Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002737

Physical Location & Seq

Genomic Coordinates Reverse (-)

45942147 .. 45943503

Gene Structure 1357 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG327000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 441 bp

ATGTTACGGTTTTTTAGCGTCCGGCCGGGGTTGCATGAGTTCTTGAAACAAGTACATGGGTTTGCCGATCTTGTGTTGTTTACTGCTGGACTTGAAGGTTATGCTAGACCACTTGTTGACAGAATAGACGTAGAGAACCTGTTCAGGTTTAGGCGTTATCGGCCTTCAACAACCAGCATGGAATACCGTGAGCATGTCAAGGATCTCTCTGGCCTATCAAAGGATATGGGCCGAATTGTTATTGTTGACAACAACCCTTTCAGTTTCATGTTGCAACCTTTGAATGGAATTCCGTGCATTCCATTTTCTGCTGGGCAAATACATGACACACAGCTCAAGCACCTGTCGCTACAGAAAGACGTGAGACCTGTGCTTTATGAGAGGTTTCACATGCCCGAATGGTTTCAAAAGCAGGGAATCCCCTCAACTAGTTGGAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004721 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019538 GO:0036211 GO:0042578 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NIF

Protein Analysis

146

Amino Acids

17.08

Weight (kDa)

9.41

Isoelectric Point (pI)

25.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	5 - 116	1.3e-29	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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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002737)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G55960
fragaria_vesca	FvH4_6g11400 FvH4_6g11400 FvH4_7g24520
malus_domestica	MD01G1153200.v1.1 MD04G1153700.v1.1 MD07G1222200.v1.1 MD12G1166900.v1.1
prunus_persica	Prupe.2G250400_v2.0.a1 Prupe.6G277800_v2.0.a1
pyrus_communis	pycom01g17080 pycom07g20080 pycom12g15890
rosa_chinensis	RchiOBHm_Chr1g0370271 RchiOBHm_Chr1g0370291 RchiOBHm_Chr3g0463021
rosa_laevigata	RLG00000024816 RLG00000027058 RLG00000027059 RLG00000027062
rosa_multiflora	Rmu_sc0000766.1_g000029 Rmu_sc0001657.1_g000001 Rmu_sc0006707.1_g000006 Rmu_sc0008124.1_g000028
rosa_roxburghii	Rroxscaffold_4G00286680 Rroxscaffold_4G00287340 Rroxscaffold_6G00417040
rosa_rugosa	Rorug01G0355600 Rorug03G0061100 Rorug03G0061200 Rorug03G0061200
rosa_samantha	Rh1AG363900 Rh1BG327000 Rh1BG327100 Rh1DG357400 Rh3AG118800 Rh3DG124700
rosa_wichuraiana	Rw1G032030 Rw3G010090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	210
AcoI	YGGCCR	1 cut(s)	23
AcsI	RAATTY	1 cut(s)	288
AfaI	GTAC	1 cut(s)	54
AfiI	CCNNNNNNNGG	2 cut(s)	220, 284
AgsI	TTSAA	5 cut(s)	46, 95, 168, 283, 407
AhlI	ACTAGT	1 cut(s)	428
AjiI	CACGTC	1 cut(s)	361
AluBI	AGCT	1 cut(s)	334
AluI	AGCT	1 cut(s)	334
Alw26I	GTCTC	1 cut(s)	358
AlwI	GGATC	1 cut(s)	210
AoxI	GGCC	4 cut(s)	23, 161, 211, 229
ApoI	RAATTY	1 cut(s)	288
Asp700I	GAANNNNTTC	2 cut(s)	140, 402
AspS9I	GGNCC	1 cut(s)	229
AsuC2I	CCSGG	1 cut(s)	27
BcnI	CCSGG	1 cut(s)	27
BcoDI	GTCTC	1 cut(s)	358
BcuI	ACTAGT	1 cut(s)	428
BfaI	CTAG	2 cut(s)	105, 429
BfmI	CTRYAG	1 cut(s)	350
Bme1390I	CCNGG	1 cut(s)	27
BmgBI	CACGTC	1 cut(s)	361
BmgT120I	GGNCC	1 cut(s)	229
BmrFI	CCNGG	1 cut(s)	27
BpuEI	CTTGAG	1 cut(s)	320
BpuMI	CCSGG	1 cut(s)	27
BsaI	GGTCTC	1 cut(s)	358
BsaJI	CCNNGG	1 cut(s)	26
Bsc4I	CCNNNNNNNGG	2 cut(s)	220, 284
BseDI	CCNNGG	1 cut(s)	26
BseLI	CCNNNNNNNGG	2 cut(s)	220, 284
BseX3I	CGGCCG	1 cut(s)	23
BseYI	CCCAGC	1 cut(s)	311
Bsh1285I	CGRYCG	1 cut(s)	26
BshFI	GGCC	4 cut(s)	25, 163, 213, 231
BsiEI	CGRYCG	1 cut(s)	26
BsiSI	CCGG	2 cut(s)	22, 26
BslI	CCNNNNNNNGG	2 cut(s)	220, 284
BsmAI	GTCTC	1 cut(s)	358
BsmI	GAATGC	1 cut(s)	297
BsnI	GGCC	4 cut(s)	25, 163, 213, 231
Bso31I	GGTCTC	1 cut(s)	358
Bsp143I	GATC	2 cut(s)	67, 202
BspANI	GGCC	4 cut(s)	25, 163, 213, 231
BspPI	GGATC	1 cut(s)	210
BspTNI	GGTCTC	1 cut(s)	358
BssECI	CCNNGG	1 cut(s)	26
BssMI	GATC	2 cut(s)	67, 202
Bst4CI	ACNGT	2 cut(s)	9, 188
BstENI	CCTNNNNNAGG	1 cut(s)	218
BstKTI	GATC	2 cut(s)	70, 205
BstMAI	GTCTC	1 cut(s)	358
BstMBI	GATC	2 cut(s)	67, 202
BstMCI	CGRYCG	1 cut(s)	26
BstMWI	GCNNNNNNNGC	3 cut(s)	31, 160, 346
BstNSI	RCATGY	2 cut(s)	197, 394
BstSCI	CCNGG	1 cut(s)	25
BstSFI	CTRYAG	1 cut(s)	350
BstX2I	RGATCY	1 cut(s)	202
BstYI	RGATCY	1 cut(s)	202
BstZI	CGGCCG	1 cut(s)	23
BsuRI	GGCC	4 cut(s)	25, 163, 213, 231
BtrI	CACGTC	1 cut(s)	361
Cfr13I	GGNCC	1 cut(s)	229
CseI	GACGC	1 cut(s)	7
Csp6I	GTAC	1 cut(s)	53
CviAII	CATG	7 cut(s)	35, 56, 178, 194, 268, 323, 391
CviJI	RGCY	5 cut(s)	25, 163, 213, 231, 334
CviKI_1	RGCY	5 cut(s)	25, 163, 213, 231, 334
CviQI	GTAC	1 cut(s)	53
DpnI	GATC	2 cut(s)	69, 204
DpnII	GATC	2 cut(s)	67, 202
EaeI	YGGCCR	1 cut(s)	23
EagI	CGGCCG	1 cut(s)	23
EclXI	CGGCCG	1 cut(s)	23
Eco31I	GGTCTC	1 cut(s)	358
Eco52I	CGGCCG	1 cut(s)	23
EcoNI	CCTNNNNNAGG	1 cut(s)	218
EcoRI	GAATTC	1 cut(s)	288
FaeI	CATG	7 cut(s)	38, 59, 181, 197, 271, 326, 394
FatI	CATG	7 cut(s)	34, 55, 177, 193, 267, 322, 390
FspBI	CTAG	2 cut(s)	105, 429
GsaI	CCCAGC	1 cut(s)	315
HaeIII	GGCC	4 cut(s)	25, 163, 213, 231
HapII	CCGG	2 cut(s)	22, 26
HgaI	GACGC	1 cut(s)	7
Hin1II	CATG	7 cut(s)	38, 59, 181, 197, 271, 326, 394
HincII	GTYRAC	2 cut(s)	118, 247
HindII	GTYRAC	2 cut(s)	118, 247
HinfI	GANTC	1 cut(s)	417
HpaII	CCGG	2 cut(s)	22, 26
Hpy166II	GTNNAC	3 cut(s)	81, 118, 247
Hpy188III	TCNNGA	1 cut(s)	43
Hpy8I	GTNNAC	3 cut(s)	81, 118, 247
HpyAV	CCTTC	2 cut(s)	89, 174
HpyCH4III	ACNGT	2 cut(s)	9, 188
HpyCH4IV	ACGT	2 cut(s)	129, 360
HpyCH4V	TGCA	3 cut(s)	34, 274, 297
HpyF10VI	GCNNNNNNNGC	3 cut(s)	31, 160, 346
HpySE526I	ACGT	2 cut(s)	129, 360
Hsp92II	CATG	7 cut(s)	38, 59, 181, 197, 271, 326, 394
Kzo9I	GATC	2 cut(s)	67, 202
MaeI	CTAG	2 cut(s)	105, 429
MaeII	ACGT	2 cut(s)	129, 360
MaeIII	GTNAC	1 cut(s)	3
MalI	GATC	2 cut(s)	69, 204
MboI	GATC	2 cut(s)	67, 202
MflI	RGATCY	1 cut(s)	202
MluCI	AATT	2 cut(s)	234, 288
MmeI	TCCRAC	1 cut(s)	413
MnlI	CCTC	2 cut(s)	375, 433
MroXI	GAANNNNTTC	2 cut(s)	140, 402
MspI	CCGG	2 cut(s)	22, 26
MspR9I	CCNGG	1 cut(s)	27
Mva1269I	GAATGC	1 cut(s)	297
MwoI	GCNNNNNNNGC	3 cut(s)	31, 160, 346
NciI	CCSGG	1 cut(s)	27
NdeII	GATC	2 cut(s)	67, 202
NlaIII	CATG	7 cut(s)	38, 59, 181, 197, 271, 326, 394
NspI	RCATGY	2 cut(s)	197, 394
PctI	GAATGC	1 cut(s)	297
PdmI	GAANNNNTTC	2 cut(s)	140, 402
PfeI	GAWTC	1 cut(s)	417
PspFI	CCCAGC	1 cut(s)	311
PspPI	GGNCC	1 cut(s)	229
PsuI	RGATCY	1 cut(s)	202
RsaI	GTAC	1 cut(s)	54
RsaNI	GTAC	1 cut(s)	53
Sau3AI	GATC	2 cut(s)	67, 202
Sau96I	GGNCC	1 cut(s)	229
ScrFI	CCNGG	1 cut(s)	27
SfcI	CTRYAG	1 cut(s)	350
SmlI	CTYRAG	1 cut(s)	335
SmoI	CTYRAG	1 cut(s)	335
SpeI	ACTAGT	1 cut(s)	428
Sse9I	AATT	2 cut(s)	234, 288
SspMI	CTAG	2 cut(s)	105, 429
StyD4I	CCNGG	1 cut(s)	25
TaaI	ACNGT	2 cut(s)	9, 188
TaiI	ACGT	2 cut(s)	132, 363
TasI	AATT	2 cut(s)	234, 288
TatI	WGTACW	1 cut(s)	52
TfiI	GAWTC	1 cut(s)	417
TspDTI	ATGAA	1 cut(s)	256
TspGWI	ACGGA	1 cut(s)	282
XagI	CCTNNNNNAGG	1 cut(s)	218
XapI	RAATTY	1 cut(s)	288
XceI	RCATGY	2 cut(s)	197, 394
XmnI	GAANNNNTTC	2 cut(s)	140, 402
XspI	CTAG	2 cut(s)	105, 429

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