Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002737

Physical Location & Seq

Genomic Coordinates Reverse (-)

45978389 .. 45980388

Gene Structure 2000 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG327100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGGCCGAGTTGACTCAGAACGAGGTGGCTTACTCGCCCAAGACTATGCAAGTGTGGAAGGCTTTGCTGAATTGGCTGGGTTTCTTCTTCCAGATCTTCGTCCAAATCGTCAGCTCTCTCGGCCACCATCCCTTACTCTCTTCTTCTTCTTCATCCTCATCCTCTTCTTCCAACGCTTCCTTCAAATCCTTGCCGGCTGTCGAGTTGCAGGAGCACGACTCTTCCGCCGCCGTATCCGCCGTTGAAATCGATACTCCCGATTCTGACTCCGACGATCCTCCCCAGAAGCTAACGGTGGTTCTTGACCTGGATGAGACGCTAATATGTGCATATGAGTCGGCGAGCTTGCCCGGGATAGTTCGGACGCAAGCGACAGAAGGTGGGTTGAAGTGGTTTGAGCTCGAGTGTATTTCTTCGGACAAGGAATGTGATGGGAAACCGAAGGTGAATTATGTTACGGTTTTTGAGCGTCCGGGCCTGCATGAGTTCTTGAAACAAGTTCATGGGTTTGCCGATCTTGTGTTGTTTACTGCTGGACTTGAAGGTTATGCTAGACCACTAGTTGACAGAATAGACGTAGAGAACCTGTTCAGTTTTAGGCTTTATCGGCCTTCAACAACCAGCACGGAATACCGTGAGCATGTCAAGGATCTCTCTGGCCTATCAAAGGATATGGGCCGAATTGTTATTGTTGACAACAACCCTTTCAGTTTCATGTTGCAACCTTTGAATGGAATTCCGTGCATTCCATTTTCTGCTGGGCAAATACATGACACACAGCTTTTGGATGTTCTTCTTCCACTGCTCAAGCACCTATTGCTACAGAAAGACGTGAGACCTGCGCTTTATGAGAGGTTTCACATGCCCGAATGGTTTCAAAAGCAGGGAATCCCCTCAACTAGTTGGAAATAG

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

303

Amino Acids

33.89

Weight (kDa)

5.1

Isoelectric Point (pI)

33.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	97 - 279	5.5e-39	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)

Image

Tree File

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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)
Acc36I	ACCTGC	1 cut(s)	847
AciI	CCGC	3 cut(s)	225, 228, 237
AclWI	GGATC	2 cut(s)	269, 657
AcoI	YGGCCR	2 cut(s)	3, 121
AcsI	RAATTY	1 cut(s)	735
AfiI	CCNNNNNNNGG	2 cut(s)	667, 731
AgsI	TTSAA	8 cut(s)	184, 245, 388, 493, 542, 615, 730, 878
AhlI	ACTAGT	2 cut(s)	559, 899
AjiI	CACGTC	1 cut(s)	832
AjnI	CCWGG	1 cut(s)	306
AjuI	GAANNNNNNNTTGG	2 cut(s)	164, 196
AluBI	AGCT	5 cut(s)	114, 289, 345, 400, 781
AluI	AGCT	5 cut(s)	114, 289, 345, 400, 781
Alw21I	GWGCWC	2 cut(s)	216, 402
Alw26I	GTCTC	2 cut(s)	308, 829
AlwI	GGATC	2 cut(s)	269, 657
Ama87I	CYCGRG	2 cut(s)	350, 401
AoxI	GGCC	6 cut(s)	3, 121, 475, 608, 658, 676
ApoI	RAATTY	1 cut(s)	735
Asp700I	GAANNNNTTC	2 cut(s)	587, 873
AspLEI	GCGC	1 cut(s)	844
AspS9I	GGNCC	2 cut(s)	475, 676
AsuC2I	CCSGG	3 cut(s)	351, 352, 474
AsuHPI	GGTGA	1 cut(s)	457
AvaI	CYCGRG	2 cut(s)	350, 401
BanII	GRGCYC	1 cut(s)	402
Bbv12I	GWGCWC	2 cut(s)	216, 402
BccI	CCATC	2 cut(s)	135, 425
BceAI	ACGGC	2 cut(s)	215, 224
BcgI	CGANNNNNNTGC	2 cut(s)	318, 352
BciT130I	CCWGG	1 cut(s)	308
BciVI	GTATCC	1 cut(s)	244
BcnI	CCSGG	3 cut(s)	351, 352, 474
BcoDI	GTCTC	2 cut(s)	308, 829
BcuI	ACTAGT	2 cut(s)	559, 899
BfaI	CTAG	3 cut(s)	552, 560, 900
BfmI	CTRYAG	1 cut(s)	821
BfuAI	ACCTGC	1 cut(s)	847
BfuI	GTATCC	1 cut(s)	244
BglII	AGATCT	1 cut(s)	93
BisI	GCNGC	1 cut(s)	228
BlsI	GCNGC	1 cut(s)	229
Bme1390I	CCNGG	4 cut(s)	308, 351, 352, 474
BmeT110I	CYCGRG	2 cut(s)	350, 401
BmgBI	CACGTC	1 cut(s)	832
BmgT120I	GGNCC	2 cut(s)	475, 676
BmrFI	CCNGG	4 cut(s)	308, 351, 352, 474
BplI	GAGNNNNNCTC	2 cut(s)	203, 235
BpuEI	CTTGAG	1 cut(s)	791
BpuMI	CCSGG	3 cut(s)	351, 352, 474
Bsa29I	ATCGAT	1 cut(s)	249
BsaI	GGTCTC	1 cut(s)	829
BsaJI	CCNNGG	1 cut(s)	350
Bsc4I	CCNNNNNNNGG	2 cut(s)	667, 731
Bse118I	RCCGGY	1 cut(s)	193
BseBI	CCWGG	1 cut(s)	308
BseCI	ATCGAT	1 cut(s)	249
BseDI	CCNNGG	1 cut(s)	350
BseGI	GGATG	5 cut(s)	127, 152, 158, 316, 793
BseLI	CCNNNNNNNGG	2 cut(s)	667, 731
BseMII	CTCAG	1 cut(s)	29
BseYI	CCCAGC	2 cut(s)	76, 758
BshFI	GGCC	6 cut(s)	5, 123, 477, 610, 660, 678
BshVI	ATCGAT	1 cut(s)	249
BsiHKAI	GWGCWC	2 cut(s)	216, 402
BsiHKCI	CYCGRG	2 cut(s)	350, 401
BsiSI	CCGG	3 cut(s)	194, 351, 473
BslI	CCNNNNNNNGG	2 cut(s)	667, 731
BsmAI	GTCTC	2 cut(s)	308, 829
BsmBI	CGTCTC	1 cut(s)	308
BsmI	GAATGC	1 cut(s)	744
BsnI	GGCC	6 cut(s)	5, 123, 477, 610, 660, 678
Bso31I	GGTCTC	1 cut(s)	829
BsoBI	CYCGRG	2 cut(s)	350, 401
Bsp1286I	GDGCHC	2 cut(s)	216, 402
Bsp143I	GATC	4 cut(s)	93, 274, 514, 649
BspACI	CCGC	3 cut(s)	225, 228, 237
BspANI	GGCC	6 cut(s)	5, 123, 477, 610, 660, 678
BspCNI	CTCAG	1 cut(s)	28
BspDI	ATCGAT	1 cut(s)	249
BspMI	ACCTGC	1 cut(s)	847
BspPI	GGATC	2 cut(s)	269, 657
BspTNI	GGTCTC	1 cut(s)	829
BsrFI	RCCGGY	1 cut(s)	193
BssAI	RCCGGY	1 cut(s)	193
BssECI	CCNNGG	1 cut(s)	350
BssMI	GATC	4 cut(s)	93, 274, 514, 649
Bst2UI	CCWGG	1 cut(s)	308
Bst4CI	ACNGT	3 cut(s)	295, 460, 635
Bst6I	CTCTTC	3 cut(s)	145, 169, 226
BstAPI	GCANNNNNTGC	1 cut(s)	817
BstC8I	GCNNGC	5 cut(s)	195, 343, 347, 369, 479
BstDEI	CTNAG	1 cut(s)	15
BstENI	CCTNNNNNAGG	1 cut(s)	665
BstF5I	GGATG	5 cut(s)	127, 152, 158, 316, 793
BstHHI	GCGC	1 cut(s)	844
BstKTI	GATC	4 cut(s)	96, 277, 517, 652
BstMAI	GTCTC	2 cut(s)	308, 829
BstMBI	GATC	4 cut(s)	93, 274, 514, 649
BstMWI	GCNNNNNNNGC	5 cut(s)	73, 120, 236, 607, 817
BstNI	CCWGG	1 cut(s)	308
BstNSI	RCATGY	2 cut(s)	644, 865
BstSCI	CCNGG	4 cut(s)	306, 349, 350, 472
BstSFI	CTRYAG	1 cut(s)	821
BstX2I	RGATCY	2 cut(s)	93, 649
BstYI	RGATCY	2 cut(s)	93, 649
Bsu15I	ATCGAT	1 cut(s)	249
BsuI	GTATCC	1 cut(s)	244
BsuRI	GGCC	6 cut(s)	5, 123, 477, 610, 660, 678
BsuTUI	ATCGAT	1 cut(s)	249
BtrI	CACGTC	1 cut(s)	832
BtsCI	GGATG	5 cut(s)	127, 152, 158, 316, 793
BtsI	GCAGTG	1 cut(s)	800
BtsIMutI	CAGTG	1 cut(s)	800
BveI	ACCTGC	1 cut(s)	847
Cac8I	GCNNGC	5 cut(s)	195, 343, 347, 369, 479
CfoI	GCGC	1 cut(s)	844
Cfr10I	RCCGGY	1 cut(s)	193
Cfr13I	GGNCC	2 cut(s)	475, 676
Cfr9I	CCCGGG	1 cut(s)	350
ClaI	ATCGAT	1 cut(s)	249
CseI	GACGC	3 cut(s)	325, 373, 458
CviAII	CATG	6 cut(s)	482, 503, 641, 715, 770, 862
DdeI	CTNAG	1 cut(s)	15
DpnI	GATC	4 cut(s)	95, 276, 516, 651
DpnII	GATC	4 cut(s)	93, 274, 514, 649
EaeI	YGGCCR	2 cut(s)	3, 121
Eam1104I	CTCTTC	3 cut(s)	145, 169, 226
EarI	CTCTTC	3 cut(s)	145, 169, 226
EciI	GGCGGA	2 cut(s)	214, 226
Ecl136II	GAGCTC	1 cut(s)	400
Eco24I	GRGCYC	1 cut(s)	402
Eco31I	GGTCTC	1 cut(s)	829
Eco53kI	GAGCTC	1 cut(s)	400
Eco88I	CYCGRG	2 cut(s)	350, 401
EcoICRI	GAGCTC	1 cut(s)	400
EcoNI	CCTNNNNNAGG	1 cut(s)	665
EcoRI	GAATTC	1 cut(s)	735
EcoRII	CCWGG	1 cut(s)	306
EcoT38I	GRGCYC	1 cut(s)	402
Esp3I	CGTCTC	1 cut(s)	308
FaeI	CATG	6 cut(s)	485, 506, 644, 718, 773, 865
FatI	CATG	6 cut(s)	481, 502, 640, 714, 769, 861
FauNDI	CATATG	1 cut(s)	331
Fnu4HI	GCNGC	1 cut(s)	228
FokI	GGATG	5 cut(s)	114, 139, 145, 323, 800
FriOI	GRGCYC	1 cut(s)	402
Fsp4HI	GCNGC	1 cut(s)	228
FspBI	CTAG	3 cut(s)	552, 560, 900
GlaI	GCGC	1 cut(s)	843
GluI	GCNGC	1 cut(s)	228
GsaI	CCCAGC	2 cut(s)	80, 762
HaeIII	GGCC	6 cut(s)	5, 123, 477, 610, 660, 678
HapII	CCGG	3 cut(s)	194, 351, 473
HgaI	GACGC	3 cut(s)	325, 373, 458
HhaI	GCGC	1 cut(s)	844
Hin1II	CATG	6 cut(s)	485, 506, 644, 718, 773, 865
Hin6I	GCGC	1 cut(s)	842
HinP1I	GCGC	1 cut(s)	842
HincII	GTYRAC	3 cut(s)	12, 565, 694
HindII	GTYRAC	3 cut(s)	12, 565, 694
HinfI	GANTC	6 cut(s)	13, 218, 260, 266, 335, 888
HpaII	CCGG	3 cut(s)	194, 351, 473
HphI	GGTGA	1 cut(s)	457
Hpy166II	GTNNAC	4 cut(s)	12, 528, 565, 694
Hpy188I	TCNGA	5 cut(s)	18, 265, 271, 363, 418
Hpy188III	TCNNGA	4 cut(s)	91, 257, 302, 490
Hpy8I	GTNNAC	4 cut(s)	12, 528, 565, 694
Hpy99I	CGWCG	1 cut(s)	275
HpyAV	CCTTC	6 cut(s)	52, 190, 371, 436, 536, 621
HpyCH4III	ACNGT	3 cut(s)	295, 460, 635
HpyCH4IV	ACGT	2 cut(s)	576, 831
HpyCH4V	TGCA	6 cut(s)	49, 208, 329, 481, 721, 744
HpyF10VI	GCNNNNNNNGC	5 cut(s)	73, 120, 236, 607, 817
HpyF3I	CTNAG	1 cut(s)	15
HpySE526I	ACGT	2 cut(s)	576, 831
Hsp92II	CATG	6 cut(s)	485, 506, 644, 718, 773, 865
HspAI	GCGC	1 cut(s)	842
KroI	GCCGGC	1 cut(s)	193
KroNI	GCCGGC	1 cut(s)	195
Kzo9I	GATC	4 cut(s)	93, 274, 514, 649
LmnI	GCTCC	1 cut(s)	211
MaeI	CTAG	3 cut(s)	552, 560, 900
MaeII	ACGT	2 cut(s)	576, 831
MaeIII	GTNAC	1 cut(s)	454
MalI	GATC	4 cut(s)	95, 276, 516, 651
MboI	GATC	4 cut(s)	93, 274, 514, 649
MflI	RGATCY	2 cut(s)	93, 649
MhlI	GDGCHC	2 cut(s)	216, 402
MluCI	AATT	4 cut(s)	70, 448, 681, 735
MlyI	GAGTC	4 cut(s)	7, 212, 260, 344
MmeI	TCCRAC	3 cut(s)	195, 294, 884
MnlI	CCTC	6 cut(s)	16, 166, 172, 288, 846, 904
MroNI	GCCGGC	1 cut(s)	193
MroXI	GAANNNNTTC	2 cut(s)	587, 873
MspI	CCGG	3 cut(s)	194, 351, 473
MspR9I	CCNGG	4 cut(s)	308, 351, 352, 474
Mva1269I	GAATGC	1 cut(s)	744
MvaI	CCWGG	1 cut(s)	308
MwoI	GCNNNNNNNGC	5 cut(s)	73, 120, 236, 607, 817
NaeI	GCCGGC	1 cut(s)	195
NciI	CCSGG	3 cut(s)	351, 352, 474
NdeI	CATATG	1 cut(s)	331
NdeII	GATC	4 cut(s)	93, 274, 514, 649
NgoMIV	GCCGGC	1 cut(s)	193
NlaIII	CATG	6 cut(s)	485, 506, 644, 718, 773, 865
NmeAIII	GCCGAG	2 cut(s)	31, 99
NspI	RCATGY	2 cut(s)	644, 865
PaeR7I	CTCGAG	1 cut(s)	401
PcsI	WCGNNNNNNNCGW	2 cut(s)	105, 255
PctI	GAATGC	1 cut(s)	744
PdiI	GCCGGC	1 cut(s)	195
PdmI	GAANNNNTTC	2 cut(s)	587, 873
PfeI	GAWTC	2 cut(s)	260, 888
PkrI	GCNGC	1 cut(s)	229
PleI	GAGTC	4 cut(s)	7, 212, 260, 343
PpsI	GAGTC	4 cut(s)	7, 212, 260, 343
Psp124BI	GAGCTC	1 cut(s)	402
Psp6I	CCWGG	1 cut(s)	306
PspFI	CCCAGC	2 cut(s)	76, 758
PspGI	CCWGG	1 cut(s)	306
PspPI	GGNCC	2 cut(s)	475, 676
PspXI	VCTCGAGB	1 cut(s)	401
PsuI	RGATCY	2 cut(s)	93, 649
SacI	GAGCTC	1 cut(s)	402
SatI	GCNGC	1 cut(s)	228
Sau3AI	GATC	4 cut(s)	93, 274, 514, 649
Sau96I	GGNCC	2 cut(s)	475, 676
SchI	GAGTC	4 cut(s)	7, 212, 260, 344
ScrFI	CCNGG	4 cut(s)	308, 351, 352, 474
SduI	GDGCHC	2 cut(s)	216, 402
SfcI	CTRYAG	1 cut(s)	821
Sfr274I	CTCGAG	1 cut(s)	401
SlaI	CTCGAG	1 cut(s)	401
SmaI	CCCGGG	1 cut(s)	352
SmlI	CTYRAG	2 cut(s)	401, 806
SmoI	CTYRAG	2 cut(s)	401, 806
SpeI	ACTAGT	2 cut(s)	559, 899
Sse9I	AATT	4 cut(s)	70, 448, 681, 735
SsiI	CCGC	3 cut(s)	225, 228, 237
SspMI	CTAG	3 cut(s)	552, 560, 900
SstI	GAGCTC	1 cut(s)	402
StyD4I	CCNGG	4 cut(s)	306, 349, 350, 472
TaaI	ACNGT	3 cut(s)	295, 460, 635
TaiI	ACGT	2 cut(s)	579, 834
TaqI	TCGA	3 cut(s)	201, 249, 402
TasI	AATT	4 cut(s)	70, 448, 681, 735
TauI	GCSGC	1 cut(s)	230
TfiI	GAWTC	2 cut(s)	260, 888
TscAI	CASTG	1 cut(s)	807
TspDTI	ATGAA	3 cut(s)	141, 491, 703
TspGWI	ACGGA	2 cut(s)	641, 729
TspMI	CCCGGG	1 cut(s)	350
TspRI	CASTG	1 cut(s)	807
XagI	CCTNNNNNAGG	1 cut(s)	665
XapI	RAATTY	1 cut(s)	735
XceI	RCATGY	2 cut(s)	644, 865
XhoI	CTCGAG	1 cut(s)	401
XmaI	CCCGGG	1 cut(s)	350
XmnI	GAANNNNTTC	2 cut(s)	587, 873
XspI	CTAG	3 cut(s)	552, 560, 900

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