Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0010347

Physical Location & Seq

Genomic Coordinates Forward (+)

58565884 .. 58569551

Gene Structure 3668 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG364800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGGGCGAAGCTAACGAAGGGAGGAGGCGAGCAATGGAGAACTTGACGTTTCAGATGGATAAGTACCCGAGAGATCTGCTGCAGAGATTAATGTGCAGAAACGACGCGTCGCAGTCGAAATATGAGGAGGAGGATGAGGAGCTGGAGCTGAATCTGGGGCTGTCTTTGGGAGGAAGATTCGGAGTAGACAGGAGCGAGAAAAGCAAGCTAGTCCGATCTTCCTCGATTGCGGTGACTATGCCGTTTTGTAGGGAAGAGAACGACGACTCGGCGGCTCCGGCGGCGGCGAAGGCGGCGTCGTACGCTGGGCTGATGAGGGCGTCGTCGCTTCCGACGGAGACGGAGGAGGAGTGGAGGAAGAGGAAGGAGTTGCAGACGCTGCGGCGGTTGGCGGCGAAGCGGAGGAGGTCCGAGAAGCAGAGGAACAGCAGCAAGGAGGAAGAGGAAAGGCGTGAATTTGAGGTGGGACCCACTTCAGGGGTGAGGGCGAATAATCCGGCGGTGGTGCAGCCGTTTTGGCCGGCTGTGACGGCGGCGAGGCAAGCGGTTGGTGGTGGCGGTGGAGGAGTGGATCCCTTGGCGAAGGGTAAAAATGACATTTTGGGTGGCTTTCAGGGGTTTGGCCTGCAGCCCAGTTCTCAGGGCTCGGTGGAGTCACAAGGTGTTGGAAGCTCGTCGGGGTTGTCAGAAATGGAGAGTAAACCTCTTCAAGGTGATGGGGATGGAACAAAAGAAGAGAGACTGCTACTTGATTTTCCTTATAGTTTTCCCTTAACATCACAGGATCCAGCAGCTGTGGTGAAGCAAAAAGCCCTATTAGTAATCAGGATCCACGAAGCAATCAGGGCACCACCCTTCGTTCTTTGGGGTCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006950 GO:0007154 GO:0007165 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009987 GO:0010033 GO:0010035 GO:0023052 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0097305 GO:0097306 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

EAR Jas NINJA_B

Protein Analysis

291

Amino Acids

31.94

Weight (kDa)

6.29

Isoelectric Point (pI)

75.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EAR	PF07897	43 - 78	8.2e-16	Ethylene-responsive binding factor-associated repression
NLS_NINJA_AFP	PF16136	104 - 140	1.2e-20	Putative nuclear localisation signal in Ninja/AFP proteins

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

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Orthologous Genes (Group: OG0010347)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13740
fragaria_vesca	FvH4_4g29910 FvH4_4g29910
malus_domestica	MD13G1061900.v1.1 MD16G1060400.v1.1
prunus_persica	Prupe.1G288000_v2.0.a1 Prupe.1G288000_v2.0.a1
pyrus_communis	pycom13g05440 pycom16g05260
rosa_chinensis	RchiOBHm_Chr4g0438171
rosa_laevigata	RLG00000006382
rosa_multiflora	Rmu_sc0008960.1_g000001 Rmu_sc0015132.1_g000001
rosa_roxburghii	Rroxscaffold_5G00379310
rosa_rugosa	Rorug04G0308200
rosa_samantha	Rh4AG359000 Rh4BG369900 Rh4CG384000 Rh4DG364800
rosa_wichuraiana	Rw0G006360 Rw0G016300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	847
AccI	GTMKAC	1 cut(s)	186
AccII	CGCG	1 cut(s)	107
AclWI	GGATC	6 cut(s)	566, 579, 779, 792, 823, 836
AcoI	YGGCCR	1 cut(s)	518
AcsI	RAATTY	1 cut(s)	455
AcuI	CTGAAG	1 cut(s)	459
AcyI	GRCGYC	2 cut(s)	296, 320
AdeI	CACNNNGTG	1 cut(s)	662
AfaI	GTAC	2 cut(s)	65, 302
AfiI	CCNNNNNNNGG	3 cut(s)	476, 477, 710
AflIII	ACRYGT	1 cut(s)	105
AgsI	TTSAA	1 cut(s)	710
AluBI	AGCT	6 cut(s)	11, 142, 148, 208, 672, 794
AluI	AGCT	6 cut(s)	11, 142, 148, 208, 672, 794
Alw26I	GTCTC	2 cut(s)	332, 733
AlwI	GGATC	6 cut(s)	566, 579, 779, 792, 823, 836
AlwNI	CAGNNNCTG	2 cut(s)	379, 794
Ama87I	CYCGRG	1 cut(s)	67
AoxI	GGCC	2 cut(s)	518, 622
ApeKI	GCWGC	6 cut(s)	79, 379, 429, 508, 628, 791
ApoI	RAATTY	1 cut(s)	455
ArsI	GACNNNNNNTTYG	2 cut(s)	281, 313
AseI	ATTAAT	1 cut(s)	89
AspS9I	GGNCC	2 cut(s)	408, 467
AsuHPI	GGTGA	4 cut(s)	244, 493, 725, 811
AvaI	CYCGRG	1 cut(s)	67
AvaII	GGWCC	2 cut(s)	408, 467
BaeGI	GKGCMC	1 cut(s)	850
BamHI	GGATCC	3 cut(s)	571, 784, 828
BanI	GGYRCC	1 cut(s)	847
BanII	GRGCYC	1 cut(s)	647
BbvI	GCAGC	6 cut(s)	66, 366, 441, 520, 640, 803
BccI	CCATC	3 cut(s)	49, 710, 716
BceAI	ACGGC	3 cut(s)	226, 496, 546
BcgI	CGANNNNNNTGC	2 cut(s)	58, 92
BcoDI	GTCTC	2 cut(s)	332, 733
BfaI	CTAG	1 cut(s)	209
BfmI	CTRYAG	2 cut(s)	80, 626
BglI	GCCNNNNNGGC	1 cut(s)	517
BglII	AGATCT	1 cut(s)	73
Bme18I	GGWCC	2 cut(s)	408, 467
BmeT110I	CYCGRG	1 cut(s)	67
BmgT120I	GGNCC	2 cut(s)	408, 467
BmiI	GGNNCC	7 cut(s)	276, 468, 469, 573, 786, 830, 849
BmrI	ACTGGG	1 cut(s)	627
BmuI	ACTGGG	1 cut(s)	627
BplI	GAGNNNNNCTC	2 cut(s)	688, 720
BpmI	CTGGAG	1 cut(s)	164
BsaHI	GRCGYC	2 cut(s)	296, 320
BsaJI	CCNNGG	1 cut(s)	576
BsaXI	ACNNNNNCTCC	2 cut(s)	335, 365
Bsc4I	CCNNNNNNNGG	3 cut(s)	476, 477, 710
Bse118I	RCCGGY	1 cut(s)	520
Bse1I	ACTGG	1 cut(s)	633
Bse3DI	GCAATG	1 cut(s)	39
BseDI	CCNNGG	1 cut(s)	576
BseGI	GGATG	2 cut(s)	139, 727
BseLI	CCNNNNNNNGG	3 cut(s)	476, 477, 710
BseMI	GCAATG	1 cut(s)	39
BseMII	CTCAG	1 cut(s)	653
BseNI	ACTGG	1 cut(s)	633
BseRI	GAGGAG	8 cut(s)	37, 140, 143, 152, 359, 362, 418, 579
BseSI	GKGCMC	1 cut(s)	850
BseXI	GCAGC	6 cut(s)	66, 366, 441, 520, 640, 803
BseYI	CCCAGC	1 cut(s)	305
BsgI	GTGCAG	2 cut(s)	115, 527
Bsh1236I	CGCG	1 cut(s)	107
BshFI	GGCC	2 cut(s)	520, 624
BshNI	GGYRCC	1 cut(s)	847
BsiHKCI	CYCGRG	1 cut(s)	67
BsiSI	CCGG	3 cut(s)	278, 497, 521
BsiWI	CGTACG	1 cut(s)	300
BslFI	GGGAC	1 cut(s)	480
BslI	CCNNNNNNNGG	3 cut(s)	476, 477, 710
BsmAI	GTCTC	2 cut(s)	332, 733
BsmBI	CGTCTC	1 cut(s)	332
BsmFI	GGGAC	1 cut(s)	480
BsnI	GGCC	2 cut(s)	520, 624
BsoBI	CYCGRG	1 cut(s)	67
Bsp1286I	GDGCHC	2 cut(s)	647, 850
Bsp143I	GATC	5 cut(s)	73, 215, 571, 784, 828
BspANI	GGCC	2 cut(s)	520, 624
BspCNI	CTCAG	1 cut(s)	652
BspFNI	CGCG	1 cut(s)	107
BspLI	GGNNCC	7 cut(s)	276, 468, 469, 573, 786, 830, 849
BspMAI	CTGCAG	2 cut(s)	84, 630
BspPI	GGATC	6 cut(s)	566, 579, 779, 792, 823, 836
BspT107I	GGYRCC	1 cut(s)	847
BsrDI	GCAATG	1 cut(s)	39
BsrFI	RCCGGY	1 cut(s)	520
BsrI	ACTGG	1 cut(s)	633
BssAI	RCCGGY	1 cut(s)	520
BssECI	CCNNGG	1 cut(s)	576
BssMI	GATC	5 cut(s)	73, 215, 571, 784, 828
BssNI	GRCGYC	2 cut(s)	296, 320
BssT1I	CCWWGG	1 cut(s)	576
Bst6I	CTCTTC	5 cut(s)	249, 353, 435, 711, 729
BstACI	GRCGYC	2 cut(s)	296, 320
BstAPI	GCANNNNNTGC	1 cut(s)	379
BstC8I	GCNNGC	5 cut(s)	30, 206, 522, 543, 626
BstDEI	CTNAG	1 cut(s)	639
BstENI	CCTNNNNNAGG	1 cut(s)	708
BstF5I	GGATG	2 cut(s)	139, 727
BstFNI	CGCG	1 cut(s)	107
BstKTI	GATC	5 cut(s)	76, 218, 574, 787, 831
BstMAI	GTCTC	2 cut(s)	332, 733
BstMBI	GATC	5 cut(s)	73, 215, 571, 784, 828
BstSFI	CTRYAG	2 cut(s)	80, 626
BstSLI	GKGCMC	1 cut(s)	850
BstUI	CGCG	1 cut(s)	107
BstV1I	GCAGC	6 cut(s)	66, 366, 441, 520, 640, 803
BstX2I	RGATCY	4 cut(s)	73, 571, 784, 828
BstYI	RGATCY	4 cut(s)	73, 571, 784, 828
BsuRI	GGCC	2 cut(s)	520, 624
BtsCI	GGATG	2 cut(s)	139, 727
Cac8I	GCNNGC	5 cut(s)	30, 206, 522, 543, 626
CaiI	CAGNNNCTG	2 cut(s)	379, 794
Cfr10I	RCCGGY	1 cut(s)	520
Cfr13I	GGNCC	2 cut(s)	408, 467
CseI	GACGC	5 cut(s)	96, 113, 285, 309, 385
Csp6I	GTAC	2 cut(s)	64, 301
CviQI	GTAC	2 cut(s)	64, 301
DdeI	CTNAG	1 cut(s)	639
DpnI	GATC	5 cut(s)	75, 217, 573, 786, 830
DpnII	GATC	5 cut(s)	73, 215, 571, 784, 828
DraIII	CACNNNGTG	1 cut(s)	662
EaeI	YGGCCR	1 cut(s)	518
Eam1104I	CTCTTC	5 cut(s)	249, 353, 435, 711, 729
EarI	CTCTTC	5 cut(s)	249, 353, 435, 711, 729
Eco130I	CCWWGG	1 cut(s)	576
Eco24I	GRGCYC	1 cut(s)	647
Eco47I	GGWCC	2 cut(s)	408, 467
Eco57I	CTGAAG	1 cut(s)	459
Eco88I	CYCGRG	1 cut(s)	67
EcoNI	CCTNNNNNAGG	1 cut(s)	708
EcoO109I	RGGNCCY	1 cut(s)	467
EcoT14I	CCWWGG	1 cut(s)	576
EcoT38I	GRGCYC	1 cut(s)	647
ErhI	CCWWGG	1 cut(s)	576
Esp3I	CGTCTC	1 cut(s)	332
FaiI	YATR	3 cut(s)	123, 239, 762
FaqI	GGGAC	1 cut(s)	480
FblI	GTMKAC	1 cut(s)	186
FokI	GGATG	2 cut(s)	146, 734
FriOI	GRGCYC	1 cut(s)	647
FspBI	CTAG	1 cut(s)	209
GsaI	CCCAGC	1 cut(s)	309
GsuI	CTGGAG	1 cut(s)	164
HaeIII	GGCC	2 cut(s)	520, 624
HapII	CCGG	3 cut(s)	278, 497, 521
HgaI	GACGC	5 cut(s)	96, 113, 285, 309, 385
Hin1I	GRCGYC	2 cut(s)	296, 320
HinfI	GANTC	4 cut(s)	151, 177, 266, 653
HpaII	CCGG	3 cut(s)	278, 497, 521
HphI	GGTGA	4 cut(s)	244, 493, 725, 811
Hpy166II	GTNNAC	2 cut(s)	187, 701
Hpy188I	TCNGA	6 cut(s)	54, 182, 215, 333, 412, 688
Hpy188III	TCNNGA	1 cut(s)	826
Hpy8I	GTNNAC	2 cut(s)	187, 701
Hpy99I	CGWCG	8 cut(s)	107, 112, 266, 301, 325, 328, 337, 679
HpyAV	CCTTC	5 cut(s)	11, 283, 358, 577, 865
HpyCH4IV	ACGT	1 cut(s)	47
HpyCH4V	TGCA	5 cut(s)	82, 96, 373, 508, 628
HpyF3I	CTNAG	1 cut(s)	639
HpySE526I	ACGT	1 cut(s)	47
Hsp92I	GRCGYC	2 cut(s)	296, 320
KflI	GGGWCCC	1 cut(s)	467
KroI	GCCGGC	1 cut(s)	520
KroNI	GCCGGC	1 cut(s)	522
Kzo9I	GATC	5 cut(s)	73, 215, 571, 784, 828
LmnI	GCTCC	4 cut(s)	139, 145, 192, 280
Lsp1109I	GCAGC	6 cut(s)	66, 366, 441, 520, 640, 803
MaeI	CTAG	1 cut(s)	209
MaeII	ACGT	1 cut(s)	47
MaeIII	GTNAC	3 cut(s)	232, 526, 654
MalI	GATC	5 cut(s)	75, 217, 573, 786, 830
MboI	GATC	5 cut(s)	73, 215, 571, 784, 828
MboII	GAAGA	7 cut(s)	186, 210, 266, 370, 452, 698, 746
MflI	RGATCY	4 cut(s)	73, 571, 784, 828
MhlI	GDGCHC	2 cut(s)	647, 850
MluCI	AATT	1 cut(s)	455
MluI	ACGCGT	1 cut(s)	105
MlyI	GAGTC	2 cut(s)	260, 662
MmeI	TCCRAC	2 cut(s)	356, 646
MroNI	GCCGGC	1 cut(s)	520
MseI	TTAA	2 cut(s)	89, 773
MspA1I	CMGCKG	1 cut(s)	794
MspI	CCGG	3 cut(s)	278, 497, 521
MvnI	CGCG	1 cut(s)	107
NaeI	GCCGGC	1 cut(s)	522
NdeII	GATC	5 cut(s)	73, 215, 571, 784, 828
NgoMIV	GCCGGC	1 cut(s)	520
NlaIV	GGNNCC	7 cut(s)	276, 468, 469, 573, 786, 830, 849
NmeAIII	GCCGAG	1 cut(s)	248
NmuCI	GTSAC	3 cut(s)	232, 526, 654
PcsI	WCGNNNNNNNCGW	1 cut(s)	329
PdiI	GCCGGC	1 cut(s)	522
PfeI	GAWTC	2 cut(s)	151, 177
Pfl23II	CGTACG	1 cut(s)	300
PleI	GAGTC	2 cut(s)	260, 661
PpsI	GAGTC	2 cut(s)	260, 661
PpuMI	RGGWCCY	1 cut(s)	467
PshBI	ATTAAT	1 cut(s)	89
Psp5II	RGGWCCY	1 cut(s)	467
PspFI	CCCAGC	1 cut(s)	305
PspLI	CGTACG	1 cut(s)	300
PspN4I	GGNNCC	7 cut(s)	276, 468, 469, 573, 786, 830, 849
PspPI	GGNCC	2 cut(s)	408, 467
PspPPI	RGGWCCY	1 cut(s)	467
PstI	CTGCAG	2 cut(s)	84, 630
PstNI	CAGNNNCTG	2 cut(s)	379, 794
PsuI	RGATCY	4 cut(s)	73, 571, 784, 828
PvuII	CAGCTG	1 cut(s)	794
RsaI	GTAC	2 cut(s)	65, 302
RsaNI	GTAC	2 cut(s)	64, 301
SaqAI	TTAA	2 cut(s)	89, 773
Sau3AI	GATC	5 cut(s)	73, 215, 571, 784, 828
Sau96I	GGNCC	2 cut(s)	408, 467
SchI	GAGTC	2 cut(s)	260, 662
SduI	GDGCHC	2 cut(s)	647, 850
SfcI	CTRYAG	2 cut(s)	80, 626
SinI	GGWCC	2 cut(s)	408, 467
Sse9I	AATT	1 cut(s)	455
SspMI	CTAG	1 cut(s)	209
StyI	CCWWGG	1 cut(s)	576
TaiI	ACGT	1 cut(s)	50
TaqI	TCGA	2 cut(s)	116, 224
TasI	AATT	1 cut(s)	455
TauI	GCSGC	7 cut(s)	275, 284, 287, 296, 385, 395, 536
TfiI	GAWTC	2 cut(s)	151, 177
Tru1I	TTAA	2 cut(s)	89, 773
Tru9I	TTAA	2 cut(s)	89, 773
TseFI	GTSAC	3 cut(s)	232, 526, 654
TseI	GCWGC	6 cut(s)	79, 379, 429, 508, 628, 791
Tsp45I	GTSAC	3 cut(s)	232, 526, 654
TspGWI	ACGGA	2 cut(s)	350, 356
VpaK11BI	GGWCC	2 cut(s)	408, 467
VspI	ATTAAT	1 cut(s)	89
XagI	CCTNNNNNAGG	1 cut(s)	708
XapI	RAATTY	1 cut(s)	455
XmiI	GTMKAC	1 cut(s)	186
XspI	CTAG	1 cut(s)	209

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