Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002737

Physical Location & Seq

Genomic Coordinates Reverse (-)

8373001 .. 8375381

Gene Structure 2381 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00287340.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 909 bp

ATGGCCGAGTTGACTCAGAACGAGGTGGCTTACTCGCCCAAGACTATGCAAGTGTGGAAGGCTTTGCTGAATTGGCTGGGCTTCTTCTTCCAGATCTTCGTTCAAATCGTCAGCTCTCTCGGCCACCATCCCTTACTCTCTTCTTCTTCCTCTTCATCCTCTTCTTCCGATGCTTCCTTCAAATCCTTGCCGGCTGTCGAGTTGCAGGAGCACGACTCTTCCGCCGCCGTATCCGCCGTTGAAATCGATACTCCCGATTCTGACTCCGACGATCCTCCCCAGAAGCTAACGGTGGTTCTTGACCTGGATGAGACGCTAATATGTGCATATGAGTCGGCGAGCTTGCCCGGGATAGTTCGGACGCAAGCGACAGAAGGTGGGTTGAAGTGGTTTGAGCTCGAGTGTATTTCTTCGGACAAGGAATGTGATGGGAAACCGAAGGTGAATTATGTTACGGTTTTTGAGCGTCCGGGGCTGCATGAGTTCTTGAAACAAGTTCATGGGTTTGCCGATCTTGTGTTGTTTACTGCTGGACTTGAAGGTTATGCTAGACCACTTGTTGACAGAATAGACGTAGAGAACCTGTTCAGTTTTAGGCTTTATCGGCCTTCAACAACCAGCACGGAATACCGTGAGCATGTCAAGGATCTCTCTGGCCTATCAAAGGATATGGGCCGAATTGTTATCGTTGACAACAACCCTTTCAGTTTCTTGTTGCAACCTTTGAATGGAATTCCATGCATTCCATTTTCTGCTGGGCAAATACATGACACACAGCTTTTGGATGTTCTTCTTCCACTGCTCAAGCACCTATCGCTACAGAAAGACGTGAGACCTGCGCTTTATGAGAGGTTTCACATGCCCGAATGGTTTCAAAAGCAGGGAATCCCTTCAACTAGTTGGAAATAG

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

302

Amino Acids

33.76

Weight (kDa)

5.03

Isoelectric Point (pI)

33.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	96 - 278	2.1e-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)	844
AciI	CCGC	3 cut(s)	222, 225, 234
AclWI	GGATC	2 cut(s)	266, 654
AcoI	YGGCCR	2 cut(s)	3, 121
AcsI	RAATTY	1 cut(s)	732
AfiI	CCNNNNNNNGG	2 cut(s)	664, 728
AhlI	ACTAGT	1 cut(s)	896
AjiI	CACGTC	1 cut(s)	829
AjnI	CCWGG	1 cut(s)	303
AluBI	AGCT	5 cut(s)	114, 286, 342, 397, 778
AluI	AGCT	5 cut(s)	114, 286, 342, 397, 778
Alw21I	GWGCWC	2 cut(s)	213, 399
Alw26I	GTCTC	2 cut(s)	305, 826
AlwI	GGATC	2 cut(s)	266, 654
Ama87I	CYCGRG	2 cut(s)	347, 398
AoxI	GGCC	5 cut(s)	3, 121, 605, 655, 673
ApeKI	GCWGC	1 cut(s)	475
ApoI	RAATTY	1 cut(s)	732
Asp700I	GAANNNNTTC	3 cut(s)	584, 870, 889
AspLEI	GCGC	1 cut(s)	841
AspS9I	GGNCC	1 cut(s)	673
AsuC2I	CCSGG	3 cut(s)	348, 349, 471
AsuHPI	GGTGA	1 cut(s)	454
AvaI	CYCGRG	2 cut(s)	347, 398
BanII	GRGCYC	1 cut(s)	399
Bbv12I	GWGCWC	2 cut(s)	213, 399
BbvI	GCAGC	1 cut(s)	462
BccI	CCATC	2 cut(s)	135, 422
BceAI	ACGGC	2 cut(s)	212, 221
BcgI	CGANNNNNNTGC	2 cut(s)	315, 349
BciT130I	CCWGG	1 cut(s)	305
BciVI	GTATCC	1 cut(s)	241
BcnI	CCSGG	3 cut(s)	348, 349, 471
BcoDI	GTCTC	2 cut(s)	305, 826
BcuI	ACTAGT	1 cut(s)	896
BfaI	CTAG	2 cut(s)	549, 897
BfmI	CTRYAG	1 cut(s)	818
BfuAI	ACCTGC	1 cut(s)	844
BfuI	GTATCC	1 cut(s)	241
BglII	AGATCT	1 cut(s)	93
BisI	GCNGC	2 cut(s)	225, 476
BlsI	GCNGC	2 cut(s)	226, 477
Bme1390I	CCNGG	4 cut(s)	305, 348, 349, 471
BmeT110I	CYCGRG	2 cut(s)	347, 398
BmgBI	CACGTC	1 cut(s)	829
BmgT120I	GGNCC	1 cut(s)	673
BmrFI	CCNGG	4 cut(s)	305, 348, 349, 471
BmsI	GCATC	1 cut(s)	160
BplI	GAGNNNNNCTC	2 cut(s)	200, 232
BpuEI	CTTGAG	1 cut(s)	788
BpuMI	CCSGG	3 cut(s)	348, 349, 471
Bsa29I	ATCGAT	1 cut(s)	246
BsaI	GGTCTC	1 cut(s)	826
BsaJI	CCNNGG	2 cut(s)	347, 470
Bsc4I	CCNNNNNNNGG	2 cut(s)	664, 728
Bse118I	RCCGGY	1 cut(s)	190
BseBI	CCWGG	1 cut(s)	305
BseCI	ATCGAT	1 cut(s)	246
BseDI	CCNNGG	2 cut(s)	347, 470
BseGI	GGATG	4 cut(s)	127, 155, 313, 790
BseLI	CCNNNNNNNGG	2 cut(s)	664, 728
BseMII	CTCAG	1 cut(s)	29
BseXI	GCAGC	1 cut(s)	462
BseYI	CCCAGC	2 cut(s)	76, 755
BshFI	GGCC	5 cut(s)	5, 123, 607, 657, 675
BshVI	ATCGAT	1 cut(s)	246
BsiHKAI	GWGCWC	2 cut(s)	213, 399
BsiHKCI	CYCGRG	2 cut(s)	347, 398
BsiSI	CCGG	3 cut(s)	191, 348, 470
BslI	CCNNNNNNNGG	2 cut(s)	664, 728
BsmAI	GTCTC	2 cut(s)	305, 826
BsmBI	CGTCTC	1 cut(s)	305
BsmI	GAATGC	1 cut(s)	741
BsnI	GGCC	5 cut(s)	5, 123, 607, 657, 675
Bso31I	GGTCTC	1 cut(s)	826
BsoBI	CYCGRG	2 cut(s)	347, 398
Bsp1286I	GDGCHC	2 cut(s)	213, 399
Bsp143I	GATC	4 cut(s)	93, 271, 511, 646
BspACI	CCGC	3 cut(s)	222, 225, 234
BspANI	GGCC	5 cut(s)	5, 123, 607, 657, 675
BspCNI	CTCAG	1 cut(s)	28
BspDI	ATCGAT	1 cut(s)	246
BspMI	ACCTGC	1 cut(s)	844
BspPI	GGATC	2 cut(s)	266, 654
BspTNI	GGTCTC	1 cut(s)	826
BsrFI	RCCGGY	1 cut(s)	190
BssAI	RCCGGY	1 cut(s)	190
BssECI	CCNNGG	2 cut(s)	347, 470
BssMI	GATC	4 cut(s)	93, 271, 511, 646
Bst2UI	CCWGG	1 cut(s)	305
Bst4CI	ACNGT	3 cut(s)	292, 457, 632
Bst6I	CTCTTC	4 cut(s)	145, 157, 166, 223
BstC8I	GCNNGC	4 cut(s)	192, 340, 344, 366
BstDEI	CTNAG	1 cut(s)	15
BstENI	CCTNNNNNAGG	1 cut(s)	662
BstF5I	GGATG	4 cut(s)	127, 155, 313, 790
BstHHI	GCGC	1 cut(s)	841
BstKTI	GATC	4 cut(s)	96, 274, 514, 649
BstMAI	GTCTC	2 cut(s)	305, 826
BstMBI	GATC	4 cut(s)	93, 271, 511, 646
BstMWI	GCNNNNNNNGC	6 cut(s)	73, 120, 233, 472, 604, 814
BstNI	CCWGG	1 cut(s)	305
BstNSI	RCATGY	2 cut(s)	641, 862
BstSCI	CCNGG	4 cut(s)	303, 346, 347, 469
BstSFI	CTRYAG	1 cut(s)	818
BstV1I	GCAGC	1 cut(s)	462
BstX2I	RGATCY	2 cut(s)	93, 646
BstYI	RGATCY	2 cut(s)	93, 646
Bsu15I	ATCGAT	1 cut(s)	246
BsuI	GTATCC	1 cut(s)	241
BsuRI	GGCC	5 cut(s)	5, 123, 607, 657, 675
BsuTUI	ATCGAT	1 cut(s)	246
BtrI	CACGTC	1 cut(s)	829
BtsCI	GGATG	4 cut(s)	127, 155, 313, 790
BtsI	GCAGTG	1 cut(s)	797
BtsIMutI	CAGTG	1 cut(s)	797
BveI	ACCTGC	1 cut(s)	844
Cac8I	GCNNGC	4 cut(s)	192, 340, 344, 366
CfoI	GCGC	1 cut(s)	841
Cfr10I	RCCGGY	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	673
Cfr9I	CCCGGG	1 cut(s)	347
ClaI	ATCGAT	1 cut(s)	246
CseI	GACGC	3 cut(s)	322, 370, 455
CviAII	CATG	6 cut(s)	479, 500, 638, 738, 767, 859
DdeI	CTNAG	1 cut(s)	15
DpnI	GATC	4 cut(s)	95, 273, 513, 648
DpnII	GATC	4 cut(s)	93, 271, 511, 646
EaeI	YGGCCR	2 cut(s)	3, 121
Eam1104I	CTCTTC	4 cut(s)	145, 157, 166, 223
EarI	CTCTTC	4 cut(s)	145, 157, 166, 223
EciI	GGCGGA	2 cut(s)	211, 223
Ecl136II	GAGCTC	1 cut(s)	397
Eco24I	GRGCYC	1 cut(s)	399
Eco31I	GGTCTC	1 cut(s)	826
Eco53kI	GAGCTC	1 cut(s)	397
Eco88I	CYCGRG	2 cut(s)	347, 398
EcoICRI	GAGCTC	1 cut(s)	397
EcoNI	CCTNNNNNAGG	1 cut(s)	662
EcoRI	GAATTC	1 cut(s)	732
EcoRII	CCWGG	1 cut(s)	303
EcoT22I	ATGCAT	1 cut(s)	743
EcoT38I	GRGCYC	1 cut(s)	399
Esp3I	CGTCTC	1 cut(s)	305
FaeI	CATG	6 cut(s)	482, 503, 641, 741, 770, 862
FatI	CATG	6 cut(s)	478, 499, 637, 737, 766, 858
FauNDI	CATATG	1 cut(s)	328
Fnu4HI	GCNGC	2 cut(s)	225, 476
FokI	GGATG	4 cut(s)	114, 142, 320, 797
FriOI	GRGCYC	1 cut(s)	399
Fsp4HI	GCNGC	2 cut(s)	225, 476
FspBI	CTAG	2 cut(s)	549, 897
GlaI	GCGC	1 cut(s)	840
GluI	GCNGC	2 cut(s)	225, 476
GsaI	CCCAGC	2 cut(s)	80, 759
HaeIII	GGCC	5 cut(s)	5, 123, 607, 657, 675
HapII	CCGG	3 cut(s)	191, 348, 470
HgaI	GACGC	3 cut(s)	322, 370, 455
HhaI	GCGC	1 cut(s)	841
Hin1II	CATG	6 cut(s)	482, 503, 641, 741, 770, 862
Hin6I	GCGC	1 cut(s)	839
HinP1I	GCGC	1 cut(s)	839
HincII	GTYRAC	3 cut(s)	12, 562, 691
HindII	GTYRAC	3 cut(s)	12, 562, 691
HinfI	GANTC	6 cut(s)	13, 215, 257, 263, 332, 885
HpaII	CCGG	3 cut(s)	191, 348, 470
HphI	GGTGA	1 cut(s)	454
Hpy166II	GTNNAC	4 cut(s)	12, 525, 562, 691
Hpy188I	TCNGA	6 cut(s)	18, 169, 262, 268, 360, 415
Hpy188III	TCNNGA	4 cut(s)	91, 254, 299, 487
Hpy8I	GTNNAC	4 cut(s)	12, 525, 562, 691
Hpy99I	CGWCG	1 cut(s)	272
HpyAV	CCTTC	7 cut(s)	52, 187, 368, 433, 533, 618, 900
HpyCH4III	ACNGT	3 cut(s)	292, 457, 632
HpyCH4IV	ACGT	2 cut(s)	573, 828
HpyCH4V	TGCA	6 cut(s)	49, 205, 326, 478, 718, 741
HpyF10VI	GCNNNNNNNGC	6 cut(s)	73, 120, 233, 472, 604, 814
HpyF3I	CTNAG	1 cut(s)	15
HpySE526I	ACGT	2 cut(s)	573, 828
Hsp92II	CATG	6 cut(s)	482, 503, 641, 741, 770, 862
HspAI	GCGC	1 cut(s)	839
KroI	GCCGGC	1 cut(s)	190
KroNI	GCCGGC	1 cut(s)	192
Kzo9I	GATC	4 cut(s)	93, 271, 511, 646
LmnI	GCTCC	1 cut(s)	208
Lsp1109I	GCAGC	1 cut(s)	462
LweI	GCATC	1 cut(s)	160
MaeI	CTAG	2 cut(s)	549, 897
MaeII	ACGT	2 cut(s)	573, 828
MaeIII	GTNAC	1 cut(s)	451
MalI	GATC	4 cut(s)	95, 273, 513, 648
MboI	GATC	4 cut(s)	93, 271, 511, 646
MflI	RGATCY	2 cut(s)	93, 646
MhlI	GDGCHC	2 cut(s)	213, 399
MluCI	AATT	4 cut(s)	70, 445, 678, 732
MlyI	GAGTC	4 cut(s)	7, 209, 257, 341
MmeI	TCCRAC	2 cut(s)	291, 881
MnlI	CCTC	5 cut(s)	16, 160, 169, 285, 843
Mph1103I	ATGCAT	1 cut(s)	743
MroNI	GCCGGC	1 cut(s)	190
MroXI	GAANNNNTTC	3 cut(s)	584, 870, 889
MspI	CCGG	3 cut(s)	191, 348, 470
MspR9I	CCNGG	4 cut(s)	305, 348, 349, 471
Mva1269I	GAATGC	1 cut(s)	741
MvaI	CCWGG	1 cut(s)	305
MwoI	GCNNNNNNNGC	6 cut(s)	73, 120, 233, 472, 604, 814
NaeI	GCCGGC	1 cut(s)	192
NciI	CCSGG	3 cut(s)	348, 349, 471
NdeI	CATATG	1 cut(s)	328
NdeII	GATC	4 cut(s)	93, 271, 511, 646
NgoMIV	GCCGGC	1 cut(s)	190
NlaIII	CATG	6 cut(s)	482, 503, 641, 741, 770, 862
NmeAIII	GCCGAG	2 cut(s)	31, 99
NsiI	ATGCAT	1 cut(s)	743
NspI	RCATGY	2 cut(s)	641, 862
PaeR7I	CTCGAG	1 cut(s)	398
PcsI	WCGNNNNNNNCGW	2 cut(s)	105, 252
PctI	GAATGC	1 cut(s)	741
PdiI	GCCGGC	1 cut(s)	192
PdmI	GAANNNNTTC	3 cut(s)	584, 870, 889
PfeI	GAWTC	2 cut(s)	257, 885
PkrI	GCNGC	2 cut(s)	226, 477
PleI	GAGTC	4 cut(s)	7, 209, 257, 340
PpsI	GAGTC	4 cut(s)	7, 209, 257, 340
Psp124BI	GAGCTC	1 cut(s)	399
Psp6I	CCWGG	1 cut(s)	303
PspFI	CCCAGC	2 cut(s)	76, 755
PspGI	CCWGG	1 cut(s)	303
PspPI	GGNCC	1 cut(s)	673
PspXI	VCTCGAGB	1 cut(s)	398
PsuI	RGATCY	2 cut(s)	93, 646
SacI	GAGCTC	1 cut(s)	399
SatI	GCNGC	2 cut(s)	225, 476
Sau3AI	GATC	4 cut(s)	93, 271, 511, 646
Sau96I	GGNCC	1 cut(s)	673
SchI	GAGTC	4 cut(s)	7, 209, 257, 341
ScrFI	CCNGG	4 cut(s)	305, 348, 349, 471
SduI	GDGCHC	2 cut(s)	213, 399
SfaNI	GCATC	1 cut(s)	160
SfcI	CTRYAG	1 cut(s)	818
Sfr274I	CTCGAG	1 cut(s)	398
SlaI	CTCGAG	1 cut(s)	398
SmaI	CCCGGG	1 cut(s)	349
SmlI	CTYRAG	2 cut(s)	398, 803
SmoI	CTYRAG	2 cut(s)	398, 803
SpeI	ACTAGT	1 cut(s)	896
Sse9I	AATT	4 cut(s)	70, 445, 678, 732
SsiI	CCGC	3 cut(s)	222, 225, 234
SspMI	CTAG	2 cut(s)	549, 897
SstI	GAGCTC	1 cut(s)	399
StyD4I	CCNGG	4 cut(s)	303, 346, 347, 469
TaaI	ACNGT	3 cut(s)	292, 457, 632
TaiI	ACGT	2 cut(s)	576, 831
TaqI	TCGA	3 cut(s)	198, 246, 399
TasI	AATT	4 cut(s)	70, 445, 678, 732
TauI	GCSGC	1 cut(s)	227
TfiI	GAWTC	2 cut(s)	257, 885
TscAI	CASTG	1 cut(s)	804
TseI	GCWGC	1 cut(s)	475
TspDTI	ATGAA	2 cut(s)	144, 488
TspGWI	ACGGA	1 cut(s)	638
TspMI	CCCGGG	1 cut(s)	347
TspRI	CASTG	1 cut(s)	804
XagI	CCTNNNNNAGG	1 cut(s)	662
XapI	RAATTY	1 cut(s)	732
XceI	RCATGY	2 cut(s)	641, 862
XhoI	CTCGAG	1 cut(s)	398
XmaI	CCCGGG	1 cut(s)	347
XmnI	GAANNNNTTC	3 cut(s)	584, 870, 889
XspI	CTAG	2 cut(s)	549, 897
Zsp2I	ATGCAT	1 cut(s)	743

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