Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0007233

Physical Location & Seq

Genomic Coordinates Reverse (-)

4639154 .. 4643192

Gene Structure 4039 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG025400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGAAAGCTGTTCTTCAAAATCCGCCGTCGTACTACATGGCCCAACAAGCACTTCGGCAACCGAGTTGGAGCTTATTATCAGGAGGCTCCCTTGTTTCATTCACTAGAGGGCATAATTTGGTGCGGCAGAGCTCACGGGTTCAGTCACCTTCACCTTCACGCAATTTAGTTGTTAAGGCAGTTGCTACTCCAAATTCAGCCGTGGAATTACCATTGACTGCAGAAAATGTGGAAAGTGTATTAGATGAAATCCGGCCATATCTCATTTCTGATGGGGGGAATGTGGCATTACATGAAATTGATGGCAATATAGTGCGGTTAAAGCTACAAGGAGCATGTGGATCATGTCCAAGTTCTGTTATGACAATGAAAATGGGTATTGAGCGACGTTTAATGGAAAAAATCCCTGAAATAGTTGCTGTGGAACCAATAGCAGATGAAGAAACAGGCCTTGAGCTGAATGAAGAAAATATAGAGAAGGTAATATTTCAATTGACTATATGA

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

167

Amino Acids

18.25

Weight (kDa)

5.25

Isoelectric Point (pI)

76.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NifU	PF01106	77 - 142	1.2e-27	NifU-like domain

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: 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)
AciI	CCGC	3 cut(s)	23, 124, 316
AclWI	GGATC	1 cut(s)	349
AcoI	YGGCCR	1 cut(s)	254
AcsI	RAATTY	1 cut(s)	193
AfaI	GTAC	1 cut(s)	32
AgsI	TTSAA	2 cut(s)	17, 491
AjuI	GAANNNNNNNTTGG	2 cut(s)	36, 68
AluBI	AGCT	5 cut(s)	8, 72, 132, 325, 457
AluI	AGCT	5 cut(s)	8, 72, 132, 325, 457
Alw21I	GWGCWC	1 cut(s)	134
AlwI	GGATC	1 cut(s)	349
AoxI	GGCC	3 cut(s)	39, 254, 448
ApoI	RAATTY	1 cut(s)	193
AspS9I	GGNCC	1 cut(s)	40
AsuHPI	GGTGA	2 cut(s)	138, 144
BanII	GRGCYC	1 cut(s)	134
Bbv12I	GWGCWC	1 cut(s)	134
BccI	CCATC	2 cut(s)	266, 296
BceAI	ACGGC	2 cut(s)	10, 185
BfaI	CTAG	1 cut(s)	105
BfmI	CTRYAG	1 cut(s)	219
BisI	GCNGC	1 cut(s)	125
BlsI	GCNGC	1 cut(s)	126
BmgT120I	GGNCC	1 cut(s)	40
BmiI	GGNNCC	2 cut(s)	88, 426
BpuEI	CTTGAG	1 cut(s)	473
BsaJI	CCNNGG	1 cut(s)	201
BseDI	CCNNGG	1 cut(s)	201
BshFI	GGCC	3 cut(s)	41, 256, 450
BsiHKAI	GWGCWC	1 cut(s)	134
BsiSI	CCGG	1 cut(s)	253
BsnI	GGCC	3 cut(s)	41, 256, 450
Bsp1286I	GDGCHC	1 cut(s)	134
Bsp143I	GATC	1 cut(s)	341
BspACI	CCGC	3 cut(s)	23, 124, 316
BspANI	GGCC	3 cut(s)	41, 256, 450
BspLI	GGNNCC	2 cut(s)	88, 426
BspMAI	CTGCAG	1 cut(s)	223
BspPI	GGATC	1 cut(s)	349
BssECI	CCNNGG	1 cut(s)	201
BssMI	GATC	1 cut(s)	341
BstDSI	CCRYGG	1 cut(s)	201
BstKTI	GATC	1 cut(s)	344
BstMBI	GATC	1 cut(s)	341
BstMWI	GCNNNNNNNGC	2 cut(s)	47, 322
BstNSI	RCATGY	1 cut(s)	339
BstSFI	CTRYAG	1 cut(s)	219
BsuRI	GGCC	3 cut(s)	41, 256, 450
BtgI	CCRYGG	1 cut(s)	201
Cfr13I	GGNCC	1 cut(s)	40
Csp6I	GTAC	1 cut(s)	31
CviAII	CATG	4 cut(s)	37, 293, 336, 345
CviQI	GTAC	1 cut(s)	31
DpnI	GATC	1 cut(s)	343
DpnII	GATC	1 cut(s)	341
EaeI	YGGCCR	1 cut(s)	254
EciI	GGCGGA	1 cut(s)	12
Ecl136II	GAGCTC	1 cut(s)	132
Eco147I	AGGCCT	1 cut(s)	450
Eco24I	GRGCYC	1 cut(s)	134
Eco53kI	GAGCTC	1 cut(s)	132
EcoICRI	GAGCTC	1 cut(s)	132
EcoT38I	GRGCYC	1 cut(s)	134
FaeI	CATG	4 cut(s)	40, 296, 339, 348
FalI	AAGNNNNNCTT	1 cut(s)	29
FatI	CATG	4 cut(s)	36, 292, 335, 344
Fnu4HI	GCNGC	1 cut(s)	125
FriOI	GRGCYC	1 cut(s)	134
Fsp4HI	GCNGC	1 cut(s)	125
FspBI	CTAG	1 cut(s)	105
GluI	GCNGC	1 cut(s)	125
HaeIII	GGCC	3 cut(s)	41, 256, 450
HapII	CCGG	1 cut(s)	253
Hin1II	CATG	4 cut(s)	40, 296, 339, 348
HpaII	CCGG	1 cut(s)	253
HphI	GGTGA	2 cut(s)	138, 144
Hpy188I	TCNGA	1 cut(s)	271
Hpy188III	TCNNGA	1 cut(s)	81
Hpy99I	CGWCG	2 cut(s)	31, 390
HpyAV	CCTTC	3 cut(s)	159, 165, 472
HpyCH4IV	ACGT	1 cut(s)	388
HpyCH4V	TGCA	1 cut(s)	221
HpyF10VI	GCNNNNNNNGC	2 cut(s)	47, 322
HpySE526I	ACGT	1 cut(s)	388
Hsp92II	CATG	4 cut(s)	40, 296, 339, 348
Kzo9I	GATC	1 cut(s)	341
LmnI	GCTCC	3 cut(s)	69, 92, 332
LpnPI	CCDG	4 cut(s)	66, 266, 420, 432
MaeI	CTAG	1 cut(s)	105
MaeII	ACGT	1 cut(s)	388
MaeIII	GTNAC	1 cut(s)	144
MalI	GATC	1 cut(s)	343
MboI	GATC	1 cut(s)	341
MboII	GAAGA	3 cut(s)	5, 452, 476
MfeI	CAATTG	1 cut(s)	491
MhlI	GDGCHC	1 cut(s)	134
MluCI	AATT	6 cut(s)	115, 163, 193, 206, 297, 491
MmeI	TCCRAC	1 cut(s)	47
MnlI	CCTC	2 cut(s)	77, 101
MseI	TTAA	3 cut(s)	174, 320, 392
MspI	CCGG	1 cut(s)	253
MunI	CAATTG	1 cut(s)	491
MwoI	GCNNNNNNNGC	2 cut(s)	47, 322
NdeII	GATC	1 cut(s)	341
NlaIII	CATG	4 cut(s)	40, 296, 339, 348
NlaIV	GGNNCC	2 cut(s)	88, 426
NmuCI	GTSAC	1 cut(s)	144
NspI	RCATGY	1 cut(s)	339
PceI	AGGCCT	1 cut(s)	450
PkrI	GCNGC	1 cut(s)	126
Psp124BI	GAGCTC	1 cut(s)	134
PspN4I	GGNNCC	2 cut(s)	88, 426
PspPI	GGNCC	1 cut(s)	40
PstI	CTGCAG	1 cut(s)	223
RsaI	GTAC	1 cut(s)	32
RsaNI	GTAC	1 cut(s)	31
SacI	GAGCTC	1 cut(s)	134
SaqAI	TTAA	3 cut(s)	174, 320, 392
SatI	GCNGC	1 cut(s)	125
Sau3AI	GATC	1 cut(s)	341
Sau96I	GGNCC	1 cut(s)	40
SduI	GDGCHC	1 cut(s)	134
SetI	ASST	9 cut(s)	10, 74, 134, 151, 157, 327, 391, 459, 483
SfcI	CTRYAG	1 cut(s)	219
SmlI	CTYRAG	1 cut(s)	452
SmoI	CTYRAG	1 cut(s)	452
Sse9I	AATT	6 cut(s)	115, 163, 193, 206, 297, 491
SseBI	AGGCCT	1 cut(s)	450
SsiI	CCGC	3 cut(s)	23, 124, 316
SspI	AATATT	1 cut(s)	486
SspMI	CTAG	1 cut(s)	105
SstI	GAGCTC	1 cut(s)	134
StuI	AGGCCT	1 cut(s)	450
TaiI	ACGT	1 cut(s)	391
TasI	AATT	6 cut(s)	115, 163, 193, 206, 297, 491
TauI	GCSGC	1 cut(s)	127
Tru1I	TTAA	3 cut(s)	174, 320, 392
Tru9I	TTAA	3 cut(s)	174, 320, 392
TseFI	GTSAC	1 cut(s)	144
Tsp45I	GTSAC	1 cut(s)	144
TspDTI	ATGAA	7 cut(s)	17, 87, 261, 309, 383, 453, 477
XapI	RAATTY	1 cut(s)	193
XceI	RCATGY	1 cut(s)	339
XspI	CTAG	1 cut(s)	105

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