Pkinase_Tyr

Protein Analysis

168

Amino Acids

18.52

Weight (kDa)

8.91

Isoelectric Point (pI)

44.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_2	PF00849	94 - 165	6.2e-11	RNA pseudouridylate synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0006106)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G35400 AT5G35400
fragaria_vesca	FvH4_4g06050 FvH4_4g06050
malus_domestica	MD13G1232500.v1.1
prunus_persica	Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1 Prupe.1G064000_v2.0.a1
pyrus_communis	pycom13g20490
rosa_chinensis	RchiOBHm_Chr4g0397611
rosa_laevigata	RLG00000009424
rosa_multiflora	Rmu_sc0002729.1_g000001 Rmu_sc0005653.1_g000002
rosa_roxburghii	Rroxscaffold_5G00342420
rosa_rugosa	Rorug03G0342300 Rorug03G0342400
rosa_samantha	Rh4AG079300 Rh4BG077200 Rh4CG084900 Rh4DG072300
rosa_wichuraiana	Rw4G006490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	78, 321
AclWI	GGATC	2 cut(s)	266, 279
AcsI	RAATTY	1 cut(s)	165
AcuI	CTGAAG	1 cut(s)	102
AcyI	GRCGYC	1 cut(s)	113
AfaI	GTAC	1 cut(s)	402
AfiI	CCNNNNNNNGG	3 cut(s)	317, 397, 439
AjnI	CCWGG	1 cut(s)	301
AloI	GAACNNNNNNTCC	2 cut(s)	297, 329
AluBI	AGCT	2 cut(s)	278, 503
AluI	AGCT	2 cut(s)	278, 503
Alw26I	GTCTC	1 cut(s)	260
AlwI	GGATC	2 cut(s)	266, 279
AoxI	GGCC	1 cut(s)	94
ApeKI	GCWGC	1 cut(s)	356
ApoI	RAATTY	1 cut(s)	165
Asp700I	GAANNNNTTC	1 cut(s)	191
BamHI	GGATCC	1 cut(s)	271
BauI	CACGAG	1 cut(s)	257
BbsI	GAAGAC	1 cut(s)	164
BbvI	GCAGC	1 cut(s)	343
BccI	CCATC	1 cut(s)	433
BceAI	ACGGC	1 cut(s)	391
BciT130I	CCWGG	1 cut(s)	303
BciVI	GTATCC	1 cut(s)	440
BcoDI	GTCTC	1 cut(s)	260
BfaI	CTAG	2 cut(s)	98, 177
BfuI	GTATCC	1 cut(s)	440
BisI	GCNGC	1 cut(s)	357
BlsI	GCNGC	1 cut(s)	358
Bme1390I	CCNGG	1 cut(s)	303
BmiI	GGNNCC	1 cut(s)	273
BmrFI	CCNGG	1 cut(s)	303
BmsI	GCATC	2 cut(s)	15, 46
BpiI	GAAGAC	1 cut(s)	164
Bsa29I	ATCGAT	1 cut(s)	23
BsaBI	GATNNNNATC	1 cut(s)	329
BsaHI	GRCGYC	1 cut(s)	113
Bsc4I	CCNNNNNNNGG	3 cut(s)	317, 397, 439
Bse1I	ACTGG	1 cut(s)	357
Bse8I	GATNNNNATC	1 cut(s)	329
BseBI	CCWGG	1 cut(s)	303
BseCI	ATCGAT	1 cut(s)	23
BseJI	GATNNNNATC	1 cut(s)	329
BseLI	CCNNNNNNNGG	3 cut(s)	317, 397, 439
BseMII	CTCAG	1 cut(s)	116
BseNI	ACTGG	1 cut(s)	357
BseXI	GCAGC	1 cut(s)	343
BshFI	GGCC	1 cut(s)	96
BshVI	ATCGAT	1 cut(s)	23
BslFI	GGGAC	2 cut(s)	231, 456
BslI	CCNNNNNNNGG	3 cut(s)	317, 397, 439
BsmAI	GTCTC	1 cut(s)	260
BsmFI	GGGAC	2 cut(s)	231, 456
BsmI	GAATGC	1 cut(s)	472
BsnI	GGCC	1 cut(s)	96
Bsp143I	GATC	2 cut(s)	160, 271
BspACI	CCGC	2 cut(s)	78, 321
BspANI	GGCC	1 cut(s)	96
BspCNI	CTCAG	1 cut(s)	117
BspDI	ATCGAT	1 cut(s)	23
BspLI	GGNNCC	1 cut(s)	273
BspPI	GGATC	2 cut(s)	266, 279
BsrI	ACTGG	1 cut(s)	357
BssMI	GATC	2 cut(s)	160, 271
BssNI	GRCGYC	1 cut(s)	113
BssSI	CACGAG	1 cut(s)	257
Bst2BI	CACGAG	1 cut(s)	257
Bst2UI	CCWGG	1 cut(s)	303
Bst4CI	ACNGT	1 cut(s)	466
Bst6I	CTCTTC	2 cut(s)	207, 485
BstACI	GRCGYC	1 cut(s)	113
BstDEI	CTNAG	2 cut(s)	125, 154
BstKTI	GATC	2 cut(s)	163, 274
BstMAI	GTCTC	1 cut(s)	260
BstMBI	GATC	2 cut(s)	160, 271
BstNI	CCWGG	1 cut(s)	303
BstSCI	CCNGG	1 cut(s)	301
BstV1I	GCAGC	1 cut(s)	343
BstV2I	GAAGAC	1 cut(s)	164
BstX2I	RGATCY	1 cut(s)	271
BstYI	RGATCY	1 cut(s)	271
Bsu15I	ATCGAT	1 cut(s)	23
BsuI	GTATCC	1 cut(s)	440
BsuRI	GGCC	1 cut(s)	96
BsuTUI	ATCGAT	1 cut(s)	23
ClaI	ATCGAT	1 cut(s)	23
CseI	GACGC	1 cut(s)	121
Csp6I	GTAC	1 cut(s)	401
CviJI	RGCY	6 cut(s)	96, 137, 278, 356, 378, 503
CviKI_1	RGCY	6 cut(s)	96, 137, 278, 356, 378, 503
CviQI	GTAC	1 cut(s)	401
DdeI	CTNAG	2 cut(s)	125, 154
DpnI	GATC	2 cut(s)	162, 273
DpnII	GATC	2 cut(s)	160, 271
Eam1104I	CTCTTC	2 cut(s)	207, 485
EarI	CTCTTC	2 cut(s)	207, 485
EciI	GGCGGA	1 cut(s)	93
Eco57I	CTGAAG	1 cut(s)	102
EcoRII	CCWGG	1 cut(s)	301
FaiI	YATR	2 cut(s)	37, 267
FaqI	GGGAC	2 cut(s)	231, 456
FauI	CCCGC	1 cut(s)	314
Fnu4HI	GCNGC	1 cut(s)	357
Fsp4HI	GCNGC	1 cut(s)	357
FspBI	CTAG	2 cut(s)	98, 177
GluI	GCNGC	1 cut(s)	357
HaeIII	GGCC	1 cut(s)	96
HgaI	GACGC	1 cut(s)	121
Hin1I	GRCGYC	1 cut(s)	113
HinfI	GANTC	2 cut(s)	143, 330
Hpy166II	GTNNAC	1 cut(s)	403
Hpy188I	TCNGA	2 cut(s)	121, 385
Hpy8I	GTNNAC	1 cut(s)	403
HpyAV	CCTTC	2 cut(s)	82, 126
HpyCH4III	ACNGT	1 cut(s)	466
HpyCH4V	TGCA	3 cut(s)	59, 461, 472
HpyF3I	CTNAG	2 cut(s)	125, 154
Hsp92I	GRCGYC	1 cut(s)	113
Kzo9I	GATC	2 cut(s)	160, 271
LmnI	GCTCC	1 cut(s)	500
Lsp1109I	GCAGC	1 cut(s)	343
LweI	GCATC	2 cut(s)	15, 46
MaeI	CTAG	2 cut(s)	98, 177
MaeIII	GTNAC	1 cut(s)	371
MalI	GATC	2 cut(s)	162, 273
MboI	GATC	2 cut(s)	160, 271
MboII	GAAGA	6 cut(s)	8, 164, 224, 242, 245, 472
MflI	RGATCY	1 cut(s)	271
MluCI	AATT	4 cut(s)	32, 41, 60, 165
MlyI	GAGTC	1 cut(s)	137
MnlI	CCTC	4 cut(s)	208, 309, 402, 488
MroXI	GAANNNNTTC	1 cut(s)	191
MseI	TTAA	2 cut(s)	368, 505
MslI	CAYNNNNRTG	1 cut(s)	225
MspR9I	CCNGG	1 cut(s)	303
Mva1269I	GAATGC	1 cut(s)	472
MvaI	CCWGG	1 cut(s)	303
NdeII	GATC	2 cut(s)	160, 271
NlaIV	GGNNCC	1 cut(s)	273
PctI	GAATGC	1 cut(s)	472
PdmI	GAANNNNTTC	1 cut(s)	191
PfeI	GAWTC	1 cut(s)	330
PfoI	TCCNGGA	1 cut(s)	301
PkrI	GCNGC	1 cut(s)	358
PleI	GAGTC	1 cut(s)	137
PpsI	GAGTC	1 cut(s)	137
Psp6I	CCWGG	1 cut(s)	301
PspGI	CCWGG	1 cut(s)	301
PspN4I	GGNNCC	1 cut(s)	273
PsuI	RGATCY	1 cut(s)	271
RsaI	GTAC	1 cut(s)	402
RsaNI	GTAC	1 cut(s)	401
RseI	CAYNNNNRTG	1 cut(s)	225
SaqAI	TTAA	2 cut(s)	368, 505
SatI	GCNGC	1 cut(s)	357
Sau3AI	GATC	2 cut(s)	160, 271
SchI	GAGTC	1 cut(s)	137
ScrFI	CCNGG	1 cut(s)	303
SetI	ASST	5 cut(s)	8, 93, 280, 301, 505
SfaNI	GCATC	2 cut(s)	15, 46
SmiMI	CAYNNNNRTG	1 cut(s)	225
Sse9I	AATT	4 cut(s)	32, 41, 60, 165
SsiI	CCGC	2 cut(s)	78, 321
SspMI	CTAG	2 cut(s)	98, 177
StyD4I	CCNGG	1 cut(s)	301
TaaI	ACNGT	1 cut(s)	466
TaqI	TCGA	3 cut(s)	23, 146, 163
TasI	AATT	4 cut(s)	32, 41, 60, 165
TfiI	GAWTC	1 cut(s)	330
Tru1I	TTAA	2 cut(s)	368, 505
Tru9I	TTAA	2 cut(s)	368, 505
TseI	GCWGC	1 cut(s)	356
TspDTI	ATGAA	3 cut(s)	101, 164, 363
TspGWI	ACGGA	2 cut(s)	460, 473
XapI	RAATTY	1 cut(s)	165
XmnI	GAANNNNTTC	1 cut(s)	191
XspI	CTAG	2 cut(s)	98, 177

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