Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0014682

Physical Location & Seq

Genomic Coordinates Reverse (-)

1244141 .. 1245968

Gene Structure 1828 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG017200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGGCCAAAAGATCTCATGTCCCGAAATTCGGCGATTGGAACAACAAGGGCGGCAATGTACCATACACCGCCGTTTTTGACAAGGCCCGCAAAGGTAAATTGAAAGATGGAGTGAAAATCATGAACCCAAATGATCCGGAGGAAAATCCAGAAGTTTTCACCACCATCGACGAGAAAGAGAAAGTGAAAGAAGGGGTGGTGAAGATCAAACTCCCTATCGTTGCTGAAGAGAATCGAGACTCCTCGGAATCTGAATCCATTGCGCCACGGACGTTGTCACATATTAGTCGTGCTAGTTTGAGTCACCGCCGCCGCAGGAGTGACGAATCGGAGCTATCTGTCTGTAGTGAAAAGATGAGTTTCGAGTGTAATAATTCATCACTTATACTGCAGCAACGGAGACAACAACGGTTGCGGGAGAAATCTGAGAAAAAGAAAAGTACGGATTCATCTTCAAAAAGAACTGGTTCAACTGAACATCATCGCAAACATTCTAGTATTACTGATATTGACATGATTCCAATACCAAAATTTGGGGATTGGGATGAGAGCGACCCAAACGCTGGCGAAGATTATACATACAAATTCAACAAAGTGAAAGATGAAAAGAAGAATATATCTGAAATGTTCTCAGCTGCTTTGTCTTCAGAACCAAACAATGGTGTTAATACCAAAAATCATGAAAAATCTTTTTCCATATCAAAGATTTGCTGCTTTCATCTATTTCCAAGAGGAAGGGCATGA

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

247

Amino Acids

28.13

Weight (kDa)

9.21

Isoelectric Point (pI)

59.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AvrRpt-cleavage	PF05627	3 - 33	5.5e-10	Cleavage site for pathogenic type III effector avirulence factor Avr
AvrRpt-cleavage	PF05627	174 - 204	1.5e-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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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	3 cut(s)	533, 563, 659
AccIII	TCCGGA	1 cut(s)	136
AciI	CCGC	7 cut(s)	51, 69, 88, 307, 310, 313, 415
AclWI	GGATC	1 cut(s)	128
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	3 cut(s)	26, 530, 584
AcuI	CTGAAG	2 cut(s)	246, 630
AfaI	GTAC	2 cut(s)	60, 442
AfiI	CCNNNNNNNGG	4 cut(s)	29, 533, 563, 659
AgsI	TTSAA	4 cut(s)	103, 456, 471, 589
AluBI	AGCT	2 cut(s)	334, 635
AluI	AGCT	2 cut(s)	334, 635
Alw26I	GTCTC	2 cut(s)	231, 394
AlwI	GGATC	1 cut(s)	128
Aor13HI	TCCGGA	1 cut(s)	136
AoxI	GGCC	2 cut(s)	3, 84
ApeKI	GCWGC	3 cut(s)	391, 635, 711
ApoI	RAATTY	3 cut(s)	26, 530, 584
Asp700I	GAANNNNTTC	1 cut(s)	466
AspLEI	GCGC	1 cut(s)	265
AspS9I	GGNCC	1 cut(s)	85
AsuHPI	GGTGA	3 cut(s)	151, 211, 296
BalI	TGGCCA	1 cut(s)	5
BbsI	GAAGAC	1 cut(s)	636
BbvI	GCAGC	3 cut(s)	403, 622, 698
BccI	CCATC	2 cut(s)	101, 173
BceAI	ACGGC	1 cut(s)	56
BcoDI	GTCTC	2 cut(s)	231, 394
BfaI	CTAG	2 cut(s)	294, 495
BfmI	CTRYAG	2 cut(s)	343, 389
BglII	AGATCT	1 cut(s)	11
BisI	GCNGC	6 cut(s)	52, 310, 313, 392, 636, 712
BlsI	GCNGC	6 cut(s)	53, 311, 314, 393, 637, 713
BmgT120I	GGNCC	1 cut(s)	85
BpiI	GAAGAC	1 cut(s)	636
BsaJI	CCNNGG	2 cut(s)	243, 266
BsaWI	WCCGGW	1 cut(s)	136
Bsc4I	CCNNNNNNNGG	4 cut(s)	29, 533, 563, 659
Bse1I	ACTGG	1 cut(s)	469
Bse3DI	GCAATG	2 cut(s)	61, 258
BseAI	TCCGGA	1 cut(s)	136
BseDI	CCNNGG	2 cut(s)	243, 266
BseGI	GGATG	1 cut(s)	550
BseLI	CCNNNNNNNGG	4 cut(s)	29, 533, 563, 659
BseMI	GCAATG	2 cut(s)	61, 258
BseMII	CTCAG	2 cut(s)	417, 645
BseNI	ACTGG	1 cut(s)	469
BseRI	GAGGAG	1 cut(s)	232
BseXI	GCAGC	3 cut(s)	403, 622, 698
BshFI	GGCC	2 cut(s)	5, 86
BsiSI	CCGG	1 cut(s)	137
BslFI	GGGAC	1 cut(s)	5
BslI	CCNNNNNNNGG	4 cut(s)	29, 533, 563, 659
BsmAI	GTCTC	2 cut(s)	231, 394
BsmFI	GGGAC	1 cut(s)	5
BsnI	GGCC	2 cut(s)	5, 86
Bsp13I	TCCGGA	1 cut(s)	136
Bsp143I	GATC	3 cut(s)	11, 133, 204
BspACI	CCGC	7 cut(s)	51, 69, 88, 307, 310, 313, 415
BspANI	GGCC	2 cut(s)	5, 86
BspCNI	CTCAG	2 cut(s)	418, 644
BspEI	TCCGGA	1 cut(s)	136
BspHI	TCATGA	2 cut(s)	120, 679
BspMAI	CTGCAG	1 cut(s)	393
BspPI	GGATC	1 cut(s)	128
BsrDI	GCAATG	2 cut(s)	61, 258
BsrI	ACTGG	1 cut(s)	469
BssECI	CCNNGG	2 cut(s)	243, 266
BssMI	GATC	3 cut(s)	11, 133, 204
Bst4CI	ACNGT	1 cut(s)	411
Bst6I	CTCTTC	1 cut(s)	222
BstC8I	GCNNGC	2 cut(s)	88, 565
BstDEI	CTNAG	2 cut(s)	426, 631
BstDSI	CCRYGG	1 cut(s)	266
BstF5I	GGATG	1 cut(s)	550
BstHHI	GCGC	1 cut(s)	265
BstKTI	GATC	3 cut(s)	14, 136, 207
BstMAI	GTCTC	2 cut(s)	231, 394
BstMBI	GATC	3 cut(s)	11, 133, 204
BstSFI	CTRYAG	2 cut(s)	343, 389
BstV1I	GCAGC	3 cut(s)	403, 622, 698
BstV2I	GAAGAC	1 cut(s)	636
BstX2I	RGATCY	1 cut(s)	11
BstYI	RGATCY	1 cut(s)	11
BsuRI	GGCC	2 cut(s)	5, 86
BtgI	CCRYGG	1 cut(s)	266
BtgZI	GCGATG	1 cut(s)	467
BtsCI	GGATG	1 cut(s)	550
Cac8I	GCNNGC	2 cut(s)	88, 565
CciI	TCATGA	2 cut(s)	120, 679
CfoI	GCGC	1 cut(s)	265
Cfr13I	GGNCC	1 cut(s)	85
Csp6I	GTAC	2 cut(s)	59, 441
CspCI	CAANNNNNGTGG	2 cut(s)	255, 290
CviAII	CATG	5 cut(s)	17, 121, 514, 680, 741
CviJI	RGCY	4 cut(s)	5, 86, 334, 635
CviKI_1	RGCY	4 cut(s)	5, 86, 334, 635
CviQI	GTAC	2 cut(s)	59, 441
DdeI	CTNAG	2 cut(s)	426, 631
DpnI	GATC	3 cut(s)	13, 135, 206
DpnII	GATC	3 cut(s)	11, 133, 204
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	1 cut(s)	222
EarI	CTCTTC	1 cut(s)	222
Eco57I	CTGAAG	2 cut(s)	246, 630
FaeI	CATG	5 cut(s)	20, 124, 517, 683, 744
FaqI	GGGAC	1 cut(s)	5
FatI	CATG	5 cut(s)	16, 120, 513, 679, 740
FauI	CCCGC	2 cut(s)	95, 408
Fnu4HI	GCNGC	6 cut(s)	52, 310, 313, 392, 636, 712
FokI	GGATG	1 cut(s)	557
Fsp4HI	GCNGC	6 cut(s)	52, 310, 313, 392, 636, 712
FspBI	CTAG	2 cut(s)	294, 495
GlaI	GCGC	1 cut(s)	264
GluI	GCNGC	6 cut(s)	52, 310, 313, 392, 636, 712
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, 517, 683, 744
Hin6I	GCGC	1 cut(s)	263
HinP1I	GCGC	1 cut(s)	263
HinfI	GANTC	8 cut(s)	232, 239, 248, 254, 301, 326, 446, 517
HpaII	CCGG	1 cut(s)	137
HphI	GGTGA	3 cut(s)	151, 211, 296
Hpy188I	TCNGA	6 cut(s)	247, 253, 331, 427, 622, 649
Hpy188III	TCNNGA	6 cut(s)	22, 121, 137, 149, 236, 680
Hpy99I	CGWCG	1 cut(s)	173
HpyAV	CCTTC	2 cut(s)	185, 729
HpyCH4III	ACNGT	1 cut(s)	411
HpyCH4IV	ACGT	1 cut(s)	272
HpyCH4V	TGCA	1 cut(s)	391
HpyF3I	CTNAG	2 cut(s)	426, 631
HpySE526I	ACGT	1 cut(s)	272
Hsp92II	CATG	5 cut(s)	20, 124, 517, 683, 744
HspAI	GCGC	1 cut(s)	263
Kpn2I	TCCGGA	1 cut(s)	136
Kzo9I	GATC	3 cut(s)	11, 133, 204
LmnI	GCTCC	1 cut(s)	331
LpnPI	CCDG	5 cut(s)	150, 162, 301, 450, 549
Lsp1109I	GCAGC	3 cut(s)	403, 622, 698
MaeI	CTAG	2 cut(s)	294, 495
MaeII	ACGT	1 cut(s)	272
MaeIII	GTNAC	3 cut(s)	276, 302, 320
MalI	GATC	3 cut(s)	13, 135, 206
MboI	GATC	3 cut(s)	11, 133, 204
MboII	GAAGA	6 cut(s)	214, 239, 444, 581, 622, 636
MflI	RGATCY	1 cut(s)	11
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	5 cut(s)	26, 98, 373, 530, 584
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	233, 310
MnlI	CCTC	3 cut(s)	133, 253, 725
Mox20I	TGGCCA	1 cut(s)	5
MroI	TCCGGA	1 cut(s)	136
MroXI	GAANNNNTTC	1 cut(s)	466
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	666
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	635
MspI	CCGG	1 cut(s)	137
NdeII	GATC	3 cut(s)	11, 133, 204
NlaIII	CATG	5 cut(s)	20, 124, 517, 683, 744
NmuCI	GTSAC	3 cut(s)	276, 302, 320
PagI	TCATGA	2 cut(s)	120, 679
PdmI	GAANNNNTTC	1 cut(s)	466
PfeI	GAWTC	6 cut(s)	232, 248, 254, 326, 446, 517
PflFI	GACNNNGTC	1 cut(s)	274
PflMI	CCANNNNNTGG	3 cut(s)	533, 563, 659
PkrI	GCNGC	6 cut(s)	53, 311, 314, 393, 637, 713
PleI	GAGTC	2 cut(s)	233, 309
PpsI	GAGTC	2 cut(s)	233, 309
PspPI	GGNCC	1 cut(s)	85
PstI	CTGCAG	1 cut(s)	393
PsuI	RGATCY	1 cut(s)	11
PsyI	GACNNNGTC	1 cut(s)	274
PvuII	CAGCTG	1 cut(s)	635
RsaI	GTAC	2 cut(s)	60, 442
RsaNI	GTAC	2 cut(s)	59, 441
SaqAI	TTAA	1 cut(s)	666
SatI	GCNGC	6 cut(s)	52, 310, 313, 392, 636, 712
Sau3AI	GATC	3 cut(s)	11, 133, 204
Sau96I	GGNCC	1 cut(s)	85
SchI	GAGTC	2 cut(s)	233, 310
SetI	ASST	4 cut(s)	97, 275, 336, 637
SfcI	CTRYAG	2 cut(s)	343, 389
Sse9I	AATT	5 cut(s)	26, 98, 373, 530, 584
SsiI	CCGC	7 cut(s)	51, 69, 88, 307, 310, 313, 415
SspMI	CTAG	2 cut(s)	294, 495
TaaI	ACNGT	1 cut(s)	411
TaiI	ACGT	1 cut(s)	275
TaqI	TCGA	3 cut(s)	168, 235, 363
TasI	AATT	5 cut(s)	26, 98, 373, 530, 584
TauI	GCSGC	3 cut(s)	54, 312, 315
TfiI	GAWTC	6 cut(s)	232, 248, 254, 326, 446, 517
Tru1I	TTAA	1 cut(s)	666
Tru9I	TTAA	1 cut(s)	666
TseFI	GTSAC	3 cut(s)	276, 302, 320
TseI	GCWGC	3 cut(s)	391, 635, 711
Tsp45I	GTSAC	3 cut(s)	276, 302, 320
TspDTI	ATGAA	6 cut(s)	137, 366, 438, 618, 696, 707
TspGWI	ACGGA	3 cut(s)	283, 412, 458
Tth111I	GACNNNGTC	1 cut(s)	274
Van91I	CCANNNNNTGG	3 cut(s)	533, 563, 659
XapI	RAATTY	3 cut(s)	26, 530, 584
XmnI	GAANNNNTTC	1 cut(s)	466
XspI	CTAG	2 cut(s)	294, 495

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