Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0002737

Physical Location & Seq

Genomic Coordinates Forward (+)

8050667 .. 8054980

Gene Structure 4314 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000027059

Sequence Viewer

CDS Protein Promoter (2k)

Length: 894 bp

ATGGGAACCGGACTGAACCGGGATGTTGTACATCGGTTCGGTTTAAATGATACAGCCTTTTTTTTCTTTACAGGAATCACACAGAACAGCCGGTTCAGGCCGGTTCTGCGGGTTTTTGGGTCAAAAGTCCTAGGCCTAATTAACATAGGAATGATTAAGAATGGATTCCCGACTTATTATGTGATATATCCATCTCCTGCAAATTTTTGCAATTTCCAATACTCGGAGGAATACTTCCTTCCAAATTATTTCCATACGACTAATACGAGTGCTTTCGGCCACCATCCGTCACTCTCTTCTTTTTCGTCTTCATCGTCTTCTTCTGCTTCTGAGGCTTCCTTCAAATCTTTGCCGGCTGTCGAGTTGCCCGAGCACGACTCCTCCGCCTTCGCCGTTGAAATCGATACTCCCAAGTCTGACTCCGACGTGGTTCTTGACCTGGATGAGACGCTAGTATGTGCATATGAGTCGGCGAGCTTGCCGGAATGTGATGGGAAACCGAAGGTGAATTATGTTACGGTTTTTGAGCGTCCGGGGTTGCATTATCCACTTGTTGACAGAATAGACGTAGAGAACCTGTTCAGTTTTAGGCTTTATCGGCCTTCAACGACGAGCACGGAATACCGTGAGCATGTCAAGGATCTCTCTGGCCTATCAAAGGATATGGGCCGAATTGTTATTGTTGACAACAACCCCTTCAGTTTCTTGTTGCAACCTTTGAATGGAATTCCATTTTCTCCTGGGCAAATACATGACACACAGCTTTTGGATGCTCTTCTTCCACTGCTCAAGCACCTATCACTGCAGAAAGACGTGAGACCTGCACTTTATGAGAGGTTTCACATGCCCGAATGGTTTCAAAAGCAGGGGATCCCTTCAACTCGTTGGAAATAG

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

298

Amino Acids

33.57

Weight (kDa)

5.92

Isoelectric Point (pI)

39.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	183 - 273	5.2e-18	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)	829
AciI	CCGC	2 cut(s)	109, 384
AclWI	GGATC	3 cut(s)	648, 865, 878
AcoI	YGGCCR	1 cut(s)	277
AcsI	RAATTY	2 cut(s)	202, 726
AcuI	CTGAAG	1 cut(s)	682
AfaI	GTAC	1 cut(s)	30
AfiI	CCNNNNNNNGG	3 cut(s)	223, 658, 722
AgsI	TTSAA	6 cut(s)	343, 398, 606, 721, 860, 879
AjiI	CACGTC	2 cut(s)	427, 814
AjnI	CCWGG	2 cut(s)	438, 739
AluBI	AGCT	2 cut(s)	477, 763
AluI	AGCT	2 cut(s)	477, 763
Alw21I	GWGCWC	2 cut(s)	375, 617
Alw26I	GTCTC	2 cut(s)	440, 811
AlwI	GGATC	3 cut(s)	648, 865, 878
Ama87I	CYCGRG	1 cut(s)	368
AoxI	GGCC	6 cut(s)	98, 133, 277, 599, 649, 667
ApoI	RAATTY	2 cut(s)	202, 726
Asp700I	GAANNNNTTC	3 cut(s)	164, 578, 855
AspA2I	CCTAGG	1 cut(s)	130
AspS9I	GGNCC	1 cut(s)	667
AsuC2I	CCSGG	2 cut(s)	20, 534
AsuHPI	GGTGA	1 cut(s)	517
AvaI	CYCGRG	1 cut(s)	368
AvrII	CCTAGG	1 cut(s)	130
BamHI	GGATCC	1 cut(s)	870
BbsI	GAAGAC	2 cut(s)	300, 309
Bbv12I	GWGCWC	2 cut(s)	375, 617
BccI	CCATC	3 cut(s)	199, 291, 485
BceAI	ACGGC	1 cut(s)	377
BcgI	CGANNNNNNTGC	2 cut(s)	450, 484
BciT130I	CCWGG	2 cut(s)	440, 741
BcnI	CCSGG	2 cut(s)	20, 534
BcoDI	GTCTC	2 cut(s)	440, 811
BfaI	CTAG	2 cut(s)	131, 452
BfmI	CTRYAG	1 cut(s)	803
BfuAI	ACCTGC	1 cut(s)	829
BlnI	CCTAGG	1 cut(s)	130
Bme1390I	CCNGG	4 cut(s)	20, 440, 534, 741
BmeT110I	CYCGRG	1 cut(s)	368
BmgBI	CACGTC	2 cut(s)	427, 814
BmgT120I	GGNCC	1 cut(s)	667
BmiI	GGNNCC	2 cut(s)	7, 872
BmrFI	CCNGG	4 cut(s)	20, 440, 534, 741
BmsI	GCATC	1 cut(s)	760
BpiI	GAAGAC	2 cut(s)	300, 309
BplI	GAGNNNNNCTC	2 cut(s)	362, 394
BpuEI	CTTGAG	1 cut(s)	773
BpuMI	CCSGG	2 cut(s)	20, 534
Bsa29I	ATCGAT	1 cut(s)	402
BsaI	GGTCTC	1 cut(s)	811
BsaJI	CCNNGG	3 cut(s)	130, 533, 740
BsaWI	WCCGGW	1 cut(s)	8
BsaXI	ACNNNNNCTCC	2 cut(s)	365, 395
Bsc4I	CCNNNNNNNGG	3 cut(s)	223, 658, 722
Bse118I	RCCGGY	3 cut(s)	90, 100, 352
BseBI	CCWGG	2 cut(s)	440, 741
BseCI	ATCGAT	1 cut(s)	402
BseDI	CCNNGG	3 cut(s)	130, 533, 740
BseGI	GGATG	4 cut(s)	28, 283, 448, 775
BseLI	CCNNNNNNNGG	3 cut(s)	223, 658, 722
BseMII	CTCAG	1 cut(s)	321
BseRI	GAGGAG	1 cut(s)	370
BsgI	GTGCAG	1 cut(s)	807
BshFI	GGCC	6 cut(s)	100, 135, 279, 601, 651, 669
BshVI	ATCGAT	1 cut(s)	402
BsiHKAI	GWGCWC	2 cut(s)	375, 617
BsiHKCI	CYCGRG	1 cut(s)	368
BsiSI	CCGG	7 cut(s)	9, 19, 91, 101, 353, 482, 533
BslI	CCNNNNNNNGG	3 cut(s)	223, 658, 722
BsmAI	GTCTC	2 cut(s)	440, 811
BsmBI	CGTCTC	1 cut(s)	440
BsnI	GGCC	6 cut(s)	100, 135, 279, 601, 651, 669
Bso31I	GGTCTC	1 cut(s)	811
BsoBI	CYCGRG	1 cut(s)	368
Bsp1286I	GDGCHC	2 cut(s)	375, 617
Bsp1407I	TGTACA	1 cut(s)	28
Bsp143I	GATC	2 cut(s)	640, 870
BspACI	CCGC	2 cut(s)	109, 384
BspANI	GGCC	6 cut(s)	100, 135, 279, 601, 651, 669
BspCNI	CTCAG	1 cut(s)	322
BspDI	ATCGAT	1 cut(s)	402
BspLI	GGNNCC	2 cut(s)	7, 872
BspMAI	CTGCAG	1 cut(s)	807
BspMI	ACCTGC	1 cut(s)	829
BspPI	GGATC	3 cut(s)	648, 865, 878
BspQI	GCTCTTC	1 cut(s)	780
BspTNI	GGTCTC	1 cut(s)	811
BsrFI	RCCGGY	3 cut(s)	90, 100, 352
BsrGI	TGTACA	1 cut(s)	28
BssAI	RCCGGY	3 cut(s)	90, 100, 352
BssECI	CCNNGG	3 cut(s)	130, 533, 740
BssMI	GATC	2 cut(s)	640, 870
BssT1I	CCWWGG	1 cut(s)	130
Bst2UI	CCWGG	2 cut(s)	440, 741
Bst4CI	ACNGT	2 cut(s)	520, 626
Bst6I	CTCTTC	2 cut(s)	301, 780
BstAUI	TGTACA	1 cut(s)	28
BstC8I	GCNNGC	3 cut(s)	354, 475, 479
BstDEI	CTNAG	1 cut(s)	330
BstENI	CCTNNNNNAGG	1 cut(s)	656
BstF5I	GGATG	4 cut(s)	28, 283, 448, 775
BstKTI	GATC	2 cut(s)	643, 873
BstMAI	GTCTC	2 cut(s)	440, 811
BstMBI	GATC	2 cut(s)	640, 870
BstMWI	GCNNNNNNNGC	3 cut(s)	106, 332, 598
BstNI	CCWGG	2 cut(s)	440, 741
BstNSI	RCATGY	2 cut(s)	635, 847
BstSCI	CCNGG	4 cut(s)	18, 438, 532, 739
BstSFI	CTRYAG	1 cut(s)	803
BstV2I	GAAGAC	2 cut(s)	300, 309
BstX2I	RGATCY	2 cut(s)	640, 870
BstYI	RGATCY	2 cut(s)	640, 870
Bsu15I	ATCGAT	1 cut(s)	402
BsuRI	GGCC	6 cut(s)	100, 135, 279, 601, 651, 669
BsuTUI	ATCGAT	1 cut(s)	402
BtrI	CACGTC	2 cut(s)	427, 814
BtsCI	GGATG	4 cut(s)	28, 283, 448, 775
BtsI	GCAGTG	2 cut(s)	782, 800
BtsIMutI	CAGTG	2 cut(s)	782, 800
BveI	ACCTGC	1 cut(s)	829
Cac8I	GCNNGC	3 cut(s)	354, 475, 479
Cfr10I	RCCGGY	3 cut(s)	90, 100, 352
Cfr13I	GGNCC	1 cut(s)	667
ClaI	ATCGAT	1 cut(s)	402
CseI	GACGC	2 cut(s)	457, 518
Csp6I	GTAC	1 cut(s)	29
CviAII	CATG	3 cut(s)	632, 752, 844
CviQI	GTAC	1 cut(s)	29
DdeI	CTNAG	1 cut(s)	330
DpnI	GATC	2 cut(s)	642, 872
DpnII	GATC	2 cut(s)	640, 870
DraI	TTTAAA	1 cut(s)	45
EaeI	YGGCCR	1 cut(s)	277
Eam1104I	CTCTTC	2 cut(s)	301, 780
EarI	CTCTTC	2 cut(s)	301, 780
EciI	GGCGGA	1 cut(s)	373
Eco130I	CCWWGG	1 cut(s)	130
Eco147I	AGGCCT	1 cut(s)	135
Eco31I	GGTCTC	1 cut(s)	811
Eco57I	CTGAAG	1 cut(s)	682
Eco88I	CYCGRG	1 cut(s)	368
EcoNI	CCTNNNNNAGG	1 cut(s)	656
EcoRI	GAATTC	1 cut(s)	726
EcoRII	CCWGG	2 cut(s)	438, 739
EcoT14I	CCWWGG	1 cut(s)	130
ErhI	CCWWGG	1 cut(s)	130
Esp3I	CGTCTC	1 cut(s)	440
FaeI	CATG	3 cut(s)	635, 755, 847
FatI	CATG	3 cut(s)	631, 751, 843
FauI	CCCGC	1 cut(s)	102
FauNDI	CATATG	1 cut(s)	463
FokI	GGATG	4 cut(s)	35, 270, 455, 782
FspBI	CTAG	2 cut(s)	131, 452
HaeIII	GGCC	6 cut(s)	100, 135, 279, 601, 651, 669
HapII	CCGG	7 cut(s)	9, 19, 91, 101, 353, 482, 533
HgaI	GACGC	2 cut(s)	457, 518
Hin1II	CATG	3 cut(s)	635, 755, 847
HincII	GTYRAC	2 cut(s)	556, 685
HindII	GTYRAC	2 cut(s)	556, 685
HinfI	GANTC	5 cut(s)	75, 165, 377, 419, 467
HpaII	CCGG	7 cut(s)	9, 19, 91, 101, 353, 482, 533
HphI	GGTGA	1 cut(s)	517
Hpy166II	GTNNAC	2 cut(s)	556, 685
Hpy188I	TCNGA	4 cut(s)	226, 331, 418, 424
Hpy188III	TCNNGA	2 cut(s)	169, 434
Hpy8I	GTNNAC	2 cut(s)	556, 685
Hpy99I	CGWCG	2 cut(s)	428, 613
HpyAV	CCTTC	7 cut(s)	248, 349, 397, 496, 612, 706, 885
HpyCH4III	ACNGT	2 cut(s)	520, 626
HpyCH4IV	ACGT	3 cut(s)	426, 567, 813
HpyCH4V	TGCA	7 cut(s)	200, 210, 461, 541, 712, 805, 824
HpyF10VI	GCNNNNNNNGC	3 cut(s)	106, 332, 598
HpyF3I	CTNAG	1 cut(s)	330
HpySE526I	ACGT	3 cut(s)	426, 567, 813
Hsp92II	CATG	3 cut(s)	635, 755, 847
KroI	GCCGGC	1 cut(s)	352
KroNI	GCCGGC	1 cut(s)	354
Kzo9I	GATC	2 cut(s)	640, 870
LguI	GCTCTTC	1 cut(s)	780
LweI	GCATC	1 cut(s)	760
MaeI	CTAG	2 cut(s)	131, 452
MaeII	ACGT	3 cut(s)	426, 567, 813
MaeIII	GTNAC	2 cut(s)	288, 514
MalI	GATC	2 cut(s)	642, 872
MboI	GATC	2 cut(s)	640, 870
MboII	GAAGA	6 cut(s)	288, 300, 309, 312, 767, 770
MflI	RGATCY	2 cut(s)	640, 870
MhlI	GDGCHC	2 cut(s)	375, 617
MluCI	AATT	7 cut(s)	138, 202, 211, 244, 508, 672, 726
MlyI	GAGTC	3 cut(s)	371, 413, 476
MmeI	TCCRAC	2 cut(s)	447, 866
MnlI	CCTC	4 cut(s)	220, 325, 391, 828
MroNI	GCCGGC	1 cut(s)	352
MroXI	GAANNNNTTC	3 cut(s)	164, 578, 855
MseI	TTAA	3 cut(s)	44, 141, 156
MslI	CAYNNNNRTG	1 cut(s)	149
MspI	CCGG	7 cut(s)	9, 19, 91, 101, 353, 482, 533
MspR9I	CCNGG	4 cut(s)	20, 440, 534, 741
MvaI	CCWGG	2 cut(s)	440, 741
MwoI	GCNNNNNNNGC	3 cut(s)	106, 332, 598
NaeI	GCCGGC	1 cut(s)	354
NciI	CCSGG	2 cut(s)	20, 534
NdeI	CATATG	1 cut(s)	463
NdeII	GATC	2 cut(s)	640, 870
NgoMIV	GCCGGC	1 cut(s)	352
NlaIII	CATG	3 cut(s)	635, 755, 847
NlaIV	GGNNCC	2 cut(s)	7, 872
NmuCI	GTSAC	1 cut(s)	288
NspI	RCATGY	2 cut(s)	635, 847
PceI	AGGCCT	1 cut(s)	135
PciSI	GCTCTTC	1 cut(s)	780
PcsI	WCGNNNNNNNCGW	3 cut(s)	263, 311, 366
PdiI	GCCGGC	1 cut(s)	354
PdmI	GAANNNNTTC	3 cut(s)	164, 578, 855
PfeI	GAWTC	2 cut(s)	75, 165
PleI	GAGTC	3 cut(s)	371, 413, 475
PpsI	GAGTC	3 cut(s)	371, 413, 475
Psp6I	CCWGG	2 cut(s)	438, 739
PspGI	CCWGG	2 cut(s)	438, 739
PspN4I	GGNNCC	2 cut(s)	7, 872
PspPI	GGNCC	1 cut(s)	667
PstI	CTGCAG	1 cut(s)	807
PsuI	RGATCY	2 cut(s)	640, 870
RsaI	GTAC	1 cut(s)	30
RsaNI	GTAC	1 cut(s)	29
RseI	CAYNNNNRTG	1 cut(s)	149
SapI	GCTCTTC	1 cut(s)	780
SaqAI	TTAA	3 cut(s)	44, 141, 156
Sau3AI	GATC	2 cut(s)	640, 870
Sau96I	GGNCC	1 cut(s)	667
SchI	GAGTC	3 cut(s)	371, 413, 476
ScrFI	CCNGG	4 cut(s)	20, 440, 534, 741
SduI	GDGCHC	2 cut(s)	375, 617
SfaNI	GCATC	1 cut(s)	760
SfcI	CTRYAG	1 cut(s)	803
SmiMI	CAYNNNNRTG	1 cut(s)	149
SmlI	CTYRAG	1 cut(s)	788
SmoI	CTYRAG	1 cut(s)	788
Sse9I	AATT	7 cut(s)	138, 202, 211, 244, 508, 672, 726
SseBI	AGGCCT	1 cut(s)	135
SsiI	CCGC	2 cut(s)	109, 384
SspMI	CTAG	2 cut(s)	131, 452
StuI	AGGCCT	1 cut(s)	135
StyD4I	CCNGG	4 cut(s)	18, 438, 532, 739
StyI	CCWWGG	1 cut(s)	130
TaaI	ACNGT	2 cut(s)	520, 626
TaiI	ACGT	3 cut(s)	429, 570, 816
TaqI	TCGA	2 cut(s)	360, 402
TasI	AATT	7 cut(s)	138, 202, 211, 244, 508, 672, 726
TatI	WGTACW	1 cut(s)	28
TfiI	GAWTC	2 cut(s)	75, 165
Tru1I	TTAA	3 cut(s)	44, 141, 156
Tru9I	TTAA	3 cut(s)	44, 141, 156
TscAI	CASTG	2 cut(s)	789, 807
TseFI	GTSAC	1 cut(s)	288
Tsp45I	GTSAC	1 cut(s)	288
TspDTI	ATGAA	1 cut(s)	300
TspGWI	ACGGA	2 cut(s)	276, 632
TspRI	CASTG	2 cut(s)	789, 807
XagI	CCTNNNNNAGG	1 cut(s)	656
XapI	RAATTY	2 cut(s)	202, 726
XceI	RCATGY	2 cut(s)	635, 847
XmaJI	CCTAGG	1 cut(s)	130
XmnI	GAANNNNTTC	3 cut(s)	164, 578, 855
XspI	CTAG	2 cut(s)	131, 452

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