Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0009572

Physical Location & Seq

Genomic Coordinates Forward (+)

43716731 .. 43722146

Gene Structure 5416 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0354200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGGTTCTCATGACTAAGCTTTGCCGCTTCAGTGGTGCCAAGATCTACCCTGGTAGGGGCATCAGATTCATCCACTCCGATTCTCAGGTTTCCCTGTTCATAAATTCCAAGTGCAAGAGGTACTTTAACAACCGCCTCAAGCCATCCAAGATCACATCGACTGCCATGTTCAGAAAGCAGCACAAGAAGGTAGGTAGTGCAGCTGCTTATTTAGAGACGGGCATATTTTCATCATGGCGTTATTCTATTCTTTTGATTTCTTCTGTTCTTATCATCACATGGCTCAACTTAAGGTTGTGCATATTGAAGGGAGAGAGGTTTGAAGTGGAAGCAAAGAAAAGAGATGTGGAATCCACATTGCGTTCGCATTTGGAATCTTTTCTAGAAACTACAAGATCATTCAATATGATTTACACCAAGGAAATACGTCCCTGGACACACATGATGGAGGTACCCCAGCTCCATGGGTTCGGGCCTGCAGCCAATCGCTTATTGGAGGCATATAAGATGCTTTTGAAGAAACCTGTCGAGGATAATGTTGAGAAGAAGAAGAAAAGGAAAGAGATAGGGGAGGAGAGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000002 GO:0000217 GO:0000404 GO:0003674 GO:0003676 GO:0003677 GO:0003684 GO:0003690 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006281 GO:0006298 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007005 GO:0008094 GO:0008150 GO:0008152 GO:0009266 GO:0009408 GO:0009507 GO:0009536 GO:0009579 GO:0009628 GO:0009987 GO:0016020 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0030983 GO:0032042 GO:0032135 GO:0032300 GO:0032991 GO:0033554 GO:0034357 GO:0034641 GO:0042623 GO:0042651 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043570 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044436 GO:0044444 GO:0044464 GO:0046483 GO:0050896 GO:0051276 GO:0051716 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990391

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GIY-YIG MutS_I MutS_V

Protein Analysis

193

Amino Acids

22.56

Weight (kDa)

10.1

Isoelectric Point (pI)

34.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L24e	PF01246	5 - 64	4.5e-22	Ribosomal protein L24e
Plant_NMP1	PF06694	110 - 173	3.7e-32	Plant nuclear matrix protein 1 (NMP1)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009572)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G24320 AT3G24320
fragaria_vesca	FvH4_4g05000 FvH4_4g05000 FvH4_4g05000
malus_domestica	MD13G1223200.v1.1
prunus_persica	Prupe.1G050200_v2.0.a1
pyrus_communis	pycom13g19710
rosa_chinensis	RchiOBHm_Chr4g0395811
rosa_laevigata	RLG00000009591
rosa_multiflora	Rmu_sc0001103.1_g000036 Rmu_sc0008803.1_g000001
rosa_roxburghii	Rroxscaffold_5G00340650
rosa_rugosa	Rorug03G0354100 Rorug03G0354200
rosa_samantha	Rh4AG062500 Rh4AG063500 Rh4AG067100 Rh4BG062200 Rh4CG068500 Rh4DG057100
rosa_wichuraiana	Rw4G005140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	451
AccB1I	GGYRCC	2 cut(s)	35, 451
AciI	CCGC	2 cut(s)	25, 133
AcsI	RAATTY	1 cut(s)	103
AcuI	CTGAAG	1 cut(s)	13
AfaI	GTAC	2 cut(s)	122, 453
AfiI	CCNNNNNNNGG	2 cut(s)	55, 56
AflII	CTTAAG	1 cut(s)	289
AgsI	TTSAA	4 cut(s)	307, 323, 403, 517
AjnI	CCWGG	2 cut(s)	49, 431
AluBI	AGCT	3 cut(s)	19, 203, 460
AluI	AGCT	3 cut(s)	19, 203, 460
Alw26I	GTCTC	1 cut(s)	209
AoxI	GGCC	1 cut(s)	473
ApeKI	GCWGC	4 cut(s)	178, 200, 203, 479
ApoI	RAATTY	1 cut(s)	103
Asp700I	GAANNNNTTC	1 cut(s)	378
Asp718I	GGTACC	1 cut(s)	451
AspS9I	GGNCC	1 cut(s)	473
BanI	GGYRCC	2 cut(s)	35, 451
BbvI	GCAGC	4 cut(s)	190, 190, 212, 491
BccI	CCATC	2 cut(s)	151, 439
BciT130I	CCWGG	2 cut(s)	51, 433
BcoDI	GTCTC	1 cut(s)	209
BfaI	CTAG	1 cut(s)	383
BfmI	CTRYAG	1 cut(s)	477
BfrI	CTTAAG	1 cut(s)	289
BglII	AGATCT	1 cut(s)	42
BisI	GCNGC	5 cut(s)	25, 179, 201, 204, 480
BlsI	GCNGC	5 cut(s)	26, 180, 202, 205, 481
Bme1390I	CCNGG	2 cut(s)	51, 433
BmgT120I	GGNCC	1 cut(s)	473
BmiI	GGNNCC	2 cut(s)	37, 453
BmrFI	CCNGG	2 cut(s)	51, 433
BmsI	GCATC	2 cut(s)	69, 498
BpuEI	CTTGAG	1 cut(s)	122
BsaJI	CCNNGG	4 cut(s)	49, 417, 431, 463
BsaXI	ACNNNNNCTCC	3 cut(s)	444, 474, 563
Bsc4I	CCNNNNNNNGG	2 cut(s)	55, 56
Bse3DI	GCAATG	1 cut(s)	356
BseBI	CCWGG	2 cut(s)	51, 433
BseDI	CCNNGG	4 cut(s)	49, 417, 431, 463
BseGI	GGATG	2 cut(s)	69, 143
BseLI	CCNNNNNNNGG	2 cut(s)	55, 56
BseMI	GCAATG	1 cut(s)	356
BseMII	CTCAG	1 cut(s)	98
BseXI	GCAGC	4 cut(s)	190, 190, 212, 491
BseYI	CCCAGC	1 cut(s)	456
BsgI	GTGCAG	1 cut(s)	219
BshFI	GGCC	1 cut(s)	475
BshNI	GGYRCC	2 cut(s)	35, 451
BslFI	GGGAC	1 cut(s)	414
BslI	CCNNNNNNNGG	2 cut(s)	55, 56
BsmAI	GTCTC	1 cut(s)	209
BsmBI	CGTCTC	1 cut(s)	209
BsmFI	GGGAC	1 cut(s)	414
BsnI	GGCC	1 cut(s)	475
Bsp143I	GATC	3 cut(s)	42, 150, 395
Bsp19I	CCATGG	1 cut(s)	463
BspACI	CCGC	2 cut(s)	25, 133
BspANI	GGCC	1 cut(s)	475
BspCNI	CTCAG	1 cut(s)	97
BspHI	TCATGA	1 cut(s)	9
BspLI	GGNNCC	2 cut(s)	37, 453
BspMAI	CTGCAG	1 cut(s)	481
BspT107I	GGYRCC	2 cut(s)	35, 451
BspTI	CTTAAG	1 cut(s)	289
BsrDI	GCAATG	1 cut(s)	356
BssECI	CCNNGG	4 cut(s)	49, 417, 431, 463
BssMI	GATC	3 cut(s)	42, 150, 395
BssT1I	CCWWGG	2 cut(s)	417, 463
Bst2UI	CCWGG	2 cut(s)	51, 433
BstAFI	CTTAAG	1 cut(s)	289
BstC8I	GCNNGC	1 cut(s)	477
BstDEI	CTNAG	2 cut(s)	15, 84
BstDSI	CCRYGG	1 cut(s)	463
BstF5I	GGATG	2 cut(s)	69, 143
BstKTI	GATC	3 cut(s)	45, 153, 398
BstMAI	GTCTC	1 cut(s)	209
BstMBI	GATC	3 cut(s)	42, 150, 395
BstNI	CCWGG	2 cut(s)	51, 433
BstSCI	CCNGG	2 cut(s)	49, 431
BstSFI	CTRYAG	1 cut(s)	477
BstV1I	GCAGC	4 cut(s)	190, 190, 212, 491
BstX2I	RGATCY	1 cut(s)	42
BstXI	CCANNNNNNTGG	1 cut(s)	464
BstYI	RGATCY	1 cut(s)	42
BsuRI	GGCC	1 cut(s)	475
BtgI	CCRYGG	1 cut(s)	463
BtsCI	GGATG	2 cut(s)	69, 143
BtsIMutI	CAGTG	1 cut(s)	37
Cac8I	GCNNGC	1 cut(s)	477
CciI	TCATGA	1 cut(s)	9
Cfr13I	GGNCC	1 cut(s)	473
Csp6I	GTAC	2 cut(s)	121, 452
CviAII	CATG	6 cut(s)	10, 166, 234, 279, 442, 464
CviJI	RGCY	7 cut(s)	19, 142, 203, 283, 460, 475, 482
CviKI_1	RGCY	7 cut(s)	19, 142, 203, 283, 460, 475, 482
CviQI	GTAC	2 cut(s)	121, 452
DdeI	CTNAG	2 cut(s)	15, 84
DpnI	GATC	3 cut(s)	44, 152, 397
DpnII	GATC	3 cut(s)	42, 150, 395
Eco130I	CCWWGG	2 cut(s)	417, 463
Eco57I	CTGAAG	1 cut(s)	13
EcoRII	CCWGG	2 cut(s)	49, 431
EcoT14I	CCWWGG	2 cut(s)	417, 463
ErhI	CCWWGG	2 cut(s)	417, 463
Esp3I	CGTCTC	1 cut(s)	209
FaeI	CATG	6 cut(s)	13, 169, 237, 282, 445, 467
FalI	AAGNNNNNCTT	2 cut(s)	107, 139
FaqI	GGGAC	1 cut(s)	414
FatI	CATG	6 cut(s)	9, 165, 233, 278, 441, 463
Fnu4HI	GCNGC	5 cut(s)	25, 179, 201, 204, 480
FokI	GGATG	2 cut(s)	56, 130
Fsp4HI	GCNGC	5 cut(s)	25, 179, 201, 204, 480
FspBI	CTAG	1 cut(s)	383
GluI	GCNGC	5 cut(s)	25, 179, 201, 204, 480
GsaI	CCCAGC	1 cut(s)	460
HaeIII	GGCC	1 cut(s)	475
Hin1II	CATG	6 cut(s)	13, 169, 237, 282, 445, 467
HindIII	AAGCTT	1 cut(s)	17
HinfI	GANTC	4 cut(s)	66, 80, 350, 374
Hpy188I	TCNGA	3 cut(s)	65, 79, 173
Hpy188III	TCNNGA	2 cut(s)	10, 383
HpyAV	CCTTC	2 cut(s)	181, 301
HpyCH4IV	ACGT	1 cut(s)	427
HpyCH4V	TGCA	4 cut(s)	114, 200, 300, 479
HpyF3I	CTNAG	2 cut(s)	15, 84
HpySE526I	ACGT	1 cut(s)	427
Hsp92II	CATG	6 cut(s)	13, 169, 237, 282, 445, 467
KpnI	GGTACC	1 cut(s)	455
Kzo9I	GATC	3 cut(s)	42, 150, 395
LmnI	GCTCC	1 cut(s)	465
LpnPI	CCDG	9 cut(s)	36, 63, 71, 107, 418, 445, 470, 489, 537
Lsp1109I	GCAGC	4 cut(s)	190, 190, 212, 491
LweI	GCATC	2 cut(s)	69, 498
MaeI	CTAG	1 cut(s)	383
MaeII	ACGT	1 cut(s)	427
MalI	GATC	3 cut(s)	44, 152, 397
MboI	GATC	3 cut(s)	42, 150, 395
MboII	GAAGA	5 cut(s)	252, 529, 556, 559, 562
MflI	RGATCY	1 cut(s)	42
MluCI	AATT	1 cut(s)	103
MnlI	CCTC	8 cut(s)	111, 146, 309, 442, 490, 523, 565, 570
MroXI	GAANNNNTTC	1 cut(s)	378
MseI	TTAA	2 cut(s)	126, 290
MspA1I	CMGCKG	1 cut(s)	203
MspCI	CTTAAG	1 cut(s)	289
MspR9I	CCNGG	2 cut(s)	51, 433
MvaI	CCWGG	2 cut(s)	51, 433
NcoI	CCATGG	1 cut(s)	463
NdeII	GATC	3 cut(s)	42, 150, 395
NlaIII	CATG	6 cut(s)	13, 169, 237, 282, 445, 467
NlaIV	GGNNCC	2 cut(s)	37, 453
PagI	TCATGA	1 cut(s)	9
PdmI	GAANNNNTTC	1 cut(s)	378
PfeI	GAWTC	4 cut(s)	66, 80, 350, 374
PkrI	GCNGC	5 cut(s)	26, 180, 202, 205, 481
Psp6I	CCWGG	2 cut(s)	49, 431
PspFI	CCCAGC	1 cut(s)	456
PspGI	CCWGG	2 cut(s)	49, 431
PspN4I	GGNNCC	2 cut(s)	37, 453
PspPI	GGNCC	1 cut(s)	473
PstI	CTGCAG	1 cut(s)	481
PsuI	RGATCY	1 cut(s)	42
PvuII	CAGCTG	1 cut(s)	203
RsaI	GTAC	2 cut(s)	122, 453
RsaNI	GTAC	2 cut(s)	121, 452
SaqAI	TTAA	2 cut(s)	126, 290
SatI	GCNGC	5 cut(s)	25, 179, 201, 204, 480
Sau3AI	GATC	3 cut(s)	42, 150, 395
Sau96I	GGNCC	1 cut(s)	473
ScrFI	CCNGG	2 cut(s)	51, 433
SfaNI	GCATC	2 cut(s)	69, 498
SfcI	CTRYAG	1 cut(s)	477
SmlI	CTYRAG	2 cut(s)	137, 289
SmoI	CTYRAG	2 cut(s)	137, 289
Sse9I	AATT	1 cut(s)	103
SsiI	CCGC	2 cut(s)	25, 133
SspMI	CTAG	1 cut(s)	383
StyD4I	CCNGG	2 cut(s)	49, 431
StyI	CCWWGG	2 cut(s)	417, 463
TaiI	ACGT	1 cut(s)	430
TaqI	TCGA	2 cut(s)	158, 528
TasI	AATT	1 cut(s)	103
TauI	GCSGC	1 cut(s)	27
TfiI	GAWTC	4 cut(s)	66, 80, 350, 374
Tru1I	TTAA	2 cut(s)	126, 290
Tru9I	TTAA	2 cut(s)	126, 290
TscAI	CASTG	1 cut(s)	37
TseI	GCWGC	4 cut(s)	178, 200, 203, 479
TspDTI	ATGAA	3 cut(s)	58, 88, 219
TspRI	CASTG	1 cut(s)	37
Vha464I	CTTAAG	1 cut(s)	289
XapI	RAATTY	1 cut(s)	103
XbaI	TCTAGA	1 cut(s)	382
XcmI	CCANNNNNNNNNTGG	1 cut(s)	490
XmnI	GAANNNNTTC	1 cut(s)	378
XspI	CTAG	1 cut(s)	383

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