Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0002999

Physical Location & Seq

Genomic Coordinates Forward (+)

28693884 .. 28694789

Gene Structure 906 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG268500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGGTGGAGCCTTTAGCAGCTCTCAAGCTCGAAATGCTCAAAGGCCCCCGTGAGGGAGAAACCCTAGAGTACCGACCCAGATCCAAGGTCCGAATCGGCCGGGTCGTCCGCGGCAACAACCTCGCCGTCAAAGACTCCGGCATTTCCACCAACCACCTCATCATCCACTCCGACTCCGAATCGGGTCAATGGATGATCCGAGACCTCGACTCCTCCAACGGAACCGTCTTAAACGACACCAAGCTCAAGCCGGACACGCCGCTGGAGCTGAACGACGGCGACGAGATCAAGATCGGGGAGTACACGTCGATCTCCGTCCACAGGTTGAGAAGGAATCCGAGGCGCGGCGCGGTTGTGGAGAATTCTGAATTGGAGAGAGAGGGAGAGGAAATTGAGGTGGTAGAGAAGCCGAAGAGGGGCCGGGGCCGCCCGAGGGGGGTTTTGAAGAGTGAGGATTTGGTGGAGGAAGTGGCTGTGGTTCCGGATTCGGAGACTTGCAGTGAACAAGTGAAGATTGAACCTAAGAGGCGTGGTGGAGGGAGGAAGAGGAAGAATGTGCAACAAGTGCTGCTCATGTGTGAGGAAGATAATGTTGTTGTGGGAGAGAGTGGCAATGATAGTGAGAAGGCAAAAGGGTCCAATTCGGGCCATGAAGAGGCAGCCACTGACTGTAATGTTGGAGTGGGTGGCGATGAGGTTGAAAGTGGTAGTAGGAGCTGTTTTGGTGTTAGTGGTGCTAAGAATGTTGATAAAAAGGGGAATGGTTCTGGTGTTAAACAAGGTTGTTTGGGAAAGATTTGGCAGGAGCCAGATTTGGAGAAGATGACTTTGGATGATTGGTTTTATTATGTGCAAGTTTCTTTGCCGATAGGGGTTAATGGGACCATATGGACTAGTGTCCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

FHA

Protein Analysis

301

Amino Acids

33.0

Weight (kDa)

5.43

Isoelectric Point (pI)

38.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Yop-YscD_cpl	PF16697	11 - 100	1.2e-08	Inner membrane component of T3SS, cytoplasmic domain
FHA	PF00498	30 - 99	2.5e-17	FHA domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002999)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G14490
fragaria_vesca	FvH4_4g02980 FvH4_4g02980 FvH4_4g02980 FvH4_4g02980
malus_domestica	MD13G1205500.v1.1 MD16G1211500.v1.1
prunus_persica	Prupe.1G033600_v2.0.a1
pyrus_communis	pycom13g17820 pycom16g17730
rosa_chinensis	RchiOBHm_Chr4g0391131 RchiOBHm_Chr7g0211851 RchiOBHm_Chr7g0224291
rosa_laevigata	RLG00000009886
rosa_multiflora	Rmu_co8378449.1_g000001 Rmu_sc0001824.1_g000046 Rmu_sc0008872.1_g000006 Rmu_sc0009005.1_g000005 Rmu_sc0009448.1_g000001 Rmu_sc0028516.1_g000002 Rmu_sc0030074.1_g000001 Rmu_sc0032072.1_g000001
rosa_roxburghii	Rroxscaffold_3G00247360 Rroxscaffold_5G00336920
rosa_rugosa	Rorug03G0334400
rosa_samantha	Rh4AG034800 Rh4BG030000 Rh4CG038600 Rh4DG032000 Rh4DG032700 Rh7AG262000 Rh7AG381100 Rh7BG255700 Rh7CG400500 Rh7DG268500 Rh7DG367500
rosa_wichuraiana	Rw4G002710 Rw7G031100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	3 cut(s)	111, 345, 350
AccIII	TCCGGA	1 cut(s)	481
AciI	CCGC	6 cut(s)	109, 111, 260, 345, 350, 427
AclWI	GGATC	2 cut(s)	75, 190
AcoI	YGGCCR	1 cut(s)	97
AcsI	RAATTY	1 cut(s)	361
AfaI	GTAC	2 cut(s)	71, 302
AfiI	CCNNNNNNNGG	8 cut(s)	52, 53, 321, 344, 416, 433, 436, 655
AflIII	ACRYGT	1 cut(s)	303
AgsI	TTSAA	3 cut(s)	445, 518, 701
AhlI	ACTAGT	1 cut(s)	893
AjiI	CACGTC	1 cut(s)	306
AjuI	GAANNNNNNNTTGG	4 cut(s)	353, 385, 812, 844
AluBI	AGCT	5 cut(s)	20, 28, 244, 268, 717
AluI	AGCT	5 cut(s)	20, 28, 244, 268, 717
Alw26I	GTCTC	2 cut(s)	195, 485
AlwI	GGATC	2 cut(s)	75, 190
AlwNI	CAGNNNCTG	1 cut(s)	665
Ama87I	CYCGRG	1 cut(s)	430
Aor13HI	TCCGGA	1 cut(s)	481
AoxI	GGCC	5 cut(s)	43, 97, 418, 424, 646
ApeKI	GCWGC	3 cut(s)	17, 568, 659
ApoI	RAATTY	1 cut(s)	361
AspLEI	GCGC	2 cut(s)	345, 350
AspS9I	GGNCC	7 cut(s)	44, 88, 418, 424, 636, 646, 882
AsuC2I	CCSGG	2 cut(s)	101, 422
AvaI	CYCGRG	1 cut(s)	430
AvaII	GGWCC	3 cut(s)	88, 636, 882
BbvI	GCAGC	3 cut(s)	29, 555, 671
BceAI	ACGGC	2 cut(s)	110, 292
BcgI	CGANNNNNNTGC	2 cut(s)	103, 137
BcnI	CCSGG	2 cut(s)	101, 422
BcoDI	GTCTC	2 cut(s)	195, 485
BcuI	ACTAGT	1 cut(s)	893
BfaI	CTAG	2 cut(s)	65, 894
BisI	GCNGC	7 cut(s)	18, 112, 260, 346, 427, 569, 660
BlsI	GCNGC	7 cut(s)	19, 113, 261, 347, 428, 570, 661
Bme1390I	CCNGG	2 cut(s)	101, 422
Bme18I	GGWCC	3 cut(s)	88, 636, 882
BmeT110I	CYCGRG	1 cut(s)	430
BmgBI	CACGTC	1 cut(s)	306
BmgT120I	GGNCC	7 cut(s)	44, 88, 418, 424, 636, 646, 882
BmiI	GGNNCC	9 cut(s)	9, 46, 223, 419, 425, 480, 637, 807, 883
BmrFI	CCNGG	2 cut(s)	101, 422
BoxI	GACNNNNGTC	1 cut(s)	896
BpmI	CTGGAG	1 cut(s)	284
BpuEI	CTTGAG	2 cut(s)	8, 230
BpuMI	CCSGG	2 cut(s)	101, 422
BsaBI	GATNNNNATC	1 cut(s)	290
BsaI	GGTCTC	1 cut(s)	195
BsaJI	CCNNGG	5 cut(s)	84, 109, 338, 421, 431
BsaWI	WCCGGW	1 cut(s)	481
BsaXI	ACNNNNNCTCC	6 cut(s)	158, 188, 194, 224, 290, 320
Bsc4I	CCNNNNNNNGG	8 cut(s)	52, 53, 321, 344, 416, 433, 436, 655
Bse3DI	GCAATG	1 cut(s)	619
Bse8I	GATNNNNATC	1 cut(s)	290
BseAI	TCCGGA	1 cut(s)	481
BseDI	CCNNGG	5 cut(s)	84, 109, 338, 421, 431
BseGI	GGATG	3 cut(s)	162, 198, 838
BseJI	GATNNNNATC	1 cut(s)	290
BseLI	CCNNNNNNNGG	8 cut(s)	52, 53, 321, 344, 416, 433, 436, 655
BseMI	GCAATG	1 cut(s)	619
BseRI	GAGGAG	1 cut(s)	202
BseX3I	CGGCCG	1 cut(s)	97
BseXI	GCAGC	3 cut(s)	29, 555, 671
Bsh1236I	CGCG	3 cut(s)	111, 345, 350
Bsh1285I	CGRYCG	1 cut(s)	100
BshFI	GGCC	5 cut(s)	45, 99, 420, 426, 648
BsiEI	CGRYCG	1 cut(s)	100
BsiHKCI	CYCGRG	1 cut(s)	430
BsiSI	CCGG	5 cut(s)	100, 138, 251, 421, 482
BslFI	GGGAC	2 cut(s)	884, 895
BslI	CCNNNNNNNGG	8 cut(s)	52, 53, 321, 344, 416, 433, 436, 655
BsmAI	GTCTC	2 cut(s)	195, 485
BsmFI	GGGAC	2 cut(s)	884, 895
BsnI	GGCC	5 cut(s)	45, 99, 420, 426, 648
Bso31I	GGTCTC	1 cut(s)	195
BsoBI	CYCGRG	1 cut(s)	430
Bsp13I	TCCGGA	1 cut(s)	481
Bsp143I	GATC	5 cut(s)	80, 195, 285, 291, 309
BspACI	CCGC	6 cut(s)	109, 111, 260, 345, 350, 427
BspANI	GGCC	5 cut(s)	45, 99, 420, 426, 648
BspEI	TCCGGA	1 cut(s)	481
BspFNI	CGCG	3 cut(s)	111, 345, 350
BspLI	GGNNCC	9 cut(s)	9, 46, 223, 419, 425, 480, 637, 807, 883
BspPI	GGATC	2 cut(s)	75, 190
BspTNI	GGTCTC	1 cut(s)	195
BsrDI	GCAATG	1 cut(s)	619
BssECI	CCNNGG	5 cut(s)	84, 109, 338, 421, 431
BssMI	GATC	5 cut(s)	80, 195, 285, 291, 309
BssT1I	CCWWGG	1 cut(s)	84
Bst4CI	ACNGT	2 cut(s)	226, 671
Bst6I	CTCTTC	4 cut(s)	407, 440, 539, 648
BstAPI	GCANNNNNTGC	1 cut(s)	565
BstDEI	CTNAG	2 cut(s)	522, 738
BstDSI	CCRYGG	1 cut(s)	109
BstF5I	GGATG	3 cut(s)	162, 198, 838
BstFNI	CGCG	3 cut(s)	111, 345, 350
BstHHI	GCGC	2 cut(s)	345, 350
BstKTI	GATC	5 cut(s)	83, 198, 288, 294, 312
BstMAI	GTCTC	2 cut(s)	195, 485
BstMBI	GATC	5 cut(s)	80, 195, 285, 291, 309
BstMCI	CGRYCG	1 cut(s)	100
BstMWI	GCNNNNNNNGC	5 cut(s)	34, 256, 265, 426, 565
BstPAI	GACNNNNGTC	1 cut(s)	896
BstSCI	CCNGG	2 cut(s)	99, 420
BstUI	CGCG	3 cut(s)	111, 345, 350
BstV1I	GCAGC	3 cut(s)	29, 555, 671
BstX2I	RGATCY	1 cut(s)	80
BstYI	RGATCY	1 cut(s)	80
BstZI	CGGCCG	1 cut(s)	97
BsuRI	GGCC	5 cut(s)	45, 99, 420, 426, 648
BtgI	CCRYGG	1 cut(s)	109
BtgZI	GCGATG	1 cut(s)	705
BtrI	CACGTC	1 cut(s)	306
BtsCI	GGATG	3 cut(s)	162, 198, 838
BtsI	GCAGTG	1 cut(s)	505
BtsIMutI	CAGTG	2 cut(s)	505, 663
CaiI	CAGNNNCTG	1 cut(s)	665
CfoI	GCGC	2 cut(s)	345, 350
Cfr13I	GGNCC	7 cut(s)	44, 88, 418, 424, 636, 646, 882
Cfr42I	CCGCGG	1 cut(s)	112
Csp6I	GTAC	2 cut(s)	70, 301
CviAII	CATG	3 cut(s)	574, 650, 903
CviQI	GTAC	2 cut(s)	70, 301
DdeI	CTNAG	2 cut(s)	522, 738
DpnI	GATC	5 cut(s)	82, 197, 287, 293, 311
DpnII	GATC	5 cut(s)	80, 195, 285, 291, 309
EaeI	YGGCCR	1 cut(s)	97
EagI	CGGCCG	1 cut(s)	97
Eam1104I	CTCTTC	4 cut(s)	407, 440, 539, 648
EarI	CTCTTC	4 cut(s)	407, 440, 539, 648
EclXI	CGGCCG	1 cut(s)	97
Eco130I	CCWWGG	1 cut(s)	84
Eco31I	GGTCTC	1 cut(s)	195
Eco47I	GGWCC	3 cut(s)	88, 636, 882
Eco52I	CGGCCG	1 cut(s)	97
Eco88I	CYCGRG	1 cut(s)	430
EcoO109I	RGGNCCY	1 cut(s)	44
EcoRI	GAATTC	1 cut(s)	361
EcoT14I	CCWWGG	1 cut(s)	84
ErhI	CCWWGG	1 cut(s)	84
FaeI	CATG	3 cut(s)	577, 653, 906
FaiI	YATR	6 cut(s)	575, 651, 849, 887, 889, 904
FaqI	GGGAC	2 cut(s)	884, 895
FatI	CATG	3 cut(s)	573, 649, 902
FauNDI	CATATG	1 cut(s)	887
Fnu4HI	GCNGC	7 cut(s)	18, 112, 260, 346, 427, 569, 660
FokI	GGATG	3 cut(s)	149, 205, 845
Fsp4HI	GCNGC	7 cut(s)	18, 112, 260, 346, 427, 569, 660
FspBI	CTAG	2 cut(s)	65, 894
GlaI	GCGC	2 cut(s)	344, 349
GluI	GCNGC	7 cut(s)	18, 112, 260, 346, 427, 569, 660
GsuI	CTGGAG	1 cut(s)	284
HaeIII	GGCC	5 cut(s)	45, 99, 420, 426, 648
HapII	CCGG	5 cut(s)	100, 138, 251, 421, 482
HhaI	GCGC	2 cut(s)	345, 350
Hin1II	CATG	3 cut(s)	577, 653, 906
Hin6I	GCGC	2 cut(s)	343, 348
HinP1I	GCGC	2 cut(s)	343, 348
HinfI	GANTC	7 cut(s)	93, 134, 173, 179, 209, 334, 485
HpaII	CCGG	5 cut(s)	100, 138, 251, 421, 482
Hpy166II	GTNNAC	3 cut(s)	303, 319, 503
Hpy188I	TCNGA	7 cut(s)	92, 172, 178, 200, 339, 367, 490
Hpy188III	TCNNGA	2 cut(s)	289, 482
Hpy8I	GTNNAC	3 cut(s)	303, 319, 503
Hpy99I	CGWCG	3 cut(s)	278, 284, 310
HpyAV	CCTTC	2 cut(s)	324, 619
HpyCH4III	ACNGT	2 cut(s)	226, 671
HpyCH4IV	ACGT	1 cut(s)	305
HpyCH4V	TGCA	3 cut(s)	498, 559, 853
HpyF10VI	GCNNNNNNNGC	5 cut(s)	34, 256, 265, 426, 565
HpyF3I	CTNAG	2 cut(s)	522, 738
HpySE526I	ACGT	1 cut(s)	305
Hsp92II	CATG	3 cut(s)	577, 653, 906
HspAI	GCGC	2 cut(s)	343, 348
Kpn2I	TCCGGA	1 cut(s)	481
KspI	CCGCGG	1 cut(s)	112
Kzo9I	GATC	5 cut(s)	80, 195, 285, 291, 309
LmnI	GCTCC	4 cut(s)	7, 265, 714, 805
Lsp1109I	GCAGC	3 cut(s)	29, 555, 671
MaeI	CTAG	2 cut(s)	65, 894
MaeII	ACGT	1 cut(s)	305
MalI	GATC	5 cut(s)	82, 197, 287, 293, 311
MboI	GATC	5 cut(s)	80, 195, 285, 291, 309
MboII	GAAGA	8 cut(s)	424, 457, 523, 556, 562, 596, 665, 832
MflI	RGATCY	1 cut(s)	80
MluCI	AATT	4 cut(s)	361, 368, 390, 640
MlyI	GAGTC	3 cut(s)	128, 167, 203
MmeI	TCCRAC	3 cut(s)	195, 240, 658
MroI	TCCGGA	1 cut(s)	481
MseI	TTAA	3 cut(s)	230, 774, 876
MspA1I	CMGCKG	2 cut(s)	111, 262
MspI	CCGG	5 cut(s)	100, 138, 251, 421, 482
MspR9I	CCNGG	2 cut(s)	101, 422
MteI	GCGCNGCGC	1 cut(s)	346
MvnI	CGCG	3 cut(s)	111, 345, 350
MwoI	GCNNNNNNNGC	5 cut(s)	34, 256, 265, 426, 565
NciI	CCSGG	2 cut(s)	101, 422
NdeI	CATATG	1 cut(s)	887
NdeII	GATC	5 cut(s)	80, 195, 285, 291, 309
NlaIII	CATG	3 cut(s)	577, 653, 906
NlaIV	GGNNCC	9 cut(s)	9, 46, 223, 419, 425, 480, 637, 807, 883
PcsI	WCGNNNNNNNCGW	2 cut(s)	102, 279
PfeI	GAWTC	4 cut(s)	93, 179, 334, 485
PkrI	GCNGC	7 cut(s)	19, 113, 261, 347, 428, 570, 661
PleI	GAGTC	3 cut(s)	128, 167, 203
PpsI	GAGTC	3 cut(s)	128, 167, 203
PshAI	GACNNNNGTC	1 cut(s)	896
PspN4I	GGNNCC	9 cut(s)	9, 46, 223, 419, 425, 480, 637, 807, 883
PspPI	GGNCC	7 cut(s)	44, 88, 418, 424, 636, 646, 882
PstNI	CAGNNNCTG	1 cut(s)	665
PsuI	RGATCY	1 cut(s)	80
RsaI	GTAC	2 cut(s)	71, 302
RsaNI	GTAC	2 cut(s)	70, 301
SacII	CCGCGG	1 cut(s)	112
SaqAI	TTAA	3 cut(s)	230, 774, 876
SatI	GCNGC	7 cut(s)	18, 112, 260, 346, 427, 569, 660
Sau3AI	GATC	5 cut(s)	80, 195, 285, 291, 309
Sau96I	GGNCC	7 cut(s)	44, 88, 418, 424, 636, 646, 882
SchI	GAGTC	3 cut(s)	128, 167, 203
ScrFI	CCNGG	2 cut(s)	101, 422
Sfr303I	CCGCGG	1 cut(s)	112
SgrBI	CCGCGG	1 cut(s)	112
SinI	GGWCC	3 cut(s)	88, 636, 882
SmlI	CTYRAG	2 cut(s)	23, 245
SmoI	CTYRAG	2 cut(s)	23, 245
SpeI	ACTAGT	1 cut(s)	893
Sse9I	AATT	4 cut(s)	361, 368, 390, 640
SsiI	CCGC	6 cut(s)	109, 111, 260, 345, 350, 427
SspMI	CTAG	2 cut(s)	65, 894
StyD4I	CCNGG	2 cut(s)	99, 420
StyI	CCWWGG	1 cut(s)	84
TaaI	ACNGT	2 cut(s)	226, 671
TaiI	ACGT	1 cut(s)	308
TaqI	TCGA	3 cut(s)	30, 207, 308
TasI	AATT	4 cut(s)	361, 368, 390, 640
TatI	WGTACW	1 cut(s)	300
TauI	GCSGC	4 cut(s)	114, 262, 348, 429
TfiI	GAWTC	4 cut(s)	93, 179, 334, 485
Tru1I	TTAA	3 cut(s)	230, 774, 876
Tru9I	TTAA	3 cut(s)	230, 774, 876
TscAI	CASTG	2 cut(s)	505, 670
TseI	GCWGC	3 cut(s)	17, 568, 659
TspDTI	ATGAA	1 cut(s)	666
TspGWI	ACGGA	2 cut(s)	234, 304
TspRI	CASTG	2 cut(s)	505, 670
VpaK11BI	GGWCC	3 cut(s)	88, 636, 882
XapI	RAATTY	1 cut(s)	361
XspI	CTAG	2 cut(s)	65, 894

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