Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0000875

Physical Location & Seq

Genomic Coordinates Reverse (-)

17522449 .. 17523731

Gene Structure 1283 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G016510.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGGCTGAAACGAATAAGAGCAAAGTTGTGTGCTCAGATGATGATCACAGTGATACTGAAGAGAGCAAAAACAAATTGGATGACTTAACTCTCCCTCAAGTGAAACTCAACCTTGGCCCAGAAAAGAAGAAGAAGAAGAAGCTTCTGGTTATTGGTCTTGGAGGCTTGCTTTGTCATAGAGTATACCGCACTGAAAAAATCTACATTCCAAATTATCGCCGTCCGGATGCAGCATATGGAAACTACAAGGTTTACAAGAGGCCTTACTGTGAAGAATTTATGAAGTTTTGTCTGGAAAGATTTGAAGTTGGAATATGGTCTTCTGCAAGGGAATGGTACTTGGACAATGCCTTGGATTGTGTGATGAAAGGATTGAGGAGGAAGTTGTTGTTTGCTTGGGATCAAGTGGAGTGTACTGATTCAGGGTTCAAAACCTTGGAGAACCAAAAGAAGCCCATCTTTCTGAAAGGGTTGAAGAAAATATGGGAAAACAAGGGTTTCAAAGCCTCACTTCCATCTTCCATGGGGAAATACTCTTCATTGAACACCTTGTTAATTGATGATAAGTTTTACAAGGAAATCCTGCTTTACTTGGAGGGACTTGCAGATGCCGATGATGTTACTTCTTATGTTAAAGATCATCCATTTGGACAGCCAGCAATAACAACTACTCACTCAGATTGGGATTTCTATTCAAAGATCCTTACTCATTGCCAGAAAGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NIF

Protein Analysis

241

Amino Acids

28.0

Weight (kDa)

8.65

Isoelectric Point (pI)

30.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	47 - 141	7.8e-11	NLI interacting factor-like phosphatase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000875)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36540 AT2G36550
fragaria_vesca	FvH4_6g17650 FvH4_6g17650 FvH4_6g17680 FvH4_6g18040 FvH4_6g18040 FvH4_6g18041
malus_domestica	MD14G1013900.v1.1 MD14G1014000.v1.1 MD14G1014100.v1.1
prunus_persica	Prupe.7G119400_v2.0.a1 Prupe.7G119500_v2.0.a1 Prupe.7G119500_v2.0.a1
pyrus_communis	pycom14g01180 pycom14g01190
rosa_chinensis	RchiOBHm_Chr3g0471881 RchiOBHm_Chr3g0471901 RchiOBHm_Chr3g0472301 RchiOBHm_Chr3g0472311 RchiOBHm_Chr4g0442541
rosa_laevigata	RLG00000006003 RLG00000024088 RLG00000024089 RLG00000024121
rosa_multiflora	Rmu_sc0000627.1_g000001 Rmu_sc0002115.1_g000024 Rmu_sc0016565.1_g000001 Rmu_sc0036882.1_g000001 Rmu_ssc0000204.1_g000046
rosa_roxburghii	Rroxscaffold_5G00383360 Rroxscaffold_6G00409040 Rroxscaffold_6G00409080 Rroxscaffold_6G00409090 Rroxscaffold_6G00409430 Rroxscaffold_6G00409450 Rroxscaffold_6G00410650
rosa_rugosa	Rorug03G0111000 Rorug03G0111100 Rorug03G0121100 Rorug03G0123800 Rorug03G0123900 Rorug03G0124100 Rorug04G0341200
rosa_samantha	Rh3AG172300 Rh3AG172400 Rh3AG172500 Rh3AG176100 Rh3AG176200 Rh3BG197800 Rh3BG197900 Rh3BG201800 Rh3BG201900 Rh3CG188800 Rh3DG173400 Rh3DG173500 Rh3DG176400 Rh3DG176600 Rh4AG393500 Rh4BG406600 Rh4CG422000
rosa_wichuraiana	Rw3G015210 Rw3G016510 Rw3G016520 Rw3G016820 Rw4G034000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	183
AccIII	TCCGGA	1 cut(s)	223
AciI	CCGC	1 cut(s)	187
AclWI	GGATC	2 cut(s)	408, 694
AcsI	RAATTY	1 cut(s)	275
AcuI	CTGAAG	1 cut(s)	78
AfaI	GTAC	2 cut(s)	338, 415
AgsI	TTSAA	6 cut(s)	305, 430, 475, 502, 544, 696
AluBI	AGCT	1 cut(s)	142
AluI	AGCT	1 cut(s)	142
Alw21I	GWGCWC	1 cut(s)	35
AlwI	GGATC	2 cut(s)	408, 694
Aor13HI	TCCGGA	1 cut(s)	223
AoxI	GGCC	2 cut(s)	115, 260
ApeKI	GCWGC	1 cut(s)	230
ApoI	RAATTY	1 cut(s)	275
AspS9I	GGNCC	1 cut(s)	116
BbsI	GAAGAC	1 cut(s)	312
Bbv12I	GWGCWC	1 cut(s)	35
BbvI	GCAGC	1 cut(s)	242
BccI	CCATC	2 cut(s)	464, 523
BceAI	ACGGC	1 cut(s)	204
BclI	TGATCA	1 cut(s)	43
BisI	GCNGC	1 cut(s)	231
BlsI	GCNGC	1 cut(s)	232
BmgT120I	GGNCC	1 cut(s)	116
BmsI	GCATC	2 cut(s)	217, 598
BpiI	GAAGAC	1 cut(s)	312
BpuEI	CTTGAG	1 cut(s)	81
BsaBI	GATNNNNATC	1 cut(s)	42
BsaJI	CCNNGG	4 cut(s)	112, 351, 435, 522
BsaWI	WCCGGW	1 cut(s)	223
Bse3DI	GCAATG	1 cut(s)	709
Bse8I	GATNNNNATC	1 cut(s)	42
BseAI	TCCGGA	1 cut(s)	223
BseDI	CCNNGG	4 cut(s)	112, 351, 435, 522
BseGI	GGATG	3 cut(s)	85, 232, 640
BseJI	GATNNNNATC	1 cut(s)	42
BseMI	GCAATG	1 cut(s)	709
BseMII	CTCAG	2 cut(s)	48, 690
BseRI	GAGGAG	1 cut(s)	391
BseXI	GCAGC	1 cut(s)	242
BshFI	GGCC	2 cut(s)	117, 262
BsiHKAI	GWGCWC	1 cut(s)	35
BsiSI	CCGG	1 cut(s)	224
BslFI	GGGAC	1 cut(s)	612
BsmFI	GGGAC	1 cut(s)	612
BsnI	GGCC	2 cut(s)	117, 262
Bsp1286I	GDGCHC	1 cut(s)	35
Bsp13I	TCCGGA	1 cut(s)	223
Bsp143I	GATC	4 cut(s)	43, 400, 637, 699
Bsp19I	CCATGG	1 cut(s)	522
BspACI	CCGC	1 cut(s)	187
BspANI	GGCC	2 cut(s)	117, 262
BspCNI	CTCAG	2 cut(s)	47, 689
BspEI	TCCGGA	1 cut(s)	223
BspPI	GGATC	2 cut(s)	408, 694
BsrDI	GCAATG	1 cut(s)	709
BssECI	CCNNGG	4 cut(s)	112, 351, 435, 522
BssMI	GATC	4 cut(s)	43, 400, 637, 699
BssNAI	GTATAC	1 cut(s)	184
BssT1I	CCWWGG	4 cut(s)	112, 351, 435, 522
Bst1107I	GTATAC	1 cut(s)	184
Bst4CI	ACNGT	2 cut(s)	50, 269
Bst6I	CTCTTC	2 cut(s)	54, 541
BstC8I	GCNNGC	2 cut(s)	167, 657
BstDEI	CTNAG	2 cut(s)	34, 676
BstDSI	CCRYGG	1 cut(s)	522
BstF5I	GGATG	3 cut(s)	85, 232, 640
BstKTI	GATC	4 cut(s)	46, 403, 640, 702
BstMBI	GATC	4 cut(s)	43, 400, 637, 699
BstV1I	GCAGC	1 cut(s)	242
BstV2I	GAAGAC	1 cut(s)	312
BstX2I	RGATCY	1 cut(s)	699
BstYI	RGATCY	1 cut(s)	699
BstZ17I	GTATAC	1 cut(s)	184
BsuRI	GGCC	2 cut(s)	117, 262
BtgI	CCRYGG	1 cut(s)	522
BtsCI	GGATG	3 cut(s)	85, 232, 640
BtsIMutI	CAGTG	2 cut(s)	55, 189
Cac8I	GCNNGC	2 cut(s)	167, 657
Cfr13I	GGNCC	1 cut(s)	116
Csp6I	GTAC	2 cut(s)	337, 414
CviAII	CATG	1 cut(s)	523
CviJI	RGCY	8 cut(s)	5, 117, 142, 165, 262, 454, 506, 655
CviKI_1	RGCY	8 cut(s)	5, 117, 142, 165, 262, 454, 506, 655
CviQI	GTAC	2 cut(s)	337, 414
DdeI	CTNAG	2 cut(s)	34, 676
DpnI	GATC	4 cut(s)	45, 402, 639, 701
DpnII	GATC	4 cut(s)	43, 400, 637, 699
Eam1104I	CTCTTC	2 cut(s)	54, 541
EarI	CTCTTC	2 cut(s)	54, 541
Eco130I	CCWWGG	4 cut(s)	112, 351, 435, 522
Eco147I	AGGCCT	1 cut(s)	262
Eco57I	CTGAAG	1 cut(s)	78
EcoT14I	CCWWGG	4 cut(s)	112, 351, 435, 522
ErhI	CCWWGG	4 cut(s)	112, 351, 435, 522
FaeI	CATG	1 cut(s)	526
FaiI	YATR	9 cut(s)	177, 184, 235, 237, 281, 316, 484, 524, 630
FalI	AAGNNNNNCTT	4 cut(s)	443, 475, 495, 527
FaqI	GGGAC	1 cut(s)	612
FatI	CATG	1 cut(s)	522
FauNDI	CATATG	1 cut(s)	235
FbaI	TGATCA	1 cut(s)	43
FblI	GTMKAC	1 cut(s)	183
Fnu4HI	GCNGC	1 cut(s)	231
FokI	GGATG	3 cut(s)	92, 239, 627
Fsp4HI	GCNGC	1 cut(s)	231
GluI	GCNGC	1 cut(s)	231
HaeIII	GGCC	2 cut(s)	117, 262
HapII	CCGG	1 cut(s)	224
Hin1II	CATG	1 cut(s)	526
HindIII	AAGCTT	1 cut(s)	140
HinfI	GANTC	1 cut(s)	419
HpaII	CCGG	1 cut(s)	224
Hpy166II	GTNNAC	3 cut(s)	184, 253, 414
Hpy188I	TCNGA	3 cut(s)	37, 465, 679
Hpy188III	TCNNGA	2 cut(s)	224, 293
Hpy8I	GTNNAC	3 cut(s)	184, 253, 414
HpyCH4III	ACNGT	2 cut(s)	50, 269
HpyCH4V	TGCA	3 cut(s)	230, 326, 605
HpyF3I	CTNAG	2 cut(s)	34, 676
Hsp92II	CATG	1 cut(s)	526
Kpn2I	TCCGGA	1 cut(s)	223
Ksp22I	TGATCA	1 cut(s)	43
Kzo9I	GATC	4 cut(s)	43, 400, 637, 699
LpnPI	CCDG	7 cut(s)	131, 132, 237, 278, 408, 596, 669
Lsp1109I	GCAGC	1 cut(s)	242
LweI	GCATC	2 cut(s)	217, 598
MaeIII	GTNAC	1 cut(s)	619
MalI	GATC	4 cut(s)	45, 402, 639, 701
MboI	GATC	4 cut(s)	43, 400, 637, 699
MflI	RGATCY	1 cut(s)	699
MhlI	GDGCHC	1 cut(s)	35
MluCI	AATT	4 cut(s)	74, 211, 275, 555
MmeI	TCCRAC	1 cut(s)	289
MnlI	CCTC	7 cut(s)	105, 155, 252, 369, 372, 517, 589
MroI	TCCGGA	1 cut(s)	223
MseI	TTAA	4 cut(s)	86, 554, 633, 724
MspI	CCGG	1 cut(s)	224
NcoI	CCATGG	1 cut(s)	522
NdeI	CATATG	1 cut(s)	235
NdeII	GATC	4 cut(s)	43, 400, 637, 699
NlaIII	CATG	1 cut(s)	526
PceI	AGGCCT	1 cut(s)	262
PfeI	GAWTC	1 cut(s)	419
PkrI	GCNGC	1 cut(s)	232
PspPI	GGNCC	1 cut(s)	116
PsuI	RGATCY	1 cut(s)	699
RsaI	GTAC	2 cut(s)	338, 415
RsaNI	GTAC	2 cut(s)	337, 414
SaqAI	TTAA	4 cut(s)	86, 554, 633, 724
SatI	GCNGC	1 cut(s)	231
Sau3AI	GATC	4 cut(s)	43, 400, 637, 699
Sau96I	GGNCC	1 cut(s)	116
SduI	GDGCHC	1 cut(s)	35
SetI	ASST	5 cut(s)	114, 144, 252, 437, 551
SfaNI	GCATC	2 cut(s)	217, 598
SmlI	CTYRAG	1 cut(s)	96
SmoI	CTYRAG	1 cut(s)	96
Sse9I	AATT	4 cut(s)	74, 211, 275, 555
SseBI	AGGCCT	1 cut(s)	262
SsiI	CCGC	1 cut(s)	187
StuI	AGGCCT	1 cut(s)	262
StyI	CCWWGG	4 cut(s)	112, 351, 435, 522
TaaI	ACNGT	2 cut(s)	50, 269
TasI	AATT	4 cut(s)	74, 211, 275, 555
TatI	WGTACW	1 cut(s)	413
TfiI	GAWTC	1 cut(s)	419
Tru1I	TTAA	4 cut(s)	86, 554, 633, 724
Tru9I	TTAA	4 cut(s)	86, 554, 633, 724
TscAI	CASTG	2 cut(s)	55, 196
TseI	GCWGC	1 cut(s)	230
TspDTI	ATGAA	3 cut(s)	296, 380, 528
TspRI	CASTG	2 cut(s)	55, 196
XapI	RAATTY	1 cut(s)	275
XmiI	GTMKAC	1 cut(s)	183

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