Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0004144

Physical Location & Seq

Genomic Coordinates Forward (+)

59302627 .. 59304354

Gene Structure 1728 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0435400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGCCATGGATGGCAGCAATGCAGCAGCAGCAGCGGAGGAATTGGCCGTGGGTTGCTTCGTCTCCATCAAGACCACCTTGGGCGACGACTTCCAGGGCCAGGTCATCACCTTCGACCGCCCCTCCAACATCCTCATCCTTCAAGAGGGTTTGAAAGGAGGGCCTAAGCGGAACATCAGGCTACTCAAGGCCAACTATATCAAGGAGTTGAGCTATTTGGGTCAAGCTGAAGACCCACTTGACATTAAGAACTGTTACCTTGATCTTAATAGTCTCAGAGCCAGAGAGGAATCAGCTATCAGACAAGCAGAGGCAGAGTGTGAGAGGATCGGGGTCGGTGTCACCAGCCAGGCTCAGAACATTTTCGATGCCTTGTCTAAGACGCTTCCAGTACGCTGGGACAAGACTGTCATAGTTGTGATGAATGAGGTTCGTGTGAGCAGTCCATATCTCCCCGAGTCTGTCAGTGGAGGAACTCCTGCTGCCAATGATCGGGTGAAGAAAGTGCTTGAGTTGGAGAGGAGGAGGTTGCAAACTCGTGGTGGTGGTCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00540 ko01100 map00540 map01100

Pfam Domains

Protein Families

CTP_transf_3

Protein Analysis

184

Amino Acids

20.14

Weight (kDa)

6.39

Isoelectric Point (pI)

55.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM12_LSM	PF21166	13 - 69	2.3e-13	LSM12, LSM domain
AD	PF09793	87 - 169	4.8e-26	Anticodon-binding 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)

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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: OG0004144)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53000 AT1G53000
fragaria_vesca	FvH4_3g20180 FvH4_3g20180 FvH4_3g20180
malus_domestica	MD03G1226400.v1.1 MD11G1244700.v1.1
prunus_persica	Prupe.4G047000_v2.0.a1 Prupe.4G047000_v2.0.a1 Prupe.4G183000_v2.0.a1 Prupe.4G183000_v2.0.a1
pyrus_communis	pycom03g17410 pycom11g21680
rosa_chinensis	RchiOBHm_Chr5g0008351 RchiOBHm_Chr5g0033991
rosa_laevigata	RLG00000033517
rosa_multiflora	Rmu_sc0012341.1_g000007 Rmu_sc0014753.1_g000003 Rmu_sc0021840.1_g000001
rosa_roxburghii	Rroxscaffold_1G00046240 Rroxscaffold_1G00068140
rosa_rugosa	Rorug04G0435400 Rorug04G0435400 Rorug05G0144000
rosa_samantha	Rh5AG063900 Rh5AG234900 Rh5BG060800 Rh5BG235700 Rh5CG070800 Rh5CG265500 Rh5DG059800
rosa_wichuraiana	Rw5G005710 Rw5G021470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	407
AciI	CCGC	3 cut(s)	35, 118, 169
AclWI	GGATC	1 cut(s)	335
AcoI	YGGCCR	2 cut(s)	3, 45
AcuI	CTGAAG	1 cut(s)	249
AfaI	GTAC	1 cut(s)	393
AfiI	CCNNNNNNNGG	3 cut(s)	100, 145, 492
AgsI	TTSAA	2 cut(s)	143, 154
AjnI	CCWGG	3 cut(s)	93, 99, 348
AluBI	AGCT	3 cut(s)	213, 227, 296
AluI	AGCT	3 cut(s)	213, 227, 296
Alw26I	GTCTC	2 cut(s)	67, 278
AlwI	GGATC	1 cut(s)	335
Ama87I	CYCGRG	1 cut(s)	455
AoxI	GGCC	5 cut(s)	3, 45, 97, 161, 189
ApeKI	GCWGC	6 cut(s)	15, 23, 26, 29, 32, 482
Asp700I	GAANNNNTTC	1 cut(s)	362
AspS9I	GGNCC	2 cut(s)	97, 161
AsuHPI	GGTGA	3 cut(s)	100, 334, 508
AvaI	CYCGRG	1 cut(s)	455
BalI	TGGCCA	1 cut(s)	5
BauI	CACGAG	1 cut(s)	537
BbsI	GAAGAC	1 cut(s)	237
BbvI	GCAGC	6 cut(s)	27, 35, 38, 41, 44, 469
BccI	CCATC	2 cut(s)	5, 74
BceAI	ACGGC	1 cut(s)	32
BciT130I	CCWGG	3 cut(s)	95, 101, 350
BcoDI	GTCTC	2 cut(s)	67, 278
BisI	GCNGC	6 cut(s)	16, 24, 27, 30, 33, 483
BlsI	GCNGC	6 cut(s)	17, 25, 28, 31, 34, 484
Bme1390I	CCNGG	3 cut(s)	95, 101, 350
BmeT110I	CYCGRG	1 cut(s)	455
BmgT120I	GGNCC	2 cut(s)	97, 161
BmrFI	CCNGG	3 cut(s)	95, 101, 350
BmsI	GCATC	1 cut(s)	358
BpiI	GAAGAC	1 cut(s)	237
Bpu10I	CCTNAGC	1 cut(s)	165
BpuEI	CTTGAG	2 cut(s)	170, 530
BsaJI	CCNNGG	4 cut(s)	6, 48, 78, 94
BsaXI	ACNNNNNCTCC	2 cut(s)	107, 137
Bsc4I	CCNNNNNNNGG	3 cut(s)	100, 145, 492
Bse1I	ACTGG	1 cut(s)	389
Bse3DI	GCAATG	1 cut(s)	25
BseBI	CCWGG	3 cut(s)	95, 101, 350
BseDI	CCNNGG	4 cut(s)	6, 48, 78, 94
BseGI	GGATG	3 cut(s)	16, 129, 135
BseLI	CCNNNNNNNGG	3 cut(s)	100, 145, 492
BseMI	GCAATG	1 cut(s)	25
BseMII	CTCAG	2 cut(s)	289, 368
BseNI	ACTGG	1 cut(s)	389
BseRI	GAGGAG	2 cut(s)	535, 538
BseXI	GCAGC	6 cut(s)	27, 35, 38, 41, 44, 469
BseYI	CCCAGC	1 cut(s)	396
Bsh1285I	CGRYCG	1 cut(s)	118
BshFI	GGCC	5 cut(s)	5, 47, 99, 163, 191
BsiEI	CGRYCG	1 cut(s)	118
BsiHKCI	CYCGRG	1 cut(s)	455
BslFI	GGGAC	1 cut(s)	413
BslI	CCNNNNNNNGG	3 cut(s)	100, 145, 492
BsmAI	GTCTC	2 cut(s)	67, 278
BsmBI	CGTCTC	1 cut(s)	67
BsmFI	GGGAC	1 cut(s)	413
BsnI	GGCC	5 cut(s)	5, 47, 99, 163, 191
BsoBI	CYCGRG	1 cut(s)	455
Bsp143I	GATC	3 cut(s)	262, 327, 490
Bsp19I	CCATGG	1 cut(s)	6
BspACI	CCGC	3 cut(s)	35, 118, 169
BspANI	GGCC	5 cut(s)	5, 47, 99, 163, 191
BspCNI	CTCAG	2 cut(s)	288, 367
BspPI	GGATC	1 cut(s)	335
BsrDI	GCAATG	1 cut(s)	25
BsrI	ACTGG	1 cut(s)	389
BssECI	CCNNGG	4 cut(s)	6, 48, 78, 94
BssMI	GATC	3 cut(s)	262, 327, 490
BssSI	CACGAG	1 cut(s)	537
BssT1I	CCWWGG	2 cut(s)	6, 78
Bst2BI	CACGAG	1 cut(s)	537
Bst2UI	CCWGG	3 cut(s)	95, 101, 350
Bst4CI	ACNGT	2 cut(s)	254, 409
BstDEI	CTNAG	4 cut(s)	165, 275, 354, 378
BstDSI	CCRYGG	2 cut(s)	6, 48
BstENI	CCTNNNNNAGG	1 cut(s)	143
BstF5I	GGATG	3 cut(s)	16, 129, 135
BstKTI	GATC	3 cut(s)	265, 330, 493
BstMAI	GTCTC	2 cut(s)	67, 278
BstMBI	GATC	3 cut(s)	262, 327, 490
BstMCI	CGRYCG	1 cut(s)	118
BstMWI	GCNNNNNNNGC	2 cut(s)	29, 32
BstNI	CCWGG	3 cut(s)	95, 101, 350
BstSCI	CCNGG	3 cut(s)	93, 99, 348
BstV1I	GCAGC	6 cut(s)	27, 35, 38, 41, 44, 469
BstV2I	GAAGAC	1 cut(s)	237
BstXI	CCANNNNNNTGG	1 cut(s)	396
BsuRI	GGCC	5 cut(s)	5, 47, 99, 163, 191
BtgI	CCRYGG	2 cut(s)	6, 48
BtsCI	GGATG	3 cut(s)	16, 129, 135
BtsIMutI	CAGTG	1 cut(s)	472
Cfr13I	GGNCC	2 cut(s)	97, 161
CseI	GACGC	1 cut(s)	391
Csp6I	GTAC	1 cut(s)	392
CviAII	CATG	1 cut(s)	7
CviQI	GTAC	1 cut(s)	392
DdeI	CTNAG	4 cut(s)	165, 275, 354, 378
DpnI	GATC	3 cut(s)	264, 329, 492
DpnII	GATC	3 cut(s)	262, 327, 490
DrdI	GACNNNNNNGTC	1 cut(s)	407
DseDI	GACNNNNNNGTC	1 cut(s)	407
EaeI	YGGCCR	2 cut(s)	3, 45
Eco130I	CCWWGG	2 cut(s)	6, 78
Eco57I	CTGAAG	1 cut(s)	249
Eco88I	CYCGRG	1 cut(s)	455
EcoNI	CCTNNNNNAGG	1 cut(s)	143
EcoO109I	RGGNCCY	1 cut(s)	161
EcoRII	CCWGG	3 cut(s)	93, 99, 348
EcoT14I	CCWWGG	2 cut(s)	6, 78
ErhI	CCWWGG	2 cut(s)	6, 78
Esp3I	CGTCTC	1 cut(s)	67
FaeI	CATG	1 cut(s)	10
FaiI	YATR	4 cut(s)	8, 198, 413, 448
FalI	AAGNNNNNCTT	4 cut(s)	62, 94, 222, 254
FaqI	GGGAC	1 cut(s)	413
FatI	CATG	1 cut(s)	6
Fnu4HI	GCNGC	6 cut(s)	16, 24, 27, 30, 33, 483
FokI	GGATG	3 cut(s)	23, 116, 122
Fsp4HI	GCNGC	6 cut(s)	16, 24, 27, 30, 33, 483
GluI	GCNGC	6 cut(s)	16, 24, 27, 30, 33, 483
GsaI	CCCAGC	1 cut(s)	400
HaeIII	GGCC	5 cut(s)	5, 47, 99, 163, 191
HgaI	GACGC	1 cut(s)	391
Hin1II	CATG	1 cut(s)	10
HinfI	GANTC	2 cut(s)	290, 458
HphI	GGTGA	3 cut(s)	100, 334, 508
Hpy188I	TCNGA	3 cut(s)	278, 302, 357
Hpy188III	TCNNGA	2 cut(s)	70, 143
Hpy99I	CGWCG	1 cut(s)	89
HpyAV	CCTTC	2 cut(s)	121, 149
HpyCH4III	ACNGT	2 cut(s)	254, 409
HpyCH4V	TGCA	2 cut(s)	23, 532
HpyF10VI	GCNNNNNNNGC	2 cut(s)	29, 32
HpyF3I	CTNAG	4 cut(s)	165, 275, 354, 378
Hsp92II	CATG	1 cut(s)	10
Kzo9I	GATC	3 cut(s)	262, 327, 490
Lsp1109I	GCAGC	6 cut(s)	27, 35, 38, 41, 44, 469
LweI	GCATC	1 cut(s)	358
MaeIII	GTNAC	2 cut(s)	254, 340
MalI	GATC	3 cut(s)	264, 329, 492
MboI	GATC	3 cut(s)	262, 327, 490
MboII	GAAGA	2 cut(s)	242, 511
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	1 cut(s)	41
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	1 cut(s)	467
MmeI	TCCRAC	2 cut(s)	150, 495
Mox20I	TGGCCA	1 cut(s)	5
MroXI	GAANNNNTTC	1 cut(s)	362
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	2 cut(s)	246, 267
MslI	CAYNNNNRTG	1 cut(s)	416
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	35
MspR9I	CCNGG	3 cut(s)	95, 101, 350
MvaI	CCWGG	3 cut(s)	95, 101, 350
MwoI	GCNNNNNNNGC	2 cut(s)	29, 32
NcoI	CCATGG	1 cut(s)	6
NdeII	GATC	3 cut(s)	262, 327, 490
NlaIII	CATG	1 cut(s)	10
NmuCI	GTSAC	1 cut(s)	340
PdmI	GAANNNNTTC	1 cut(s)	362
PfeI	GAWTC	1 cut(s)	290
PkrI	GCNGC	6 cut(s)	17, 25, 28, 31, 34, 484
PleI	GAGTC	1 cut(s)	466
PpsI	GAGTC	1 cut(s)	466
Psp6I	CCWGG	3 cut(s)	93, 99, 348
PspFI	CCCAGC	1 cut(s)	396
PspGI	CCWGG	3 cut(s)	93, 99, 348
PspPI	GGNCC	2 cut(s)	97, 161
RsaI	GTAC	1 cut(s)	393
RsaNI	GTAC	1 cut(s)	392
RseI	CAYNNNNRTG	1 cut(s)	416
SaqAI	TTAA	2 cut(s)	246, 267
SatI	GCNGC	6 cut(s)	16, 24, 27, 30, 33, 483
Sau3AI	GATC	3 cut(s)	262, 327, 490
Sau96I	GGNCC	2 cut(s)	97, 161
SchI	GAGTC	1 cut(s)	467
ScrFI	CCNGG	3 cut(s)	95, 101, 350
SetI	ASST	9 cut(s)	80, 105, 113, 215, 229, 261, 298, 432, 530
SfaNI	GCATC	1 cut(s)	358
SmiMI	CAYNNNNRTG	1 cut(s)	416
SmlI	CTYRAG	2 cut(s)	185, 509
SmoI	CTYRAG	2 cut(s)	185, 509
Sse9I	AATT	1 cut(s)	41
SsiI	CCGC	3 cut(s)	35, 118, 169
StyD4I	CCNGG	3 cut(s)	93, 99, 348
StyI	CCWWGG	2 cut(s)	6, 78
TaaI	ACNGT	2 cut(s)	254, 409
TaqI	TCGA	2 cut(s)	114, 366
TasI	AATT	1 cut(s)	41
TfiI	GAWTC	1 cut(s)	290
Tru1I	TTAA	2 cut(s)	246, 267
Tru9I	TTAA	2 cut(s)	246, 267
TscAI	CASTG	1 cut(s)	472
TseFI	GTSAC	1 cut(s)	340
TseI	GCWGC	6 cut(s)	15, 23, 26, 29, 32, 482
Tsp45I	GTSAC	1 cut(s)	340
TspDTI	ATGAA	1 cut(s)	437
TspRI	CASTG	1 cut(s)	472
XagI	CCTNNNNNAGG	1 cut(s)	143
XmnI	GAANNNNTTC	1 cut(s)	362

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