Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0006960

Physical Location & Seq

Genomic Coordinates Reverse (-)

51235784 .. 51256332

Gene Structure 20549 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG367500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 939 bp

ATGGTGGGTGTTCTGCTTAGAGATTTGAAGTTTGGAGATGATGGTGTTCTGCTTCACATTGATTTGGGTTGCAGGAAAGTAGCGATTAGGTGGCTTTGCACTTTCTTGATTGTAAACAATTGCCCTGACCTTGAGGATGTTTCGTATCTGAAGCAAGTGTTTGAGGGAGTTCAGTGCCTTCTTGATGATGAACTGGTCTCTGGTGGCCATGATATTAGTTATGGTGGACTTCTGGTCTATGCCGTTAAGATGGCATTTGCTGGGAATTGTGGCATTAATTTGGATGAAAGTACCTTCTTTCATAAGGGACACATAGGAGGAAGTGGCAGTGAGGGGGGGGGGGGGGGTGTTGCAGTAGCCTTTGGCTGCAACTTTAAAAATAGTAAGAAGAGATCTCAAGGACATAAAGAACCAGATTCTAGTCTAGTTGTTTCTTCAACTGGTACCTCTCCCTCAATCCTTGAGAGGGCTAAAGAAGATGTCACTCAAGCAGGAGTAGGAGCTCCATCTTCATCTGACAAGACCATCAATGATGGTGGAAACGTCGACATTGTGTCCGTCGAAGACGGCGTCGTTTCTCTCAAGCTCGAAGGGGCTTGTGGAAGCTGTCCTAGCTCAATAACCACCATGAAAATGGGGATTGAACGAGTGCTTAAAGAAAAGTTTGCAGATGCACTCAAGGATATTCAACAAGTCTTTGATGAAGAAAACAGAGAGACCACAGTTGAGGTTCTCAAGGGTCCAAATGCACCATTCTTAATGTCTGGTTGCAAAATAGCTGATGGAGTCGGTACCATGCTGGTAAAATTTTCATTTGGTGATCTAAGAGAATTAAGAACACTGGTTTTTCTTTTCAGACAATATTTATATATATATATATATATATATATATATATATATATATATATTTGTGATTTGAGAAGAAAGGAACTTTATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NifU

Protein Analysis

312

Amino Acids

34.0

Weight (kDa)

5.25

Isoelectric Point (pI)

44.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AIRS_C	PF02769	44 - 103	9.8e-08	AIR synthase related protein, C-terminal domain
NifU	PF01106	177 - 223	1.8e-16	NifU-like domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

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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: OG0006960)

Species	Orthologous Gene IDs
pyrus_communis	pycom02g00480 pycom13g19920
rosa_chinensis	RchiOBHm_Chr7g0229191
rosa_laevigata	RLG00000006185 RLG00000007431 RLG00000016147 RLG00000022439 RLG00000022857 RLG00000035073
rosa_multiflora	Rmu_sc0000014.1_g000037 Rmu_sc0000014.1_g000038 Rmu_sc0000800.1_g000015 Rmu_sc0001342.1_g000010 Rmu_sc0002983.1_g000064 Rmu_sc0008770.1_g000021 Rmu_sc0009252.1_g000009 Rmu_sc0009895.1_g000009 Rmu_sc0011973.1_g000004 Rmu_sc0014425.1_g000005 Rmu_ssc0000278.1_g000017
rosa_roxburghii	Rroxscaffold_2G00145630
rosa_samantha	Rh1AG324700 Rh2BG367500 Rh7AG407100 Rh7CG425300
rosa_wichuraiana	Rw7G004330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	2 cut(s)	443, 791
AccB1I	GGYRCC	2 cut(s)	443, 791
AccI	GTMKAC	1 cut(s)	546
AcoI	YGGCCR	1 cut(s)	205
AcsI	RAATTY	1 cut(s)	806
AcuI	CTGAAG	1 cut(s)	170
AcyI	GRCGYC	1 cut(s)	570
AfaI	GTAC	3 cut(s)	292, 445, 793
AfiI	CCNNNNNNNGG	1 cut(s)	466
AgsI	TTSAA	4 cut(s)	28, 438, 644, 689
AhdI	GACNNNNNGTC	2 cut(s)	233, 553
AluBI	AGCT	5 cut(s)	503, 586, 606, 615, 779
AluI	AGCT	5 cut(s)	503, 586, 606, 615, 779
Alw21I	GWGCWC	1 cut(s)	505
Alw26I	GTCTC	2 cut(s)	202, 710
AoxI	GGCC	1 cut(s)	205
ApeKI	GCWGC	1 cut(s)	366
ApoI	RAATTY	1 cut(s)	806
ArsI	GACNNNNNNTTYG	2 cut(s)	555, 587
AseI	ATTAAT	1 cut(s)	276
Asp718I	GGTACC	2 cut(s)	443, 791
AspS9I	GGNCC	1 cut(s)	740
AsuHPI	GGTGA	1 cut(s)	830
AvaII	GGWCC	1 cut(s)	740
BalI	TGGCCA	1 cut(s)	207
BanI	GGYRCC	2 cut(s)	443, 791
BanII	GRGCYC	1 cut(s)	505
BbsI	GAAGAC	1 cut(s)	570
Bbv12I	GWGCWC	1 cut(s)	505
BbvI	GCAGC	1 cut(s)	353
BccI	CCATC	6 cut(s)	35, 244, 514, 527, 533, 776
BceAI	ACGGC	2 cut(s)	227, 583
BcoDI	GTCTC	2 cut(s)	202, 710
BfaI	CTAG	3 cut(s)	420, 425, 612
BglII	AGATCT	1 cut(s)	392
BisI	GCNGC	1 cut(s)	367
BlsI	GCNGC	1 cut(s)	368
Bme18I	GGWCC	1 cut(s)	740
BmeRI	GACNNNNNGTC	2 cut(s)	233, 553
BmgT120I	GGNCC	1 cut(s)	740
BmiI	GGNNCC	3 cut(s)	445, 741, 793
BmsI	GCATC	1 cut(s)	661
BpiI	GAAGAC	1 cut(s)	570
BpuEI	CTTGAG	7 cut(s)	152, 381, 471, 482, 566, 662, 719
BsaHI	GRCGYC	1 cut(s)	570
BsaI	GGTCTC	2 cut(s)	202, 710
Bsc4I	CCNNNNNNNGG	1 cut(s)	466
Bse1I	ACTGG	3 cut(s)	198, 445, 846
BseGI	GGATG	2 cut(s)	142, 289
BseLI	CCNNNNNNNGG	1 cut(s)	466
BseNI	ACTGG	3 cut(s)	198, 445, 846
BseXI	GCAGC	1 cut(s)	353
BseYI	CCCAGC	1 cut(s)	260
BshFI	GGCC	1 cut(s)	207
BshNI	GGYRCC	2 cut(s)	443, 791
BsiHKAI	GWGCWC	1 cut(s)	505
BslFI	GGGAC	1 cut(s)	321
BslI	CCNNNNNNNGG	1 cut(s)	466
BsmAI	GTCTC	2 cut(s)	202, 710
BsmFI	GGGAC	1 cut(s)	321
BsnI	GGCC	1 cut(s)	207
Bso31I	GGTCTC	2 cut(s)	202, 710
Bsp1286I	GDGCHC	1 cut(s)	505
Bsp143I	GATC	2 cut(s)	392, 820
BspANI	GGCC	1 cut(s)	207
BspLI	GGNNCC	3 cut(s)	445, 741, 793
BspT107I	GGYRCC	2 cut(s)	443, 791
BspTNI	GGTCTC	2 cut(s)	202, 710
BsrI	ACTGG	3 cut(s)	198, 445, 846
BssMI	GATC	2 cut(s)	392, 820
BssNI	GRCGYC	1 cut(s)	570
Bst4CI	ACNGT	1 cut(s)	724
Bst6I	CTCTTC	1 cut(s)	383
BstACI	GRCGYC	1 cut(s)	570
BstDEI	CTNAG	2 cut(s)	17, 824
BstF5I	GGATG	2 cut(s)	142, 289
BstKTI	GATC	2 cut(s)	395, 823
BstMAI	GTCTC	2 cut(s)	202, 710
BstMBI	GATC	2 cut(s)	392, 820
BstMWI	GCNNNNNNNGC	1 cut(s)	612
BstV1I	GCAGC	1 cut(s)	353
BstV2I	GAAGAC	1 cut(s)	570
BstX2I	RGATCY	1 cut(s)	392
BstXI	CCANNNNNNTGG	1 cut(s)	634
BstYI	RGATCY	1 cut(s)	392
BsuRI	GGCC	1 cut(s)	207
BtsCI	GGATG	2 cut(s)	142, 289
BtsI	GCAGTG	1 cut(s)	334
BtsIMutI	CAGTG	3 cut(s)	179, 334, 839
Cfr13I	GGNCC	1 cut(s)	740
CseI	GACGC	1 cut(s)	559
Csp6I	GTAC	3 cut(s)	291, 444, 792
CspCI	CAANNNNNGTGG	2 cut(s)	517, 552
CviAII	CATG	3 cut(s)	209, 628, 796
CviQI	GTAC	3 cut(s)	291, 444, 792
DdeI	CTNAG	2 cut(s)	17, 824
DpnI	GATC	2 cut(s)	394, 822
DpnII	GATC	2 cut(s)	392, 820
DraI	TTTAAA	1 cut(s)	376
DriI	GACNNNNNGTC	2 cut(s)	233, 553
EaeI	YGGCCR	1 cut(s)	205
Eam1104I	CTCTTC	1 cut(s)	383
Eam1105I	GACNNNNNGTC	2 cut(s)	233, 553
EarI	CTCTTC	1 cut(s)	383
Ecl136II	GAGCTC	1 cut(s)	503
Eco24I	GRGCYC	1 cut(s)	505
Eco31I	GGTCTC	2 cut(s)	202, 710
Eco47I	GGWCC	1 cut(s)	740
Eco53kI	GAGCTC	1 cut(s)	503
Eco57I	CTGAAG	1 cut(s)	170
EcoICRI	GAGCTC	1 cut(s)	503
EcoT38I	GRGCYC	1 cut(s)	505
FaeI	CATG	3 cut(s)	212, 631, 799
FaqI	GGGAC	1 cut(s)	321
FatI	CATG	3 cut(s)	208, 627, 795
FblI	GTMKAC	1 cut(s)	546
Fnu4HI	GCNGC	1 cut(s)	367
FokI	GGATG	2 cut(s)	149, 296
FriOI	GRGCYC	1 cut(s)	505
Fsp4HI	GCNGC	1 cut(s)	367
FspBI	CTAG	3 cut(s)	420, 425, 612
GluI	GCNGC	1 cut(s)	367
GsaI	CCCAGC	1 cut(s)	264
HaeIII	GGCC	1 cut(s)	207
HgaI	GACGC	1 cut(s)	559
Hin1I	GRCGYC	1 cut(s)	570
Hin1II	CATG	3 cut(s)	212, 631, 799
HincII	GTYRAC	1 cut(s)	547
HindII	GTYRAC	1 cut(s)	547
HinfI	GANTC	2 cut(s)	416, 786
HphI	GGTGA	1 cut(s)	830
Hpy166II	GTNNAC	3 cut(s)	115, 227, 547
Hpy188I	TCNGA	3 cut(s)	150, 517, 857
Hpy188III	TCNNGA	2 cut(s)	106, 182
Hpy8I	GTNNAC	3 cut(s)	115, 227, 547
Hpy99I	CGWCG	3 cut(s)	548, 563, 575
HpyAV	CCTTC	3 cut(s)	188, 304, 584
HpyCH4III	ACNGT	1 cut(s)	724
HpyCH4IV	ACGT	1 cut(s)	543
HpyCH4V	TGCA	8 cut(s)	72, 99, 353, 369, 668, 674, 749, 771
HpyF10VI	GCNNNNNNNGC	1 cut(s)	612
HpyF3I	CTNAG	2 cut(s)	17, 824
HpySE526I	ACGT	1 cut(s)	543
Hsp92I	GRCGYC	1 cut(s)	570
Hsp92II	CATG	3 cut(s)	212, 631, 799
KpnI	GGTACC	2 cut(s)	447, 795
Kzo9I	GATC	2 cut(s)	392, 820
LmnI	GCTCC	2 cut(s)	500, 508
Lsp1109I	GCAGC	1 cut(s)	353
LweI	GCATC	1 cut(s)	661
MaeI	CTAG	3 cut(s)	420, 425, 612
MaeII	ACGT	1 cut(s)	543
MaeIII	GTNAC	1 cut(s)	481
MalI	GATC	2 cut(s)	394, 822
MboI	GATC	2 cut(s)	392, 820
MboII	GAAGA	7 cut(s)	400, 426, 488, 501, 575, 716, 933
MfeI	CAATTG	1 cut(s)	118
MflI	RGATCY	1 cut(s)	392
MhlI	GDGCHC	1 cut(s)	505
MlsI	TGGCCA	1 cut(s)	207
MluCI	AATT	5 cut(s)	118, 265, 277, 806, 830
MluNI	TGGCCA	1 cut(s)	207
MlyI	GAGTC	1 cut(s)	795
MnlI	CCTC	8 cut(s)	127, 157, 311, 325, 457, 459, 463, 721
Mox20I	TGGCCA	1 cut(s)	207
MscI	TGGCCA	1 cut(s)	207
MseI	TTAA	7 cut(s)	246, 276, 375, 654, 758, 833, 937
MslI	CAYNNNNRTG	1 cut(s)	632
Msp20I	TGGCCA	1 cut(s)	207
MunI	CAATTG	1 cut(s)	118
MwoI	GCNNNNNNNGC	1 cut(s)	612
NdeII	GATC	2 cut(s)	392, 820
NlaIII	CATG	3 cut(s)	212, 631, 799
NlaIV	GGNNCC	3 cut(s)	445, 741, 793
NmuCI	GTSAC	1 cut(s)	481
PcsI	WCGNNNNNNNCGW	1 cut(s)	567
PfeI	GAWTC	1 cut(s)	416
PflFI	GACNNNGTC	1 cut(s)	569
PkrI	GCNGC	1 cut(s)	368
PleI	GAGTC	1 cut(s)	794
PpsI	GAGTC	1 cut(s)	794
PshBI	ATTAAT	1 cut(s)	276
Psp124BI	GAGCTC	1 cut(s)	505
PspFI	CCCAGC	1 cut(s)	260
PspN4I	GGNNCC	3 cut(s)	445, 741, 793
PspPI	GGNCC	1 cut(s)	740
PsuI	RGATCY	1 cut(s)	392
PsyI	GACNNNGTC	1 cut(s)	569
RsaI	GTAC	3 cut(s)	292, 445, 793
RsaNI	GTAC	3 cut(s)	291, 444, 792
RseI	CAYNNNNRTG	1 cut(s)	632
SacI	GAGCTC	1 cut(s)	505
SalI	GTCGAC	1 cut(s)	545
SaqAI	TTAA	7 cut(s)	246, 276, 375, 654, 758, 833, 937
SatI	GCNGC	1 cut(s)	367
Sau3AI	GATC	2 cut(s)	392, 820
Sau96I	GGNCC	1 cut(s)	740
SchI	GAGTC	1 cut(s)	795
SduI	GDGCHC	1 cut(s)	505
SfaNI	GCATC	1 cut(s)	661
SinI	GGWCC	1 cut(s)	740
SmiMI	CAYNNNNRTG	1 cut(s)	632
SmlI	CTYRAG	7 cut(s)	131, 396, 461, 486, 581, 677, 734
SmoI	CTYRAG	7 cut(s)	131, 396, 461, 486, 581, 677, 734
Sse9I	AATT	5 cut(s)	118, 265, 277, 806, 830
SspI	AATATT	1 cut(s)	863
SspMI	CTAG	3 cut(s)	420, 425, 612
SstI	GAGCTC	1 cut(s)	505
TaaI	ACNGT	1 cut(s)	724
TaiI	ACGT	1 cut(s)	546
TaqI	TCGA	3 cut(s)	546, 561, 588
TasI	AATT	5 cut(s)	118, 265, 277, 806, 830
TfiI	GAWTC	1 cut(s)	416
Tru1I	TTAA	7 cut(s)	246, 276, 375, 654, 758, 833, 937
Tru9I	TTAA	7 cut(s)	246, 276, 375, 654, 758, 833, 937
TscAI	CASTG	3 cut(s)	179, 334, 846
TseFI	GTSAC	1 cut(s)	481
TseI	GCWGC	1 cut(s)	366
Tsp45I	GTSAC	1 cut(s)	481
TspDTI	ATGAA	7 cut(s)	204, 290, 300, 501, 644, 717, 801
TspGWI	ACGGA	1 cut(s)	547
TspRI	CASTG	3 cut(s)	179, 334, 846
Tth111I	GACNNNGTC	1 cut(s)	569
VpaK11BI	GGWCC	1 cut(s)	740
VspI	ATTAAT	1 cut(s)	276
XapI	RAATTY	1 cut(s)	806
XcmI	CCANNNNNNNNNTGG	1 cut(s)	631
XmiI	GTMKAC	1 cut(s)	546
XspI	CTAG	3 cut(s)	420, 425, 612

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