Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002999

Physical Location & Seq

Genomic Coordinates Forward (+)

5404084 .. 5405556

Gene Structure 1473 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG032000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1377 bp

ATGGAGCCTTTAGCTCTCAAGCTCGAGATGCTCAAAGGCCCCCGTGAGGGAGAGACCCTAGAGTACAGACCCGGATCCAAGGTCCGAATCGGCCGGGTCGTCCGCGGCAACAACCTCCCCATCAAAGACTCCGGCATTTCCACCAACCACCTCATCATCGACTCCTCCGAATCGGGTCAATGGATGATCCGAGACCTCGACTCCTCCAACGGAACCATCGTAAACGGCACCAAGCTCAAGCCGGACACGCCGTTGGAGCTGAGCGACGGCGACGAGATAAAGATCGGGGAGTACACGTCGATCTCCGTCAAGATCGACGGCCACGAAGGGAGCAGGTTGAGAAGGAATCCGAGGCGCGGCGCGGCGGGGAAGGTGGGGACGGTTGCGGAGAGTCGGGGCCAGAGAGGGAGGGTTAAGAAGGAGAGTGAGGTCGAAGTGAAATTGGAGGTGGAGATTGAGAATGATGAGGAAATTGGTGTAGCAGCACCGGTTGCTGAGAATCGGGGCCGGAGAGGTAGGGCTGCGAAGAAGAAGGAAGAGAATTCTGAATTGGAGAAAGAGGGAGAGGAAGTTGAGAAGCCAAAGAGGGGCCGGGGCCGGCCGAGGAAAGCAAGGGTTTTGAAGAGTGAGGATTTGGTGGAGGAGGTTGCTGTGCCGGAAGTGAGTTCGAGAGCAACTCAAAGGTGTAAGGATGTGGAAGCTGTGGTTCCGGATTCGGAGAATTGCAGTGTAGAGTGTGAACAACTGAAGATTGAACCTAAGAGGCGTGGTGGGGGTAGGAAGAGGAAGAATGTGCAAGAAGTGCCGCGGGTGTGTGAAGAAGGTAATGTTGCTGCGGAGAAAGATTTGGGAGAAATTGGTCCAGTTGGTGTTAATGGCGATAATGATGATAAAGGGGATGTTTCGGAGAAGAAGGATTCGGGAGGAATTGGTCCAGTTGATCTCAAGGAGAATGGCGTGGATGATGATGCTGCTAAAGGGTTGAATTTGGGGGATGAAGAGGCAGCAGCCGATTTTGATGTGGGAGAGAGTGGCAATGATAATGAGAAGGCAAAAGGGTCCAATTTGGGCCATGAAGAGGCAGCCACTGACTGTAATGTTGGAGAGAGTGGCAATAAGGTTGAAAGTGGTAGTAGAAGCTGTTTCGGTGTGGATAAAAAGGGGACTGGTTCTGGTGTTAAAGAAGGTTTGGGAAAGGTTTGGCAGGAGCCAGATTTGGAGAAGATGACTTTGGATGATTGGTTTGATTATGTGGAAGTTTCTTTGCCGAAAGCGGTTAATGATGAGATTGACAAGATTTGTGCCGGAATGAGAGAGAAGGCTAAGCTAGTCCAGGAGTATATAGCACAACACAAGAAGGAGAAGGGTCAAAGTTAA

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

458

Amino Acids

49.74

Weight (kDa)

5.15

Isoelectric Point (pI)

34.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Yop-YscD_cpl	PF16697	9 - 97	1.8e-08	Inner membrane component of T3SS, cytoplasmic domain
FHA	PF00498	28 - 96	3.5e-18	FHA domain

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)

Image

Tree File

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Publication-ready

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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)
Acc36I	ACCTGC	1 cut(s)	324
AccB1I	GGYRCC	1 cut(s)	227
AccII	CGCG	4 cut(s)	105, 357, 362, 808
AccIII	TCCGGA	1 cut(s)	709
AclWI	GGATC	3 cut(s)	69, 82, 181
AcoI	YGGCCR	3 cut(s)	91, 319, 599
AcsI	RAATTY	2 cut(s)	541, 985
AcuI	CTGAAG	1 cut(s)	767
AfaI	GTAC	2 cut(s)	65, 293
AfiI	CCNNNNNNNGG	5 cut(s)	46, 47, 356, 587, 1078
AflIII	ACRYGT	1 cut(s)	294
AgeI	ACCGGT	1 cut(s)	487
AgsI	TTSAA	4 cut(s)	622, 755, 985, 1124
AjiI	CACGTC	1 cut(s)	297
AjnI	CCWGG	1 cut(s)	1332
AjuI	GAANNNNNNNTTGG	4 cut(s)	533, 565, 1214, 1246
AluBI	AGCT	7 cut(s)	14, 22, 235, 259, 701, 1140, 1327
AluI	AGCT	7 cut(s)	14, 22, 235, 259, 701, 1140, 1327
Alw26I	GTCTC	2 cut(s)	47, 186
AlwI	GGATC	3 cut(s)	69, 82, 181
AlwNI	CAGNNNCTG	1 cut(s)	1088
Ama87I	CYCGRG	1 cut(s)	23
Aor13HI	TCCGGA	1 cut(s)	709
AoxI	GGCC	9 cut(s)	37, 91, 319, 397, 505, 589, 595, 599, 1069
ApeKI	GCWGC	7 cut(s)	482, 521, 833, 971, 1004, 1007, 1082
ApoI	RAATTY	2 cut(s)	541, 985
AsiGI	ACCGGT	1 cut(s)	487
AspLEI	GCGC	2 cut(s)	357, 362
AsuC2I	CCSGG	3 cut(s)	72, 95, 593
AvaI	CYCGRG	1 cut(s)	23
AvaII	GGWCC	4 cut(s)	82, 860, 932, 1059
BamHI	GGATCC	1 cut(s)	74
BanI	GGYRCC	1 cut(s)	227
BbvI	GCAGC	7 cut(s)	494, 508, 820, 958, 1016, 1019, 1094
BccI	CCATC	2 cut(s)	128, 224
BceAI	ACGGC	4 cut(s)	235, 241, 283, 334
BciT130I	CCWGG	1 cut(s)	1334
BcnI	CCSGG	3 cut(s)	72, 95, 593
BcoDI	GTCTC	2 cut(s)	47, 186
BfaI	CTAG	2 cut(s)	59, 1328
BfuAI	ACCTGC	1 cut(s)	324
BlpI	GCTNAGC	2 cut(s)	260, 1323
Bme1390I	CCNGG	4 cut(s)	72, 95, 593, 1334
Bme18I	GGWCC	4 cut(s)	82, 860, 932, 1059
BmeT110I	CYCGRG	1 cut(s)	23
BmgBI	CACGTC	1 cut(s)	297
BmrFI	CCNGG	4 cut(s)	72, 95, 593, 1334
BmsI	GCATC	2 cut(s)	18, 958
BplI	GAGNNNNNCTC	2 cut(s)	661, 693
Bpu1102I	GCTNAGC	2 cut(s)	260, 1323
BpuEI	CTTGAG	2 cut(s)	221, 929
BpuMI	CCSGG	3 cut(s)	72, 95, 593
BsaBI	GATNNNNATC	1 cut(s)	281
BsaI	GGTCTC	2 cut(s)	47, 186
BsaJI	CCNNGG	6 cut(s)	78, 103, 350, 592, 602, 806
BsaWI	WCCGGW	2 cut(s)	487, 709
BsaXI	ACNNNNNCTCC	6 cut(s)	185, 215, 281, 311, 555, 585
Bsc4I	CCNNNNNNNGG	5 cut(s)	46, 47, 356, 587, 1078
Bse118I	RCCGGY	2 cut(s)	487, 597
Bse1I	ACTGG	3 cut(s)	863, 935, 1171
Bse3DI	GCAATG	1 cut(s)	1042
Bse8I	GATNNNNATC	1 cut(s)	281
BseAI	TCCGGA	1 cut(s)	709
BseBI	CCWGG	1 cut(s)	1334
BseDI	CCNNGG	6 cut(s)	78, 103, 350, 592, 602, 806
BseGI	GGATG	6 cut(s)	189, 697, 904, 967, 1000, 1240
BseJI	GATNNNNATC	1 cut(s)	281
BseLI	CCNNNNNNNGG	5 cut(s)	46, 47, 356, 587, 1078
BseMI	GCAATG	1 cut(s)	1042
BseMII	CTCAG	2 cut(s)	251, 486
BseNI	ACTGG	3 cut(s)	863, 935, 1171
BseRI	GAGGAG	3 cut(s)	154, 193, 656
BseX3I	CGGCCG	2 cut(s)	91, 599
BseXI	GCAGC	7 cut(s)	494, 508, 820, 958, 1016, 1019, 1094
Bsh1236I	CGCG	4 cut(s)	105, 357, 362, 808
Bsh1285I	CGRYCG	2 cut(s)	94, 602
BshFI	GGCC	9 cut(s)	39, 93, 321, 399, 507, 591, 597, 601, 1071
BshNI	GGYRCC	1 cut(s)	227
BshTI	ACCGGT	1 cut(s)	487
BsiEI	CGRYCG	2 cut(s)	94, 602
BsiHKCI	CYCGRG	1 cut(s)	23
BslFI	GGGAC	2 cut(s)	391, 1177
BslI	CCNNNNNNNGG	5 cut(s)	46, 47, 356, 587, 1078
BsmAI	GTCTC	2 cut(s)	47, 186
BsmFI	GGGAC	2 cut(s)	391, 1177
BsnI	GGCC	9 cut(s)	39, 93, 321, 399, 507, 591, 597, 601, 1071
Bso31I	GGTCTC	2 cut(s)	47, 186
BsoBI	CYCGRG	1 cut(s)	23
Bsp13I	TCCGGA	1 cut(s)	709
Bsp143I	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
Bsp1720I	GCTNAGC	2 cut(s)	260, 1323
BspANI	GGCC	9 cut(s)	39, 93, 321, 399, 507, 591, 597, 601, 1071
BspCNI	CTCAG	2 cut(s)	252, 487
BspEI	TCCGGA	1 cut(s)	709
BspFNI	CGCG	4 cut(s)	105, 357, 362, 808
BspMI	ACCTGC	1 cut(s)	324
BspPI	GGATC	3 cut(s)	69, 82, 181
BspT107I	GGYRCC	1 cut(s)	227
BspTNI	GGTCTC	2 cut(s)	47, 186
BsrDI	GCAATG	1 cut(s)	1042
BsrFI	RCCGGY	2 cut(s)	487, 597
BsrI	ACTGG	3 cut(s)	863, 935, 1171
BssAI	RCCGGY	2 cut(s)	487, 597
BssECI	CCNNGG	6 cut(s)	78, 103, 350, 592, 602, 806
BssMI	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
BssT1I	CCWWGG	1 cut(s)	78
Bst2UI	CCWGG	1 cut(s)	1334
Bst4CI	ACNGT	2 cut(s)	382, 1094
Bst6I	CTCTTC	5 cut(s)	531, 617, 776, 993, 1071
BstAPI	GCANNNNNTGC	2 cut(s)	491, 802
BstC8I	GCNNGC	1 cut(s)	599
BstDEI	CTNAG	4 cut(s)	260, 495, 759, 1323
BstDSI	CCRYGG	2 cut(s)	103, 806
BstF5I	GGATG	6 cut(s)	189, 697, 904, 967, 1000, 1240
BstFNI	CGCG	4 cut(s)	105, 357, 362, 808
BstHHI	GCGC	2 cut(s)	357, 362
BstKTI	GATC	6 cut(s)	77, 189, 285, 303, 315, 943
BstMAI	GTCTC	2 cut(s)	47, 186
BstMBI	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
BstMCI	CGRYCG	2 cut(s)	94, 602
BstMWI	GCNNNNNNNGC	5 cut(s)	28, 247, 256, 491, 802
BstNI	CCWGG	1 cut(s)	1334
BstSCI	CCNGG	4 cut(s)	70, 93, 591, 1332
BstUI	CGCG	4 cut(s)	105, 357, 362, 808
BstV1I	GCAGC	7 cut(s)	494, 508, 820, 958, 1016, 1019, 1094
BstX2I	RGATCY	1 cut(s)	74
BstYI	RGATCY	1 cut(s)	74
BstZI	CGGCCG	2 cut(s)	91, 599
BsuRI	GGCC	9 cut(s)	39, 93, 321, 399, 507, 591, 597, 601, 1071
BtgI	CCRYGG	2 cut(s)	103, 806
BtrI	CACGTC	1 cut(s)	297
BtsCI	GGATG	6 cut(s)	189, 697, 904, 967, 1000, 1240
BtsI	GCAGTG	1 cut(s)	733
BtsIMutI	CAGTG	2 cut(s)	733, 1086
BveI	ACCTGC	1 cut(s)	324
Cac8I	GCNNGC	1 cut(s)	599
CaiI	CAGNNNCTG	1 cut(s)	1088
CfoI	GCGC	2 cut(s)	357, 362
Cfr10I	RCCGGY	2 cut(s)	487, 597
Cfr42I	CCGCGG	2 cut(s)	106, 809
Csp6I	GTAC	2 cut(s)	64, 292
CspAI	ACCGGT	1 cut(s)	487
CviAII	CATG	1 cut(s)	1073
CviQI	GTAC	2 cut(s)	64, 292
DdeI	CTNAG	4 cut(s)	260, 495, 759, 1323
DpnI	GATC	6 cut(s)	76, 188, 284, 302, 314, 942
DpnII	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
EaeI	YGGCCR	3 cut(s)	91, 319, 599
EagI	CGGCCG	2 cut(s)	91, 599
Eam1104I	CTCTTC	5 cut(s)	531, 617, 776, 993, 1071
EarI	CTCTTC	5 cut(s)	531, 617, 776, 993, 1071
EclXI	CGGCCG	2 cut(s)	91, 599
Eco130I	CCWWGG	1 cut(s)	78
Eco31I	GGTCTC	2 cut(s)	47, 186
Eco47I	GGWCC	4 cut(s)	82, 860, 932, 1059
Eco52I	CGGCCG	2 cut(s)	91, 599
Eco57I	CTGAAG	1 cut(s)	767
Eco88I	CYCGRG	1 cut(s)	23
EcoO109I	RGGNCCY	1 cut(s)	38
EcoRI	GAATTC	1 cut(s)	541
EcoRII	CCWGG	1 cut(s)	1332
EcoT14I	CCWWGG	1 cut(s)	78
ErhI	CCWWGG	1 cut(s)	78
FaeI	CATG	1 cut(s)	1076
FaiI	YATR	4 cut(s)	1074, 1251, 1341, 1343
FaqI	GGGAC	2 cut(s)	391, 1177
FatI	CATG	1 cut(s)	1072
FauI	CCCGC	2 cut(s)	358, 801
FokI	GGATG	6 cut(s)	196, 704, 911, 974, 1007, 1247
FseI	GGCCGGCC	1 cut(s)	601
FspBI	CTAG	2 cut(s)	59, 1328
GlaI	GCGC	2 cut(s)	356, 361
HaeIII	GGCC	9 cut(s)	39, 93, 321, 399, 507, 591, 597, 601, 1071
HhaI	GCGC	2 cut(s)	357, 362
Hin1II	CATG	1 cut(s)	1076
Hin6I	GCGC	2 cut(s)	355, 360
HinP1I	GCGC	2 cut(s)	355, 360
Hpy166II	GTNNAC	3 cut(s)	223, 294, 740
Hpy188I	TCNGA	7 cut(s)	86, 169, 191, 351, 547, 718, 907
Hpy188III	TCNNGA	5 cut(s)	25, 310, 669, 710, 921
Hpy8I	GTNNAC	3 cut(s)	223, 294, 740
Hpy99I	CGWCG	4 cut(s)	269, 275, 301, 320
HpyCH4III	ACNGT	2 cut(s)	382, 1094
HpyCH4IV	ACGT	1 cut(s)	296
HpyCH4V	TGCA	2 cut(s)	726, 796
HpyF10VI	GCNNNNNNNGC	5 cut(s)	28, 247, 256, 491, 802
HpyF3I	CTNAG	4 cut(s)	260, 495, 759, 1323
HpySE526I	ACGT	1 cut(s)	296
Hsp92II	CATG	1 cut(s)	1076
HspAI	GCGC	2 cut(s)	355, 360
Kpn2I	TCCGGA	1 cut(s)	709
KroI	GCCGGC	1 cut(s)	597
KroNI	GCCGGC	1 cut(s)	599
KspI	CCGCGG	2 cut(s)	106, 809
Kzo9I	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
LmnI	GCTCC	4 cut(s)	4, 256, 330, 1207
Lsp1109I	GCAGC	7 cut(s)	494, 508, 820, 958, 1016, 1019, 1094
LweI	GCATC	2 cut(s)	18, 958
MaeI	CTAG	2 cut(s)	59, 1328
MaeII	ACGT	1 cut(s)	296
MalI	GATC	6 cut(s)	76, 188, 284, 302, 314, 942
MboI	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
MflI	RGATCY	1 cut(s)	74
MluCI	AATT	9 cut(s)	440, 471, 541, 548, 721, 855, 927, 985, 1063
MlyI	GAGTC	4 cut(s)	122, 155, 194, 400
MmeI	TCCRAC	3 cut(s)	231, 234, 1081
MroI	TCCGGA	1 cut(s)	709
MroNI	GCCGGC	1 cut(s)	597
MseI	TTAA	5 cut(s)	414, 873, 1179, 1278, 1375
MspA1I	CMGCKG	2 cut(s)	105, 808
MspR9I	CCNGG	4 cut(s)	72, 95, 593, 1334
MteI	GCGCNGCGC	1 cut(s)	358
MvaI	CCWGG	1 cut(s)	1334
MvnI	CGCG	4 cut(s)	105, 357, 362, 808
MwoI	GCNNNNNNNGC	5 cut(s)	28, 247, 256, 491, 802
NaeI	GCCGGC	1 cut(s)	599
NciI	CCSGG	3 cut(s)	72, 95, 593
NdeII	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
NgoMIV	GCCGGC	1 cut(s)	597
NlaIII	CATG	1 cut(s)	1076
NmeAIII	GCCGAG	1 cut(s)	627
PaeR7I	CTCGAG	1 cut(s)	23
PcsI	WCGNNNNNNNCGW	4 cut(s)	96, 165, 216, 321
PdiI	GCCGGC	1 cut(s)	599
PfeI	GAWTC	6 cut(s)	87, 170, 346, 499, 713, 917
PfoI	TCCNGGA	1 cut(s)	1332
PinAI	ACCGGT	1 cut(s)	487
PleI	GAGTC	4 cut(s)	122, 155, 194, 399
PpsI	GAGTC	4 cut(s)	122, 155, 194, 399
Psp6I	CCWGG	1 cut(s)	1332
PspGI	CCWGG	1 cut(s)	1332
PstNI	CAGNNNCTG	1 cut(s)	1088
PsuI	RGATCY	1 cut(s)	74
RigI	GGCCGGCC	1 cut(s)	601
RsaI	GTAC	2 cut(s)	65, 293
RsaNI	GTAC	2 cut(s)	64, 292
SacII	CCGCGG	2 cut(s)	106, 809
SaqAI	TTAA	5 cut(s)	414, 873, 1179, 1278, 1375
Sau3AI	GATC	6 cut(s)	74, 186, 282, 300, 312, 940
SchI	GAGTC	4 cut(s)	122, 155, 194, 400
ScrFI	CCNGG	4 cut(s)	72, 95, 593, 1334
SfaNI	GCATC	2 cut(s)	18, 958
Sfr274I	CTCGAG	1 cut(s)	23
Sfr303I	CCGCGG	2 cut(s)	106, 809
SgrBI	CCGCGG	2 cut(s)	106, 809
SinI	GGWCC	4 cut(s)	82, 860, 932, 1059
SlaI	CTCGAG	1 cut(s)	23
SmlI	CTYRAG	4 cut(s)	17, 23, 236, 944
SmoI	CTYRAG	4 cut(s)	17, 23, 236, 944
Sse9I	AATT	9 cut(s)	440, 471, 541, 548, 721, 855, 927, 985, 1063
SspMI	CTAG	2 cut(s)	59, 1328
StyD4I	CCNGG	4 cut(s)	70, 93, 591, 1332
StyI	CCWWGG	1 cut(s)	78
TaaI	ACNGT	2 cut(s)	382, 1094
TaiI	ACGT	1 cut(s)	299
TaqI	TCGA	7 cut(s)	24, 159, 198, 299, 315, 432, 668
TasI	AATT	9 cut(s)	440, 471, 541, 548, 721, 855, 927, 985, 1063
TatI	WGTACW	2 cut(s)	63, 291
TauI	GCSGC	4 cut(s)	108, 360, 365, 808
TfiI	GAWTC	6 cut(s)	87, 170, 346, 499, 713, 917
Tru1I	TTAA	5 cut(s)	414, 873, 1179, 1278, 1375
Tru9I	TTAA	5 cut(s)	414, 873, 1179, 1278, 1375
TscAI	CASTG	2 cut(s)	733, 1093
TseI	GCWGC	7 cut(s)	482, 521, 833, 971, 1004, 1007, 1082
TspDTI	ATGAA	2 cut(s)	1011, 1089
TspGWI	ACGGA	2 cut(s)	225, 295
TspRI	CASTG	2 cut(s)	733, 1093
VpaK11BI	GGWCC	4 cut(s)	82, 860, 932, 1059
XapI	RAATTY	2 cut(s)	541, 985
XhoI	CTCGAG	1 cut(s)	23
XspI	CTAG	2 cut(s)	59, 1328

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