Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0014682

Physical Location & Seq

Genomic Coordinates Reverse (-)

917551 .. 919088

Gene Structure 1538 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG013800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 741 bp

ATGGCCAAAAGATCTCATGTCCCGAAATTCGGCGATTGGAACAACAAGGGCGGCAATGTACCATACACCGCCGTTTTTGACAAGGCCCGCAAGGGTAAATTGAAAGATGGAGTGAAGATCATGAATCCAAATGATCCGGAGGAAAATCCAGAAGCTTTCACCACCATCGACGAGAAAGAGAAAGTGAAAGAAGGGGCGGTGAAGATCAAACTCCCTATCGTTGCTGAAGAGAGTCGAGACTCCTCAGAATCTGAATCCATTGCGCCACAGTTGTCATATATTAGTCGTGCTAGTTTGAGTCACCGCCGCCGCAGGAGTGACGAATCGGAGCTATCTGTCTATAGTGAAAAGATGAGTTTCGAGCGTAATAATTCATCACTTATACTGCAGCAACGGAGACAACAACGGTTGCGGGAGAAATCTGAGAAAAAGAAAAGTACGGATTCATCTTCAAAAAGAACTGGTTCAACTGAACATCATCGCAAACATTCTAGTATTACTGATATTGACATGATTCCAATACCAAAATTTGGGGATTGGGATGAGAGCGACCCAAAAGCTGGCGAAGATTATACATACAAATTCAACAAAGTGAAAGATGAAAAGAAGAATATATCTGAAATGTTCTCAGCTGCTTTGTCGTCAGGACGAAACAATGGTGTTAATACCAATAATCATGAAAAATCTTTTTCCATATCGAAGATTTGCTGCTTTCATCTATTTCCAAGAGGAAGGGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04626 map04626

Pfam Domains

Protein Families

AvrRpt-cleavage

Protein Analysis

246

Amino Acids

28.04

Weight (kDa)

9.45

Isoelectric Point (pI)

56.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AvrRpt-cleavage	PF05627	3 - 33	5.4e-10	Cleavage site for pathogenic type III effector avirulence factor Avr
AvrRpt-cleavage	PF05627	173 - 203	5.7e-13	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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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014682)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g01180 FvH4_7g07170
prunus_persica	Prupe.4G013100_v2.0.a1
pyrus_communis	pycom03g15440 pycom10g27870
rosa_laevigata	RLG00000030967
rosa_multiflora	Rmu_sc0002524.1_g000001 Rmu_ssc0000237.1_g000019 Rmu_ssc0000237.1_g000020
rosa_roxburghii	Rroxscaffold_1G00071200 Rroxscaffold_1G00074570
rosa_rugosa	Rorug04G0392600
rosa_samantha	Rh5AG013800 Rh5BG017200 Rh5CG014800 Rh5DG015300
rosa_wichuraiana	Rw5G001350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	530, 560
AccIII	TCCGGA	1 cut(s)	136
AciI	CCGC	8 cut(s)	51, 69, 88, 197, 304, 307, 310, 412
AclWI	GGATC	1 cut(s)	128
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	3 cut(s)	26, 527, 581
AcuI	CTGAAG	1 cut(s)	246
AfaI	GTAC	2 cut(s)	60, 439
AfiI	CCNNNNNNNGG	3 cut(s)	29, 530, 560
AgsI	TTSAA	4 cut(s)	103, 453, 468, 586
AluBI	AGCT	4 cut(s)	155, 331, 560, 632
AluI	AGCT	4 cut(s)	155, 331, 560, 632
Alw26I	GTCTC	2 cut(s)	231, 391
AlwI	GGATC	1 cut(s)	128
AlwNI	CAGNNNCTG	1 cut(s)	251
Aor13HI	TCCGGA	1 cut(s)	136
AoxI	GGCC	2 cut(s)	3, 84
ApeKI	GCWGC	3 cut(s)	388, 632, 708
ApoI	RAATTY	3 cut(s)	26, 527, 581
Asp700I	GAANNNNTTC	1 cut(s)	463
AspLEI	GCGC	1 cut(s)	265
AspS9I	GGNCC	1 cut(s)	85
AsuHPI	GGTGA	3 cut(s)	151, 211, 293
BalI	TGGCCA	1 cut(s)	5
BbvI	GCAGC	3 cut(s)	400, 619, 695
BccI	CCATC	2 cut(s)	101, 173
BceAI	ACGGC	1 cut(s)	56
BcoDI	GTCTC	2 cut(s)	231, 391
BfaI	CTAG	2 cut(s)	291, 492
BfmI	CTRYAG	2 cut(s)	340, 386
BglII	AGATCT	1 cut(s)	11
BisI	GCNGC	6 cut(s)	52, 307, 310, 389, 633, 709
BlsI	GCNGC	6 cut(s)	53, 308, 311, 390, 634, 710
BmgT120I	GGNCC	1 cut(s)	85
BsaWI	WCCGGW	1 cut(s)	136
Bsc4I	CCNNNNNNNGG	3 cut(s)	29, 530, 560
Bse1I	ACTGG	1 cut(s)	466
Bse3DI	GCAATG	2 cut(s)	61, 258
BseAI	TCCGGA	1 cut(s)	136
BseGI	GGATG	1 cut(s)	547
BseLI	CCNNNNNNNGG	3 cut(s)	29, 530, 560
BseMI	GCAATG	2 cut(s)	61, 258
BseMII	CTCAG	3 cut(s)	258, 414, 642
BseNI	ACTGG	1 cut(s)	466
BseRI	GAGGAG	1 cut(s)	232
BseXI	GCAGC	3 cut(s)	400, 619, 695
BshFI	GGCC	2 cut(s)	5, 86
BsiSI	CCGG	1 cut(s)	137
BslFI	GGGAC	1 cut(s)	5
BslI	CCNNNNNNNGG	3 cut(s)	29, 530, 560
BsmAI	GTCTC	2 cut(s)	231, 391
BsmFI	GGGAC	1 cut(s)	5
BsnI	GGCC	2 cut(s)	5, 86
Bsp13I	TCCGGA	1 cut(s)	136
Bsp143I	GATC	4 cut(s)	11, 117, 133, 204
BspACI	CCGC	8 cut(s)	51, 69, 88, 197, 304, 307, 310, 412
BspANI	GGCC	2 cut(s)	5, 86
BspCNI	CTCAG	3 cut(s)	257, 415, 641
BspEI	TCCGGA	1 cut(s)	136
BspHI	TCATGA	2 cut(s)	120, 676
BspMAI	CTGCAG	1 cut(s)	390
BspPI	GGATC	1 cut(s)	128
BsrDI	GCAATG	2 cut(s)	61, 258
BsrI	ACTGG	1 cut(s)	466
BssMI	GATC	4 cut(s)	11, 117, 133, 204
Bst4CI	ACNGT	2 cut(s)	270, 408
Bst6I	CTCTTC	1 cut(s)	222
BstC8I	GCNNGC	2 cut(s)	88, 562
BstDEI	CTNAG	3 cut(s)	244, 423, 628
BstF5I	GGATG	1 cut(s)	547
BstHHI	GCGC	1 cut(s)	265
BstKTI	GATC	4 cut(s)	14, 120, 136, 207
BstMAI	GTCTC	2 cut(s)	231, 391
BstMBI	GATC	4 cut(s)	11, 117, 133, 204
BstSFI	CTRYAG	2 cut(s)	340, 386
BstV1I	GCAGC	3 cut(s)	400, 619, 695
BstX2I	RGATCY	1 cut(s)	11
BstYI	RGATCY	1 cut(s)	11
BsuRI	GGCC	2 cut(s)	5, 86
BtgZI	GCGATG	1 cut(s)	464
BtsCI	GGATG	1 cut(s)	547
Cac8I	GCNNGC	2 cut(s)	88, 562
CaiI	CAGNNNCTG	1 cut(s)	251
CciI	TCATGA	2 cut(s)	120, 676
CfoI	GCGC	1 cut(s)	265
Cfr13I	GGNCC	1 cut(s)	85
Csp6I	GTAC	2 cut(s)	59, 438
CviAII	CATG	5 cut(s)	17, 121, 511, 677, 738
CviJI	RGCY	6 cut(s)	5, 86, 155, 331, 560, 632
CviKI_1	RGCY	6 cut(s)	5, 86, 155, 331, 560, 632
CviQI	GTAC	2 cut(s)	59, 438
DdeI	CTNAG	3 cut(s)	244, 423, 628
DpnI	GATC	4 cut(s)	13, 119, 135, 206
DpnII	GATC	4 cut(s)	11, 117, 133, 204
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	1 cut(s)	222
EarI	CTCTTC	1 cut(s)	222
Eco57I	CTGAAG	1 cut(s)	246
FaeI	CATG	5 cut(s)	20, 124, 514, 680, 741
FaqI	GGGAC	1 cut(s)	5
FatI	CATG	5 cut(s)	16, 120, 510, 676, 737
FauI	CCCGC	2 cut(s)	95, 405
Fnu4HI	GCNGC	6 cut(s)	52, 307, 310, 389, 633, 709
FokI	GGATG	1 cut(s)	554
Fsp4HI	GCNGC	6 cut(s)	52, 307, 310, 389, 633, 709
FspBI	CTAG	2 cut(s)	291, 492
GlaI	GCGC	1 cut(s)	264
GluI	GCNGC	6 cut(s)	52, 307, 310, 389, 633, 709
HaeIII	GGCC	2 cut(s)	5, 86
HapII	CCGG	1 cut(s)	137
HhaI	GCGC	1 cut(s)	265
Hin1II	CATG	5 cut(s)	20, 124, 514, 680, 741
Hin6I	GCGC	1 cut(s)	263
HinP1I	GCGC	1 cut(s)	263
HindIII	AAGCTT	1 cut(s)	153
HinfI	GANTC	9 cut(s)	124, 232, 239, 248, 254, 298, 323, 443, 514
HpaII	CCGG	1 cut(s)	137
HphI	GGTGA	3 cut(s)	151, 211, 293
Hpy188I	TCNGA	5 cut(s)	247, 253, 328, 424, 619
Hpy188III	TCNNGA	7 cut(s)	22, 121, 137, 149, 236, 645, 677
Hpy99I	CGWCG	1 cut(s)	173
HpyAV	CCTTC	2 cut(s)	185, 726
HpyCH4III	ACNGT	2 cut(s)	270, 408
HpyCH4V	TGCA	1 cut(s)	388
HpyF3I	CTNAG	3 cut(s)	244, 423, 628
Hsp92II	CATG	5 cut(s)	20, 124, 514, 680, 741
HspAI	GCGC	1 cut(s)	263
Kpn2I	TCCGGA	1 cut(s)	136
Kzo9I	GATC	4 cut(s)	11, 117, 133, 204
LmnI	GCTCC	1 cut(s)	328
LpnPI	CCDG	6 cut(s)	150, 162, 298, 447, 546, 630
Lsp1109I	GCAGC	3 cut(s)	400, 619, 695
MaeI	CTAG	2 cut(s)	291, 492
MaeIII	GTNAC	2 cut(s)	299, 317
MalI	GATC	4 cut(s)	13, 119, 135, 206
MboI	GATC	4 cut(s)	11, 117, 133, 204
MboII	GAAGA	7 cut(s)	127, 214, 239, 441, 578, 619, 712
MflI	RGATCY	1 cut(s)	11
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	5 cut(s)	26, 98, 370, 527, 581
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	3 cut(s)	233, 241, 307
MnlI	CCTC	3 cut(s)	133, 253, 722
Mox20I	TGGCCA	1 cut(s)	5
MroI	TCCGGA	1 cut(s)	136
MroXI	GAANNNNTTC	1 cut(s)	463
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	663
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	632
MspI	CCGG	1 cut(s)	137
NdeII	GATC	4 cut(s)	11, 117, 133, 204
NlaIII	CATG	5 cut(s)	20, 124, 514, 680, 741
NmuCI	GTSAC	2 cut(s)	299, 317
PagI	TCATGA	2 cut(s)	120, 676
PdmI	GAANNNNTTC	1 cut(s)	463
PfeI	GAWTC	6 cut(s)	124, 248, 254, 323, 443, 514
PflMI	CCANNNNNTGG	2 cut(s)	530, 560
PkrI	GCNGC	6 cut(s)	53, 308, 311, 390, 634, 710
PleI	GAGTC	3 cut(s)	233, 240, 306
PpsI	GAGTC	3 cut(s)	233, 240, 306
PspPI	GGNCC	1 cut(s)	85
PstI	CTGCAG	1 cut(s)	390
PstNI	CAGNNNCTG	1 cut(s)	251
PsuI	RGATCY	1 cut(s)	11
PvuII	CAGCTG	1 cut(s)	632
RsaI	GTAC	2 cut(s)	60, 439
RsaNI	GTAC	2 cut(s)	59, 438
SaqAI	TTAA	1 cut(s)	663
SatI	GCNGC	6 cut(s)	52, 307, 310, 389, 633, 709
Sau3AI	GATC	4 cut(s)	11, 117, 133, 204
Sau96I	GGNCC	1 cut(s)	85
SchI	GAGTC	3 cut(s)	233, 241, 307
SetI	ASST	4 cut(s)	157, 333, 562, 634
SfcI	CTRYAG	2 cut(s)	340, 386
Sse9I	AATT	5 cut(s)	26, 98, 370, 527, 581
SsiI	CCGC	8 cut(s)	51, 69, 88, 197, 304, 307, 310, 412
SspMI	CTAG	2 cut(s)	291, 492
TaaI	ACNGT	2 cut(s)	270, 408
TaqI	TCGA	4 cut(s)	168, 235, 360, 698
TasI	AATT	5 cut(s)	26, 98, 370, 527, 581
TauI	GCSGC	3 cut(s)	54, 309, 312
TfiI	GAWTC	6 cut(s)	124, 248, 254, 323, 443, 514
Tru1I	TTAA	1 cut(s)	663
Tru9I	TTAA	1 cut(s)	663
TseFI	GTSAC	2 cut(s)	299, 317
TseI	GCWGC	3 cut(s)	388, 632, 708
Tsp45I	GTSAC	2 cut(s)	299, 317
TspDTI	ATGAA	6 cut(s)	137, 363, 435, 615, 693, 704
TspGWI	ACGGA	2 cut(s)	409, 455
Van91I	CCANNNNNTGG	2 cut(s)	530, 560
XapI	RAATTY	3 cut(s)	26, 527, 581
XmnI	GAANNNNTTC	1 cut(s)	463
XspI	CTAG	2 cut(s)	291, 492

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