Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0011491

Physical Location & Seq

Genomic Coordinates Reverse (-)

49624867 .. 49629822

Gene Structure 4956 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG275300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGTGGCAGCAACGCTCTCATGTACCAAAGTTTGGCAATTGGGAAGGTGAAGAAAATGTTCCCTACACAGCCTATTTTGATAAGGCGCGAAAGGGTCGAACTGGGCCTGGGGGAAAGATGATTAATCCAAATGACCCCCAAGAGAACCCTGATCTCCTTAACGATATGTCATCAGTCACATCATCTCCTCCCAGAGTTAGAGCTGAACCAGAAAGACAAGATCATGAACGGGGAAGAAGCAGGGAGGATATTGACCAAAGGCAATATGCCAACTCTCCAGCACACCGCGAAAATCTGAGTCGCAAAACTTCTGGTGAATCAACATATCAACCTGGTAGAGGGCGTGGAACAAATTTTGGTGAAACTCATCGAAGACCTGCACGACAAAGTGGTGGCTCTGAGCAGAGCATTGAACGTTCACCTCTCCATCGCCAGGCAAGGGCCACGGGGAGAGATTCTCCTTCCTGGGAGGGAAAGCCTTCATCTGAAAGTAGCCATGGTACTCCTGGAAGATCCCGTCTTAAGCCTCGCGATGAAAGTGTAAATTTTCTTTCTTATTTCCATCATGTTATTGCCGTAATAACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002218 GO:0002237 GO:0002253 GO:0002376 GO:0002682 GO:0002683 GO:0002684 GO:0005575 GO:0005623 GO:0005886 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006952 GO:0006955 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0008219 GO:0009605 GO:0009607 GO:0009617 GO:0009626 GO:0009814 GO:0009816 GO:0009987 GO:0010033 GO:0010204 GO:0010363 GO:0010941 GO:0012501 GO:0016020 GO:0016310 GO:0019538 GO:0019897 GO:0019898 GO:0023052 GO:0031347 GO:0031348 GO:0031349 GO:0033554 GO:0034050 GO:0034051 GO:0036211 GO:0042221 GO:0042742 GO:0043067 GO:0043069 GO:0043170 GO:0043207 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044425 GO:0044459 GO:0044464 GO:0045087 GO:0045088 GO:0045089 GO:0045824 GO:0048518 GO:0048519 GO:0048523 GO:0048583 GO:0048584 GO:0048585 GO:0050776 GO:0050777 GO:0050778 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0060548 GO:0065007 GO:0071704 GO:0071944 GO:0080134 GO:0080135 GO:0098542 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko04626 map04626

Pfam Domains

Protein Families

AvrRpt-cleavage

Protein Analysis

195

Amino Acids

22.06

Weight (kDa)

9.83

Isoelectric Point (pI)

65.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AvrRpt-cleavage	PF05627	4 - 33	3.6e-09	Cleavage site for pathogenic type III effector avirulence factor Avr

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0011491)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G25070 AT3G25070
fragaria_vesca	FvH4_2g18650 FvH4_2g18650 FvH4_2g18650
malus_domestica	MD05G1172400.v1.1 MD10G1160600.v1.1
prunus_persica	Prupe.8G199800_v2.0.a1
pyrus_communis	pycom05g15900 pycom10g13880
rosa_chinensis	RchiOBHm_Chr6g0284211
rosa_laevigata	RLG00000012756
rosa_multiflora	Rmu_sc0002698.1_g000030
rosa_roxburghii	Rroxscaffold_7G00184780
rosa_rugosa	Rorug06G0161900
rosa_samantha	Rh6AG274800 Rh6BG275300 Rh6CG277000 Rh6DG269700
rosa_wichuraiana	Rw6G023640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	385
AccB7I	CCANNNNNTGG	1 cut(s)	32
AccII	CGCG	3 cut(s)	88, 288, 531
AciI	CCGC	1 cut(s)	286
AclI	AACGTT	1 cut(s)	415
AclWI	GGATC	1 cut(s)	507
AcsI	RAATTY	2 cut(s)	352, 544
AfaI	GTAC	2 cut(s)	24, 502
AfiI	CCNNNNNNNGG	4 cut(s)	32, 338, 433, 439
AflII	CTTAAG	1 cut(s)	521
AgsI	TTSAA	1 cut(s)	413
AjnI	CCWGG	5 cut(s)	106, 331, 432, 464, 505
AluBI	AGCT	1 cut(s)	203
AluI	AGCT	1 cut(s)	203
AlwI	GGATC	1 cut(s)	507
AoxI	GGCC	2 cut(s)	104, 441
ApeKI	GCWGC	1 cut(s)	7
ApoI	RAATTY	2 cut(s)	352, 544
AseI	ATTAAT	1 cut(s)	123
Asp700I	GAANNNNTTC	2 cut(s)	57, 478
AspLEI	GCGC	1 cut(s)	88
AspS9I	GGNCC	2 cut(s)	104, 441
AsuHPI	GGTGA	4 cut(s)	59, 326, 371, 411
BbsI	GAAGAC	1 cut(s)	379
BbvI	GCAGC	1 cut(s)	19
BccI	CCATC	2 cut(s)	435, 570
BceAI	ACGGC	1 cut(s)	560
BciT130I	CCWGG	5 cut(s)	108, 333, 434, 466, 507
BfrI	CTTAAG	1 cut(s)	521
BfuAI	ACCTGC	1 cut(s)	385
BisI	GCNGC	1 cut(s)	8
BlsI	GCNGC	1 cut(s)	9
Bme1390I	CCNGG	5 cut(s)	108, 333, 434, 466, 507
BmgT120I	GGNCC	2 cut(s)	104, 441
BmrFI	CCNGG	5 cut(s)	108, 333, 434, 466, 507
BmrI	ACTGGG	1 cut(s)	111
BmuI	ACTGGG	1 cut(s)	111
BpiI	GAAGAC	1 cut(s)	379
BplI	GAGNNNNNCTC	2 cut(s)	442, 474
BpmI	CTGGAG	1 cut(s)	261
BsaJI	CCNNGG	4 cut(s)	107, 444, 465, 496
BsaXI	ACNNNNNCTCC	2 cut(s)	169, 199
Bsc4I	CCNNNNNNNGG	4 cut(s)	32, 338, 433, 439
Bse1I	ACTGG	1 cut(s)	106
BseBI	CCWGG	5 cut(s)	108, 333, 434, 466, 507
BseDI	CCNNGG	4 cut(s)	107, 444, 465, 496
BseLI	CCNNNNNNNGG	4 cut(s)	32, 338, 433, 439
BseMII	CTCAG	2 cut(s)	287, 390
BseNI	ACTGG	1 cut(s)	106
BseRI	GAGGAG	1 cut(s)	177
BseXI	GCAGC	1 cut(s)	19
BsgI	GTGCAG	1 cut(s)	363
Bsh1236I	CGCG	3 cut(s)	88, 288, 531
BshFI	GGCC	2 cut(s)	106, 443
BslI	CCNNNNNNNGG	4 cut(s)	32, 338, 433, 439
BsnI	GGCC	2 cut(s)	106, 443
Bsp143I	GATC	3 cut(s)	151, 220, 512
Bsp19I	CCATGG	1 cut(s)	496
Bsp68I	TCGCGA	1 cut(s)	531
BspACI	CCGC	1 cut(s)	286
BspANI	GGCC	2 cut(s)	106, 443
BspCNI	CTCAG	2 cut(s)	288, 391
BspFNI	CGCG	3 cut(s)	88, 288, 531
BspHI	TCATGA	1 cut(s)	223
BspMI	ACCTGC	1 cut(s)	385
BspPI	GGATC	1 cut(s)	507
BspTI	CTTAAG	1 cut(s)	521
BsrI	ACTGG	1 cut(s)	106
BssECI	CCNNGG	4 cut(s)	107, 444, 465, 496
BssMI	GATC	3 cut(s)	151, 220, 512
BssT1I	CCWWGG	1 cut(s)	496
Bst2UI	CCWGG	5 cut(s)	108, 333, 434, 466, 507
BstAFI	CTTAAG	1 cut(s)	521
BstDEI	CTNAG	2 cut(s)	296, 399
BstDSI	CCRYGG	2 cut(s)	444, 496
BstENI	CCTNNNNNAGG	1 cut(s)	336
BstFNI	CGCG	3 cut(s)	88, 288, 531
BstHHI	GCGC	1 cut(s)	88
BstKTI	GATC	3 cut(s)	154, 223, 515
BstMBI	GATC	3 cut(s)	151, 220, 512
BstNI	CCWGG	5 cut(s)	108, 333, 434, 466, 507
BstSCI	CCNGG	5 cut(s)	106, 331, 432, 464, 505
BstUI	CGCG	3 cut(s)	88, 288, 531
BstV1I	GCAGC	1 cut(s)	19
BstV2I	GAAGAC	1 cut(s)	379
BstX2I	RGATCY	1 cut(s)	512
BstYI	RGATCY	1 cut(s)	512
BsuRI	GGCC	2 cut(s)	106, 443
BtgI	CCRYGG	2 cut(s)	444, 496
BtgZI	GCGATG	2 cut(s)	413, 546
BtuMI	TCGCGA	1 cut(s)	531
BveI	ACCTGC	1 cut(s)	385
CciI	TCATGA	1 cut(s)	223
CfoI	GCGC	1 cut(s)	88
Cfr13I	GGNCC	2 cut(s)	104, 441
CsiI	ACCWGGT	1 cut(s)	331
Csp6I	GTAC	2 cut(s)	23, 501
CviAII	CATG	4 cut(s)	20, 224, 497, 566
CviJI	RGCY	8 cut(s)	71, 106, 203, 396, 443, 478, 495, 526
CviKI_1	RGCY	8 cut(s)	71, 106, 203, 396, 443, 478, 495, 526
CviQI	GTAC	2 cut(s)	23, 501
DdeI	CTNAG	2 cut(s)	296, 399
DpnI	GATC	3 cut(s)	153, 222, 514
DpnII	GATC	3 cut(s)	151, 220, 512
Eco130I	CCWWGG	1 cut(s)	496
EcoNI	CCTNNNNNAGG	1 cut(s)	336
EcoRII	CCWGG	5 cut(s)	106, 331, 432, 464, 505
EcoT14I	CCWWGG	1 cut(s)	496
ErhI	CCWWGG	1 cut(s)	496
FaeI	CATG	4 cut(s)	23, 227, 500, 569
FaiI	YATR	8 cut(s)	21, 167, 225, 267, 325, 498, 567, 586
FatI	CATG	4 cut(s)	19, 223, 496, 565
Fnu4HI	GCNGC	1 cut(s)	8
Fsp4HI	GCNGC	1 cut(s)	8
GlaI	GCGC	1 cut(s)	87
GluI	GCNGC	1 cut(s)	8
GsuI	CTGGAG	1 cut(s)	261
HaeIII	GGCC	2 cut(s)	106, 443
HhaI	GCGC	1 cut(s)	88
Hin1II	CATG	4 cut(s)	23, 227, 500, 569
Hin6I	GCGC	1 cut(s)	86
HinP1I	GCGC	1 cut(s)	86
HinfI	GANTC	3 cut(s)	298, 317, 455
HphI	GGTGA	4 cut(s)	59, 326, 371, 411
Hpy166II	GTNNAC	1 cut(s)	419
Hpy188I	TCNGA	3 cut(s)	297, 400, 487
Hpy188III	TCNNGA	2 cut(s)	224, 530
Hpy8I	GTNNAC	1 cut(s)	419
HpyAV	CCTTC	3 cut(s)	38, 471, 489
HpyCH4IV	ACGT	1 cut(s)	415
HpyCH4V	TGCA	1 cut(s)	380
HpyF3I	CTNAG	2 cut(s)	296, 399
HpySE526I	ACGT	1 cut(s)	415
Hsp92II	CATG	4 cut(s)	23, 227, 500, 569
HspAI	GCGC	1 cut(s)	86
Kzo9I	GATC	3 cut(s)	151, 220, 512
Lsp1109I	GCAGC	1 cut(s)	19
MabI	ACCWGGT	1 cut(s)	331
MaeII	ACGT	1 cut(s)	415
MaeIII	GTNAC	1 cut(s)	175
MalI	GATC	3 cut(s)	153, 222, 514
MboI	GATC	3 cut(s)	151, 220, 512
MboII	GAAGA	4 cut(s)	62, 246, 384, 522
MfeI	CAATTG	1 cut(s)	37
MflI	RGATCY	1 cut(s)	512
MluCI	AATT	3 cut(s)	37, 352, 544
MlyI	GAGTC	1 cut(s)	307
MnlI	CCTC	6 cut(s)	198, 238, 332, 432, 463, 537
MroXI	GAANNNNTTC	2 cut(s)	57, 478
MseI	TTAA	3 cut(s)	123, 159, 522
MspCI	CTTAAG	1 cut(s)	521
MspR9I	CCNGG	5 cut(s)	108, 333, 434, 466, 507
MunI	CAATTG	1 cut(s)	37
MvaI	CCWGG	5 cut(s)	108, 333, 434, 466, 507
MvnI	CGCG	3 cut(s)	88, 288, 531
NcoI	CCATGG	1 cut(s)	496
NdeII	GATC	3 cut(s)	151, 220, 512
NlaIII	CATG	4 cut(s)	23, 227, 500, 569
NmuCI	GTSAC	1 cut(s)	175
NruI	TCGCGA	1 cut(s)	531
PagI	TCATGA	1 cut(s)	223
PdmI	GAANNNNTTC	2 cut(s)	57, 478
PfeI	GAWTC	2 cut(s)	317, 455
PflMI	CCANNNNNTGG	1 cut(s)	32
PfoI	TCCNGGA	1 cut(s)	505
PkrI	GCNGC	1 cut(s)	9
PleI	GAGTC	1 cut(s)	306
PpsI	GAGTC	1 cut(s)	306
PshBI	ATTAAT	1 cut(s)	123
Psp1406I	AACGTT	1 cut(s)	415
Psp6I	CCWGG	5 cut(s)	106, 331, 432, 464, 505
PspGI	CCWGG	5 cut(s)	106, 331, 432, 464, 505
PspPI	GGNCC	2 cut(s)	104, 441
PsuI	RGATCY	1 cut(s)	512
RruI	TCGCGA	1 cut(s)	531
RsaI	GTAC	2 cut(s)	24, 502
RsaNI	GTAC	2 cut(s)	23, 501
SaqAI	TTAA	3 cut(s)	123, 159, 522
SatI	GCNGC	1 cut(s)	8
Sau3AI	GATC	3 cut(s)	151, 220, 512
Sau96I	GGNCC	2 cut(s)	104, 441
SchI	GAGTC	1 cut(s)	307
ScrFI	CCNGG	5 cut(s)	108, 333, 434, 466, 507
SetI	ASST	6 cut(s)	49, 205, 334, 379, 418, 424
SexAI	ACCWGGT	1 cut(s)	331
SmlI	CTYRAG	1 cut(s)	521
SmoI	CTYRAG	1 cut(s)	521
Sse9I	AATT	3 cut(s)	37, 352, 544
SsiI	CCGC	1 cut(s)	286
StyD4I	CCNGG	5 cut(s)	106, 331, 432, 464, 505
StyI	CCWWGG	1 cut(s)	496
TaiI	ACGT	1 cut(s)	418
TaqI	TCGA	2 cut(s)	97, 370
TasI	AATT	3 cut(s)	37, 352, 544
TfiI	GAWTC	2 cut(s)	317, 455
Tru1I	TTAA	3 cut(s)	123, 159, 522
Tru9I	TTAA	3 cut(s)	123, 159, 522
TseFI	GTSAC	1 cut(s)	175
TseI	GCWGC	1 cut(s)	7
Tsp45I	GTSAC	1 cut(s)	175
TspDTI	ATGAA	3 cut(s)	240, 471, 549
Van91I	CCANNNNNTGG	1 cut(s)	32
Vha464I	CTTAAG	1 cut(s)	521
VspI	ATTAAT	1 cut(s)	123
XagI	CCTNNNNNAGG	1 cut(s)	336
XapI	RAATTY	2 cut(s)	352, 544
XcmI	CCANNNNNNNNNTGG	1 cut(s)	503
XmnI	GAANNNNTTC	2 cut(s)	57, 478

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