Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0002373

Physical Location & Seq

Genomic Coordinates Reverse (-)

22262277 .. 22262642

Gene Structure 366 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG221700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGTTGAGGAGAATTGTTTCTGGCGACGATTTATCTCAAAAAGTCGTCGTTGACGACCAGGTGCAAGATTCCGACGATGTTGAGCTGAGCCTGGGGCTGTCGTTGAACGGTCGGTTTGGGGTGGACCTGAAGGCCAAGGCGGGGCTGCAACTCAAACGATCGTCTTCAGTCTCAGACTTCTCGCCTGCGACGAGGACTCCGGTGAGAGAGGAGGAGGCAACGACGTGTCATGTACCCCGGCCGTGTATGGTGCCTCTGATGAGGACTTTCTCGCTTCCGACGGAGACAGAGGATGAGTGGAGGAAGGGGAAGGAGCTGCAGAGCTTGACAAGAATGGAGGCGAAGCGGAAGCCATCGGAGAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

EAR Jas NINJA_B

Protein Analysis

121

Amino Acids

13.58

Weight (kDa)

6.6

Isoelectric Point (pI)

62.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EAR	PF07897	23 - 59	3.7e-16	Ethylene-responsive binding factor-associated repression
NLS_NINJA_AFP	PF16136	86 - 121	1.5e-17	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

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Align Labels (Cladogram)

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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: OG0002373)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G29575 AT3G29575 AT3G29575
fragaria_vesca	FvH4_5g13760 FvH4_6g46820 FvH4_6g46820
malus_domestica	MD09G1067200.v1.1 MD17G1060200.v1.1
prunus_persica	Prupe.5G205900_v2.0.a1 Prupe.5G205900_v2.0.a1 Prupe.5G205900_v2.0.a1 Prupe.5G205900_v2.0.a1
pyrus_communis	pycom06g18020 pycom111g05650 pycom13g23090 pycom17g05990
rosa_chinensis	RchiOBHm_Chr2g0165801 RchiOBHm_Chr7g0183181
rosa_laevigata	RLG00000005069 RLG00000021557
rosa_multiflora	Rmu_co8279591.1_g000001 Rmu_co8332333.1_g000001 Rmu_sc0001861.1_g000014 Rmu_sc0003227.1_g000009 Rmu_sc0006832.1_g000002 Rmu_sc0012318.1_g000002 Rmu_ssc0000111.1_g000018
rosa_roxburghii	Rroxscaffold_2G00085490 Rroxscaffold_3G00270680
rosa_rugosa	Rorug02G0517800 Rorug06G0454600
rosa_samantha	Rh2AG583500 Rh2BG595600 Rh2CG221700 Rh2CG566300 Rh2DG605400 Rh7AG057000 Rh7BG056700 Rh7CG057800 Rh7DG056600
rosa_wichuraiana	Rw2G048660 Rw7G004650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	250
AciI	CCGC	2 cut(s)	140, 346
AcoI	YGGCCR	1 cut(s)	239
AcuI	CTGAAG	2 cut(s)	149, 150
AfaI	GTAC	1 cut(s)	234
AfiI	CCNNNNNNNGG	1 cut(s)	141
AflIII	ACRYGT	1 cut(s)	224
AgsI	TTSAA	1 cut(s)	106
AjiI	CACGTC	1 cut(s)	225
AjnI	CCWGG	2 cut(s)	57, 90
AluBI	AGCT	3 cut(s)	85, 316, 324
AluI	AGCT	3 cut(s)	85, 316, 324
Alw26I	GTCTC	2 cut(s)	175, 278
AoxI	GGCC	2 cut(s)	132, 239
ApeKI	GCWGC	2 cut(s)	145, 316
Asp700I	GAANNNNTTC	1 cut(s)	16
AspS9I	GGNCC	1 cut(s)	124
AsuC2I	CCSGG	1 cut(s)	238
AsuHPI	GGTGA	1 cut(s)	214
AvaII	GGWCC	1 cut(s)	124
BanI	GGYRCC	1 cut(s)	250
BbsI	GAAGAC	1 cut(s)	156
BbvI	GCAGC	2 cut(s)	132, 303
BccI	CCATC	1 cut(s)	361
BceAI	ACGGC	1 cut(s)	226
BciT130I	CCWGG	2 cut(s)	59, 92
BcnI	CCSGG	1 cut(s)	238
BcoDI	GTCTC	2 cut(s)	175, 278
BfmI	CTRYAG	1 cut(s)	317
BisI	GCNGC	2 cut(s)	146, 317
BlpI	GCTNAGC	1 cut(s)	86
BlsI	GCNGC	2 cut(s)	147, 318
Bme1390I	CCNGG	3 cut(s)	59, 92, 238
Bme18I	GGWCC	1 cut(s)	124
BmgBI	CACGTC	1 cut(s)	225
BmgT120I	GGNCC	1 cut(s)	124
BmiI	GGNNCC	1 cut(s)	252
BmrFI	CCNGG	3 cut(s)	59, 92, 238
BpiI	GAAGAC	1 cut(s)	156
Bpu1102I	GCTNAGC	1 cut(s)	86
BpuMI	CCSGG	1 cut(s)	238
BsaJI	CCNNGG	3 cut(s)	91, 135, 236
BsaWI	WCCGGW	1 cut(s)	199
BsaXI	ACNNNNNCTCC	2 cut(s)	181, 211
Bsc4I	CCNNNNNNNGG	1 cut(s)	141
BseBI	CCWGG	2 cut(s)	59, 92
BseDI	CCNNGG	3 cut(s)	91, 135, 236
BseGI	GGATG	1 cut(s)	298
BseLI	CCNNNNNNNGG	1 cut(s)	141
BseMII	CTCAG	2 cut(s)	77, 186
BseRI	GAGGAG	3 cut(s)	22, 224, 227
BseX3I	CGGCCG	1 cut(s)	239
BseXI	GCAGC	2 cut(s)	132, 303
Bsh1285I	CGRYCG	3 cut(s)	112, 161, 242
BshFI	GGCC	2 cut(s)	134, 241
BshNI	GGYRCC	1 cut(s)	250
BsiEI	CGRYCG	3 cut(s)	112, 161, 242
BsiSI	CCGG	2 cut(s)	200, 238
BslI	CCNNNNNNNGG	1 cut(s)	141
BsmAI	GTCTC	2 cut(s)	175, 278
BsnI	GGCC	2 cut(s)	134, 241
Bsp143I	GATC	1 cut(s)	158
Bsp1720I	GCTNAGC	1 cut(s)	86
BspACI	CCGC	2 cut(s)	140, 346
BspANI	GGCC	2 cut(s)	134, 241
BspCNI	CTCAG	2 cut(s)	78, 185
BspLI	GGNNCC	1 cut(s)	252
BspMAI	CTGCAG	1 cut(s)	321
BspT107I	GGYRCC	1 cut(s)	250
BssECI	CCNNGG	3 cut(s)	91, 135, 236
BssMI	GATC	1 cut(s)	158
BssT1I	CCWWGG	1 cut(s)	135
Bst2UI	CCWGG	2 cut(s)	59, 92
Bst4CI	ACNGT	1 cut(s)	110
BstC8I	GCNNGC	1 cut(s)	186
BstDEI	CTNAG	2 cut(s)	86, 172
BstF5I	GGATG	1 cut(s)	298
BstKTI	GATC	1 cut(s)	161
BstMAI	GTCTC	2 cut(s)	175, 278
BstMBI	GATC	1 cut(s)	158
BstMCI	CGRYCG	3 cut(s)	112, 161, 242
BstNI	CCWGG	2 cut(s)	59, 92
BstSCI	CCNGG	3 cut(s)	57, 90, 236
BstSFI	CTRYAG	1 cut(s)	317
BstV1I	GCAGC	2 cut(s)	132, 303
BstV2I	GAAGAC	1 cut(s)	156
BstZI	CGGCCG	1 cut(s)	239
BsuRI	GGCC	2 cut(s)	134, 241
BtrI	CACGTC	1 cut(s)	225
BtsCI	GGATG	1 cut(s)	298
Cac8I	GCNNGC	1 cut(s)	186
Cfr13I	GGNCC	1 cut(s)	124
CsiI	ACCWGGT	1 cut(s)	57
Csp6I	GTAC	1 cut(s)	233
CviAII	CATG	1 cut(s)	230
CviJI	RGCY	9 cut(s)	85, 90, 97, 134, 145, 241, 316, 324, 352
CviKI_1	RGCY	9 cut(s)	85, 90, 97, 134, 145, 241, 316, 324, 352
CviQI	GTAC	1 cut(s)	233
DdeI	CTNAG	2 cut(s)	86, 172
DpnI	GATC	1 cut(s)	160
DpnII	GATC	1 cut(s)	158
EaeI	YGGCCR	1 cut(s)	239
EagI	CGGCCG	1 cut(s)	239
EclXI	CGGCCG	1 cut(s)	239
Eco130I	CCWWGG	1 cut(s)	135
Eco47I	GGWCC	1 cut(s)	124
Eco52I	CGGCCG	1 cut(s)	239
Eco57I	CTGAAG	2 cut(s)	149, 150
EcoRII	CCWGG	2 cut(s)	57, 90
EcoT14I	CCWWGG	1 cut(s)	135
ErhI	CCWWGG	1 cut(s)	135
FaeI	CATG	1 cut(s)	233
FaiI	YATR	2 cut(s)	231, 248
FatI	CATG	1 cut(s)	229
FauI	CCCGC	1 cut(s)	133
Fnu4HI	GCNGC	2 cut(s)	146, 317
FokI	GGATG	1 cut(s)	305
Fsp4HI	GCNGC	2 cut(s)	146, 317
GluI	GCNGC	2 cut(s)	146, 317
HaeIII	GGCC	2 cut(s)	134, 241
HapII	CCGG	2 cut(s)	200, 238
Hin1II	CATG	1 cut(s)	233
HincII	GTYRAC	1 cut(s)	52
HindII	GTYRAC	1 cut(s)	52
HinfI	GANTC	2 cut(s)	68, 196
HpaII	CCGG	2 cut(s)	200, 238
HphI	GGTGA	1 cut(s)	214
Hpy166II	GTNNAC	2 cut(s)	52, 124
Hpy188I	TCNGA	5 cut(s)	73, 175, 258, 279, 358
Hpy8I	GTNNAC	2 cut(s)	52, 124
Hpy99I	CGWCG	6 cut(s)	29, 50, 77, 193, 226, 283
HpyAV	CCTTC	3 cut(s)	124, 298, 304
HpyCH4III	ACNGT	1 cut(s)	110
HpyCH4IV	ACGT	1 cut(s)	224
HpyCH4V	TGCA	3 cut(s)	64, 148, 319
HpyF3I	CTNAG	2 cut(s)	86, 172
HpySE526I	ACGT	1 cut(s)	224
Hsp92II	CATG	1 cut(s)	233
Kzo9I	GATC	1 cut(s)	158
LmnI	GCTCC	1 cut(s)	313
LpnPI	CCDG	9 cut(s)	6, 44, 71, 77, 104, 140, 198, 213, 251
Lsp1109I	GCAGC	2 cut(s)	132, 303
MabI	ACCWGGT	1 cut(s)	57
MaeII	ACGT	1 cut(s)	224
MalI	GATC	1 cut(s)	160
MboI	GATC	1 cut(s)	158
MboII	GAAGA	1 cut(s)	156
MluCI	AATT	1 cut(s)	12
MlyI	GAGTC	1 cut(s)	190
MmeI	TCCRAC	2 cut(s)	96, 302
MnlI	CCTC	9 cut(s)	186, 202, 205, 208, 255, 264, 283, 294, 331
MroXI	GAANNNNTTC	1 cut(s)	16
MspI	CCGG	2 cut(s)	200, 238
MspR9I	CCNGG	3 cut(s)	59, 92, 238
MvaI	CCWGG	2 cut(s)	59, 92
NciI	CCSGG	1 cut(s)	238
NdeII	GATC	1 cut(s)	158
NlaIII	CATG	1 cut(s)	233
NlaIV	GGNNCC	1 cut(s)	252
PcsI	WCGNNNNNNNCGW	2 cut(s)	51, 188
PdmI	GAANNNNTTC	1 cut(s)	16
PfeI	GAWTC	1 cut(s)	68
PkrI	GCNGC	2 cut(s)	147, 318
Ple19I	CGATCG	1 cut(s)	161
PleI	GAGTC	1 cut(s)	190
PpsI	GAGTC	1 cut(s)	190
Psp6I	CCWGG	2 cut(s)	57, 90
PspGI	CCWGG	2 cut(s)	57, 90
PspN4I	GGNNCC	1 cut(s)	252
PspPI	GGNCC	1 cut(s)	124
PstI	CTGCAG	1 cut(s)	321
PvuI	CGATCG	1 cut(s)	161
RsaI	GTAC	1 cut(s)	234
RsaNI	GTAC	1 cut(s)	233
SatI	GCNGC	2 cut(s)	146, 317
Sau3AI	GATC	1 cut(s)	158
Sau96I	GGNCC	1 cut(s)	124
SchI	GAGTC	1 cut(s)	190
ScrFI	CCNGG	3 cut(s)	59, 92, 238
SetI	ASST	6 cut(s)	63, 87, 129, 227, 318, 326
SexAI	ACCWGGT	1 cut(s)	57
SfcI	CTRYAG	1 cut(s)	317
SinI	GGWCC	1 cut(s)	124
Sse9I	AATT	1 cut(s)	12
SsiI	CCGC	2 cut(s)	140, 346
StyD4I	CCNGG	3 cut(s)	57, 90, 236
StyI	CCWWGG	1 cut(s)	135
TaaI	ACNGT	1 cut(s)	110
TaiI	ACGT	1 cut(s)	227
TasI	AATT	1 cut(s)	12
TfiI	GAWTC	1 cut(s)	68
TseI	GCWGC	2 cut(s)	145, 316
TspGWI	ACGGA	1 cut(s)	296
VpaK11BI	GGWCC	1 cut(s)	124
XmnI	GAANNNNTTC	1 cut(s)	16

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