Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0007233

Physical Location & Seq

Genomic Coordinates Reverse (-)

3028467 .. 3030743

Gene Structure 2277 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G001770.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 669 bp

ATGAAAGCTATCCTTCAAAATCCACCATCGTACTACATGGCCCAACAAGCACTTCAGCAACCGAGTTGGAGCTTATTATCAGGAGGCTCCCTTGTTTCATTCACTAGAGGGCATAATTTGGTGCGTCAGAGCTCGCGGCTTCAATTACCTTCACCTTCACGCAATCCAGTTGTTAAGGCGGTTGCTACTCCAAATTCAGCCGTGGAATTACCATTGACAGCAGAAAATGTAGAAAGCGTATTAGATGAAATCCGGCCATATCTTATTTCTGATGGGGGGAATGTGGCGTTACATGAAATTGATGGAAATATAGTGCGGTTAAAGCTACAAGGAGCATGTGGATCGTGTCCGAGCTCTGTTATGACAATGAAAATGGGTATTGAGCGTCGTTTAATGGAAAAAATCCCTGAAATAGTTGCTGTGGAACCAATAGCAGATGAAGAAACAGGCCTTGAGCTAAATGAAGAAAATATAGAGAAGGTACTTGAAGAAATTAGACCCTACTTAGTAGGGGCAGCAGGTGGATCTCTAGAACTTGTGGCAATCGATGAGCCTATAGTCAAAGTCCGGATCACTGGTCCTGCTGCCGGGGTGATGACTGTTAGAGTTGCTGTCACACAGAAATTGCGTGAGAAAATCCCCACCATCGCAGCAGTTCAATTACTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0006790 GO:0006950 GO:0006952 GO:0006996 GO:0008150 GO:0008152 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009658 GO:0009987 GO:0016020 GO:0016043 GO:0016226 GO:0022607 GO:0031163 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044237 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051186 GO:0071840 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NifU

Protein Analysis

222

Amino Acids

23.97

Weight (kDa)

5.37

Isoelectric Point (pI)

63.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NifU	PF01106	77 - 142	2.2e-27	NifU-like domain
NifU	PF01106	158 - 219	4.5e-12	NifU-like 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: OG0007233)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G49940 AT5G49940
fragaria_vesca	FvH4_7g01380 FvH4_7g01380 FvH4_7g01380 FvH4_7g01380 FvH4_7g01380
malus_domestica	MD08G1240400.v1.1 MD15G1433600.v1.1
prunus_persica	Prupe.1G577000_v2.0.a1
pyrus_communis	pycom08g20850 pycom15g38280
rosa_chinensis	RchiOBHm_Chr1g0317081
rosa_laevigata	RLG00000030628
rosa_multiflora	Rmu_co8218640.1_g000001 Rmu_sc0003689.1_g000019
rosa_roxburghii	Rroxscaffold_4G00330680
rosa_rugosa	Rorug01G0014300 Rorug01G0014400 Rorug01G0014500 Rorug01G0014600
rosa_samantha	Rh1AG025400 Rh1CG023800 Rh1DG022600
rosa_wichuraiana	Rw1G001770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	509
Acc36I	ACCTGC	1 cut(s)	509
AccII	CGCG	1 cut(s)	136
AccIII	TCCGGA	1 cut(s)	567
AciI	CCGC	3 cut(s)	136, 179, 316
AclWI	GGATC	3 cut(s)	349, 532, 578
AcoI	YGGCCR	1 cut(s)	254
AcsI	RAATTY	1 cut(s)	193
AcuI	CTGAAG	1 cut(s)	38
AfaI	GTAC	2 cut(s)	32, 483
AfiI	CCNNNNNNNGG	1 cut(s)	587
AgsI	TTSAA	4 cut(s)	17, 143, 488, 659
AjuI	GAANNNNNNNTTGG	2 cut(s)	36, 68
AluBI	AGCT	6 cut(s)	8, 72, 132, 325, 354, 457
AluI	AGCT	6 cut(s)	8, 72, 132, 325, 354, 457
Alw21I	GWGCWC	2 cut(s)	134, 356
AlwI	GGATC	3 cut(s)	349, 532, 578
Aor13HI	TCCGGA	1 cut(s)	567
AoxI	GGCC	3 cut(s)	39, 254, 448
ApeKI	GCWGC	3 cut(s)	515, 584, 650
ApoI	RAATTY	1 cut(s)	193
AspS9I	GGNCC	2 cut(s)	40, 578
AsuC2I	CCSGG	1 cut(s)	589
AsuHPI	GGTGA	2 cut(s)	144, 604
AvaII	GGWCC	1 cut(s)	578
BanII	GRGCYC	2 cut(s)	134, 356
Bbv12I	GWGCWC	2 cut(s)	134, 356
BbvI	GCAGC	3 cut(s)	527, 571, 662
BccI	CCATC	4 cut(s)	34, 266, 296, 653
BceAI	ACGGC	1 cut(s)	185
BcgI	CGANNNNNNTGC	2 cut(s)	324, 358
BcnI	CCSGG	1 cut(s)	589
BfaI	CTAG	2 cut(s)	105, 530
BfmI	CTRYAG	1 cut(s)	555
BfuAI	ACCTGC	1 cut(s)	509
BisI	GCNGC	4 cut(s)	137, 516, 585, 651
BlsI	GCNGC	4 cut(s)	138, 517, 586, 652
Bme1390I	CCNGG	1 cut(s)	589
Bme18I	GGWCC	1 cut(s)	578
BmgT120I	GGNCC	2 cut(s)	40, 578
BmiI	GGNNCC	2 cut(s)	88, 426
BmrFI	CCNGG	1 cut(s)	589
BpuEI	CTTGAG	1 cut(s)	473
BpuMI	CCSGG	1 cut(s)	589
Bsa29I	ATCGAT	1 cut(s)	546
BsaJI	CCNNGG	2 cut(s)	201, 588
BsaWI	WCCGGW	1 cut(s)	567
Bsc4I	CCNNNNNNNGG	1 cut(s)	587
Bse1I	ACTGG	2 cut(s)	167, 580
BseAI	TCCGGA	1 cut(s)	567
BseCI	ATCGAT	1 cut(s)	546
BseDI	CCNNGG	2 cut(s)	201, 588
BseLI	CCNNNNNNNGG	1 cut(s)	587
BseNI	ACTGG	2 cut(s)	167, 580
BseXI	GCAGC	3 cut(s)	527, 571, 662
Bsh1236I	CGCG	1 cut(s)	136
BshFI	GGCC	3 cut(s)	41, 256, 450
BshVI	ATCGAT	1 cut(s)	546
BsiHKAI	GWGCWC	2 cut(s)	134, 356
BsiSI	CCGG	3 cut(s)	253, 568, 588
BslI	CCNNNNNNNGG	1 cut(s)	587
BsnI	GGCC	3 cut(s)	41, 256, 450
Bsp1286I	GDGCHC	2 cut(s)	134, 356
Bsp13I	TCCGGA	1 cut(s)	567
Bsp143I	GATC	3 cut(s)	341, 524, 570
BspACI	CCGC	3 cut(s)	136, 179, 316
BspANI	GGCC	3 cut(s)	41, 256, 450
BspDI	ATCGAT	1 cut(s)	546
BspEI	TCCGGA	1 cut(s)	567
BspFNI	CGCG	1 cut(s)	136
BspLI	GGNNCC	2 cut(s)	88, 426
BspMI	ACCTGC	1 cut(s)	509
BspPI	GGATC	3 cut(s)	349, 532, 578
BsrI	ACTGG	2 cut(s)	167, 580
BssECI	CCNNGG	2 cut(s)	201, 588
BssMI	GATC	3 cut(s)	341, 524, 570
Bst4CI	ACNGT	2 cut(s)	601, 666
BstC8I	GCNNGC	1 cut(s)	134
BstDEI	CTNAG	1 cut(s)	505
BstDSI	CCRYGG	1 cut(s)	201
BstFNI	CGCG	1 cut(s)	136
BstKTI	GATC	3 cut(s)	344, 527, 573
BstMBI	GATC	3 cut(s)	341, 524, 570
BstMWI	GCNNNNNNNGC	2 cut(s)	47, 322
BstNSI	RCATGY	1 cut(s)	339
BstSCI	CCNGG	1 cut(s)	587
BstSFI	CTRYAG	1 cut(s)	555
BstUI	CGCG	1 cut(s)	136
BstV1I	GCAGC	3 cut(s)	527, 571, 662
BstX2I	RGATCY	1 cut(s)	524
BstYI	RGATCY	1 cut(s)	524
Bsu15I	ATCGAT	1 cut(s)	546
BsuRI	GGCC	3 cut(s)	41, 256, 450
BsuTUI	ATCGAT	1 cut(s)	546
BtgI	CCRYGG	1 cut(s)	201
BtgZI	GCGATG	1 cut(s)	631
BtsIMutI	CAGTG	1 cut(s)	573
BveI	ACCTGC	1 cut(s)	509
Cac8I	GCNNGC	1 cut(s)	134
Cfr13I	GGNCC	2 cut(s)	40, 578
ClaI	ATCGAT	1 cut(s)	546
CseI	GACGC	2 cut(s)	113, 374
Csp6I	GTAC	2 cut(s)	31, 482
CviAII	CATG	3 cut(s)	37, 293, 336
CviQI	GTAC	2 cut(s)	31, 482
DdeI	CTNAG	1 cut(s)	505
DpnI	GATC	3 cut(s)	343, 526, 572
DpnII	GATC	3 cut(s)	341, 524, 570
EaeI	YGGCCR	1 cut(s)	254
Ecl136II	GAGCTC	2 cut(s)	132, 354
Eco147I	AGGCCT	1 cut(s)	450
Eco24I	GRGCYC	2 cut(s)	134, 356
Eco47I	GGWCC	1 cut(s)	578
Eco53kI	GAGCTC	2 cut(s)	132, 354
Eco57I	CTGAAG	1 cut(s)	38
EcoICRI	GAGCTC	2 cut(s)	132, 354
EcoT38I	GRGCYC	2 cut(s)	134, 356
FaeI	CATG	3 cut(s)	40, 296, 339
FaiI	YATR	9 cut(s)	38, 114, 259, 294, 311, 337, 362, 473, 557
FalI	AAGNNNNNCTT	1 cut(s)	29
FatI	CATG	3 cut(s)	36, 292, 335
Fnu4HI	GCNGC	4 cut(s)	137, 516, 585, 651
FriOI	GRGCYC	2 cut(s)	134, 356
Fsp4HI	GCNGC	4 cut(s)	137, 516, 585, 651
FspBI	CTAG	2 cut(s)	105, 530
GluI	GCNGC	4 cut(s)	137, 516, 585, 651
HaeIII	GGCC	3 cut(s)	41, 256, 450
HapII	CCGG	3 cut(s)	253, 568, 588
HgaI	GACGC	2 cut(s)	113, 374
Hin1II	CATG	3 cut(s)	40, 296, 339
HpaII	CCGG	3 cut(s)	253, 568, 588
HphI	GGTGA	2 cut(s)	144, 604
Hpy188I	TCNGA	3 cut(s)	129, 271, 351
Hpy188III	TCNNGA	3 cut(s)	81, 530, 568
Hpy99I	CGWCG	1 cut(s)	390
HpyAV	CCTTC	4 cut(s)	23, 159, 165, 472
HpyCH4III	ACNGT	2 cut(s)	601, 666
HpyF10VI	GCNNNNNNNGC	2 cut(s)	47, 322
HpyF3I	CTNAG	1 cut(s)	505
Hsp92II	CATG	3 cut(s)	40, 296, 339
Kpn2I	TCCGGA	1 cut(s)	567
Kzo9I	GATC	3 cut(s)	341, 524, 570
LmnI	GCTCC	3 cut(s)	69, 92, 332
Lsp1109I	GCAGC	3 cut(s)	527, 571, 662
MaeI	CTAG	2 cut(s)	105, 530
MaeIII	GTNAC	2 cut(s)	288, 613
MalI	GATC	3 cut(s)	343, 526, 572
MboI	GATC	3 cut(s)	341, 524, 570
MboII	GAAGA	3 cut(s)	452, 476, 500
MflI	RGATCY	1 cut(s)	524
MhlI	GDGCHC	2 cut(s)	134, 356
MluCI	AATT	8 cut(s)	115, 143, 193, 206, 297, 492, 623, 659
MmeI	TCCRAC	1 cut(s)	47
MnlI	CCTC	2 cut(s)	77, 101
MroI	TCCGGA	1 cut(s)	567
MseI	TTAA	3 cut(s)	174, 320, 392
MspI	CCGG	3 cut(s)	253, 568, 588
MspR9I	CCNGG	1 cut(s)	589
MvnI	CGCG	1 cut(s)	136
MwoI	GCNNNNNNNGC	2 cut(s)	47, 322
NciI	CCSGG	1 cut(s)	589
NdeII	GATC	3 cut(s)	341, 524, 570
NlaIII	CATG	3 cut(s)	40, 296, 339
NlaIV	GGNNCC	2 cut(s)	88, 426
NmuCI	GTSAC	1 cut(s)	613
NspI	RCATGY	1 cut(s)	339
PaqCI	CACCTGC	1 cut(s)	509
PceI	AGGCCT	1 cut(s)	450
PkrI	GCNGC	4 cut(s)	138, 517, 586, 652
Psp124BI	GAGCTC	2 cut(s)	134, 356
PspN4I	GGNNCC	2 cut(s)	88, 426
PspPI	GGNCC	2 cut(s)	40, 578
PsuI	RGATCY	1 cut(s)	524
RsaI	GTAC	2 cut(s)	32, 483
RsaNI	GTAC	2 cut(s)	31, 482
SacI	GAGCTC	2 cut(s)	134, 356
SaqAI	TTAA	3 cut(s)	174, 320, 392
SatI	GCNGC	4 cut(s)	137, 516, 585, 651
Sau3AI	GATC	3 cut(s)	341, 524, 570
Sau96I	GGNCC	2 cut(s)	40, 578
ScrFI	CCNGG	1 cut(s)	589
SduI	GDGCHC	2 cut(s)	134, 356
SfcI	CTRYAG	1 cut(s)	555
SinI	GGWCC	1 cut(s)	578
SmlI	CTYRAG	1 cut(s)	452
SmoI	CTYRAG	1 cut(s)	452
Sse9I	AATT	8 cut(s)	115, 143, 193, 206, 297, 492, 623, 659
SseBI	AGGCCT	1 cut(s)	450
SsiI	CCGC	3 cut(s)	136, 179, 316
SspMI	CTAG	2 cut(s)	105, 530
SstI	GAGCTC	2 cut(s)	134, 356
StuI	AGGCCT	1 cut(s)	450
StyD4I	CCNGG	1 cut(s)	587
TaaI	ACNGT	2 cut(s)	601, 666
TaqI	TCGA	1 cut(s)	546
TasI	AATT	8 cut(s)	115, 143, 193, 206, 297, 492, 623, 659
TauI	GCSGC	1 cut(s)	139
Tru1I	TTAA	3 cut(s)	174, 320, 392
Tru9I	TTAA	3 cut(s)	174, 320, 392
TscAI	CASTG	1 cut(s)	580
TseFI	GTSAC	1 cut(s)	613
TseI	GCWGC	3 cut(s)	515, 584, 650
Tsp45I	GTSAC	1 cut(s)	613
TspDTI	ATGAA	7 cut(s)	17, 87, 261, 309, 383, 453, 477
TspRI	CASTG	1 cut(s)	580
VpaK11BI	GGWCC	1 cut(s)	578
XapI	RAATTY	1 cut(s)	193
XbaI	TCTAGA	1 cut(s)	529
XceI	RCATGY	1 cut(s)	339
XspI	CTAG	2 cut(s)	105, 530

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