Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0017373

Physical Location & Seq

Genomic Coordinates Reverse (-)

36010023 .. 36018203

Gene Structure 8181 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG181300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGGGAGACCTCGCCGTTACTTCCAATGAGGGCCCCAAGCTCCCCATCCCAGGCCAACGCAATGTCCTCATCACCAGCGCATTGCCGTACGTCAACAACGTCCCTCATCTCGGCAACATCATCGGCTGCGTTCTCAGCGCCAACGTCTTCACTCGCTACTGCCGTCTCCGGGGATACAACACCGTCTATATCTGCGGCACCGATGAGTACGGCACCGCCACCGAGACTAAAGCCCTGGAGGAGAAGTGTAGCCCCAAGGAGATATGTGATAAGTACCATGCGATTCATAGGCAGGTGTACGAGTGGTTCAATATAAGTTTTGACAAATTTGGGCGAACTTCGACGCCGGAGCAGACGGAGGTGTGCCAAGCGATTTTCAATAGGCTGCTGGAGAATAATTGGCTTTCTGAGAACACAATGCAGCAGCTATATTGTGATACTTGCACACGGTTTTTAGCCGATAGGCTCGTGGAGGGGACGTGCCCAACTCAAGGTTGTGATTATGCTTCTGCAAGAGGAGATCAGTGTGAGAACTGTGGGAAGCTTTTAAACCCCACAGAATTAAAGGATCCGAAGTGCAAGGTCTGTAAGTCGAGTCCCCGGATTCGTGATACAAACCATTTGTTTTTGGAACTGCCTTTGCTGAAGGATAGGTTGGAAGAGTATATTACTAAAATATCCATTAGAGTTCTGGCGAAAATTGAGAGCTTCGAAGCCATTCAGAAGCGGGAAGAAATCATTGAAGCTTCTTATGGAGTCATAATTGCTCGGGTTGATCTTGGAGGTGAAATCCCACTCGAACAGATTCCAATAGTCCAAGAGGAAATAACTCAATTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016070 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 GO:0042221 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046686 GO:0050896 GO:0071704 GO:0090304 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00450 ko00970 map00450 map00970

Pfam Domains

Protein Families

Anticodon_1 tRNA-synt_1g tRNA_bind

Protein Analysis

279

Amino Acids

31.59

Weight (kDa)

5.32

Isoelectric Point (pI)

32.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1g	PF09334	22 - 227	2.6e-77	tRNA synthetases class I (M)
tRNA-synt_1	PF00133	24 - 86	9.3e-06	tRNA synthetases class I (I, L, M and V)
PK	PF00224	226 - 276	4.8e-10	Pyruvate kinase, barrel domain

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: OG0017373)

Species	Orthologous Gene IDs
malus_domestica	MD10G1160800.v1.1
rosa_chinensis	RchiOBHm_Chr4g0414261 RchiOBHm_Chr4g0445731
rosa_laevigata	RLG00000005712
rosa_multiflora	Rmu_sc0003637.1_g000009 Rmu_sc0003637.1_g000010
rosa_roxburghii	Rroxscaffold_2G00121530
rosa_samantha	Rh4AG426200 Rh4CG453200 Rh4DG180400 Rh4DG181300 Rh4DG434400
rosa_wichuraiana	Rw4G036500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	283
Acc36I	ACCTGC	1 cut(s)	283
AccB1I	GGYRCC	2 cut(s)	197, 212
AciI	CCGC	3 cut(s)	195, 216, 727
AclWI	GGATC	2 cut(s)	563, 576
AcsI	RAATTY	1 cut(s)	326
AcuI	CTGAAG	1 cut(s)	665
AcyI	GRCGYC	1 cut(s)	344
AfaI	GTAC	4 cut(s)	89, 209, 275, 299
AfiI	CCNNNNNNNGG	4 cut(s)	50, 110, 169, 491
AgsI	TTSAA	3 cut(s)	310, 379, 743
AjiI	CACGTC	1 cut(s)	480
AjnI	CCWGG	2 cut(s)	49, 234
AjuI	GAANNNNNNNTTGG	2 cut(s)	638, 670
AluBI	AGCT	5 cut(s)	40, 427, 544, 708, 746
AluI	AGCT	5 cut(s)	40, 427, 544, 708, 746
Alw26I	GTCTC	2 cut(s)	170, 218
AlwI	GGATC	2 cut(s)	563, 576
Ama87I	CYCGRG	1 cut(s)	768
AoxI	GGCC	2 cut(s)	31, 52
ApaI	GGGCCC	1 cut(s)	35
ApeKI	GCWGC	4 cut(s)	126, 385, 421, 424
ApoI	RAATTY	1 cut(s)	326
Asp700I	GAANNNNTTC	2 cut(s)	717, 804
AspLEI	GCGC	2 cut(s)	80, 140
AspS9I	GGNCC	2 cut(s)	31, 32
AsuC2I	CCSGG	2 cut(s)	170, 601
AsuHPI	GGTGA	2 cut(s)	64, 797
AsuII	TTCGAA	1 cut(s)	711
AvaI	CYCGRG	1 cut(s)	768
BaeGI	GKGCMC	2 cut(s)	35, 485
BamHI	GGATCC	1 cut(s)	568
BanI	GGYRCC	2 cut(s)	197, 212
BanII	GRGCYC	1 cut(s)	35
BauI	CACGAG	1 cut(s)	467
BbsI	GAAGAC	1 cut(s)	139
BbvI	GCAGC	4 cut(s)	113, 372, 433, 436
BccI	CCATC	1 cut(s)	53
BceAI	ACGGC	3 cut(s)	70, 147, 226
BcgI	CGANNNNNNTGC	2 cut(s)	103, 137
BciT130I	CCWGG	2 cut(s)	51, 236
BciVI	GTATCC	1 cut(s)	167
BcnI	CCSGG	2 cut(s)	170, 601
BcoDI	GTCTC	2 cut(s)	170, 218
BfoI	RGCGCY	1 cut(s)	141
BfuAI	ACCTGC	1 cut(s)	283
BfuI	GTATCC	1 cut(s)	167
BisI	GCNGC	5 cut(s)	127, 196, 386, 422, 425
BlsI	GCNGC	5 cut(s)	128, 197, 387, 423, 426
Bme1390I	CCNGG	4 cut(s)	51, 170, 236, 601
BmeT110I	CYCGRG	1 cut(s)	768
BmgBI	CACGTC	1 cut(s)	480
BmgT120I	GGNCC	2 cut(s)	31, 32
BmiI	GGNNCC	5 cut(s)	33, 34, 199, 214, 570
BmrFI	CCNGG	4 cut(s)	51, 170, 236, 601
BpiI	GAAGAC	1 cut(s)	139
BpmI	CTGGAG	2 cut(s)	257, 410
Bpu14I	TTCGAA	1 cut(s)	711
BpuEI	CTTGAG	1 cut(s)	474
BpuMI	CCSGG	2 cut(s)	170, 601
BsaHI	GRCGYC	1 cut(s)	344
BsaJI	CCNNGG	5 cut(s)	49, 169, 234, 255, 599
BsaXI	ACNNNNNCTCC	4 cut(s)	230, 260, 464, 494
Bsc4I	CCNNNNNNNGG	4 cut(s)	50, 110, 169, 491
Bse3DI	GCAATG	2 cut(s)	67, 80
BseBI	CCWGG	2 cut(s)	51, 236
BseDI	CCNNGG	5 cut(s)	49, 169, 234, 255, 599
BseGI	GGATG	1 cut(s)	45
BseLI	CCNNNNNNNGG	4 cut(s)	50, 110, 169, 491
BseMI	GCAATG	2 cut(s)	67, 80
BseMII	CTCAG	2 cut(s)	148, 399
BseRI	GAGGAG	2 cut(s)	254, 531
BseSI	GKGCMC	2 cut(s)	35, 485
BseXI	GCAGC	4 cut(s)	113, 372, 433, 436
BshFI	GGCC	2 cut(s)	33, 54
BshNI	GGYRCC	2 cut(s)	197, 212
BsiHKCI	CYCGRG	1 cut(s)	768
BsiSI	CCGG	3 cut(s)	169, 347, 601
BsiWI	CGTACG	1 cut(s)	87
BslFI	GGGAC	3 cut(s)	86, 490, 582
BslI	CCNNNNNNNGG	4 cut(s)	50, 110, 169, 491
BsmAI	GTCTC	2 cut(s)	170, 218
BsmBI	CGTCTC	1 cut(s)	170
BsmFI	GGGAC	3 cut(s)	86, 490, 582
BsnI	GGCC	2 cut(s)	33, 54
BsoBI	CYCGRG	1 cut(s)	768
Bsp119I	TTCGAA	1 cut(s)	711
Bsp120I	GGGCCC	1 cut(s)	31
Bsp1286I	GDGCHC	2 cut(s)	35, 485
Bsp143I	GATC	3 cut(s)	520, 568, 775
BspACI	CCGC	3 cut(s)	195, 216, 727
BspANI	GGCC	2 cut(s)	33, 54
BspCNI	CTCAG	2 cut(s)	147, 400
BspLI	GGNNCC	5 cut(s)	33, 34, 199, 214, 570
BspMI	ACCTGC	1 cut(s)	283
BspPI	GGATC	2 cut(s)	563, 576
BspT104I	TTCGAA	1 cut(s)	711
BspT107I	GGYRCC	2 cut(s)	197, 212
BsrDI	GCAATG	2 cut(s)	67, 80
BssECI	CCNNGG	5 cut(s)	49, 169, 234, 255, 599
BssMI	GATC	3 cut(s)	520, 568, 775
BssNI	GRCGYC	1 cut(s)	344
BssSI	CACGAG	1 cut(s)	467
BssT1I	CCWWGG	1 cut(s)	255
Bst2BI	CACGAG	1 cut(s)	467
Bst2UI	CCWGG	2 cut(s)	51, 236
Bst4CI	ACNGT	3 cut(s)	184, 450, 536
Bst6I	CTCTTC	1 cut(s)	654
BstACI	GRCGYC	1 cut(s)	344
BstBI	TTCGAA	1 cut(s)	711
BstDEI	CTNAG	2 cut(s)	134, 408
BstF5I	GGATG	1 cut(s)	45
BstH2I	RGCGCY	1 cut(s)	141
BstHHI	GCGC	2 cut(s)	80, 140
BstKTI	GATC	3 cut(s)	523, 571, 778
BstMAI	GTCTC	2 cut(s)	170, 218
BstMBI	GATC	3 cut(s)	520, 568, 775
BstMWI	GCNNNNNNNGC	1 cut(s)	135
BstNI	CCWGG	2 cut(s)	51, 236
BstSCI	CCNGG	4 cut(s)	49, 168, 234, 599
BstSLI	GKGCMC	2 cut(s)	35, 485
BstV1I	GCAGC	4 cut(s)	113, 372, 433, 436
BstV2I	GAAGAC	1 cut(s)	139
BstX2I	RGATCY	1 cut(s)	568
BstYI	RGATCY	1 cut(s)	568
BsuI	GTATCC	1 cut(s)	167
BsuRI	GGCC	2 cut(s)	33, 54
BtrI	CACGTC	1 cut(s)	480
BtsCI	GGATG	1 cut(s)	45
BtsIMutI	CAGTG	1 cut(s)	530
BveI	ACCTGC	1 cut(s)	283
CfoI	GCGC	2 cut(s)	80, 140
Cfr13I	GGNCC	2 cut(s)	31, 32
CseI	GACGC	1 cut(s)	352
Csp6I	GTAC	4 cut(s)	88, 208, 274, 298
CviAII	CATG	1 cut(s)	278
CviQI	GTAC	4 cut(s)	88, 208, 274, 298
DdeI	CTNAG	2 cut(s)	134, 408
DpnI	GATC	3 cut(s)	522, 570, 777
DpnII	GATC	3 cut(s)	520, 568, 775
DraI	TTTAAA	1 cut(s)	549
Eam1104I	CTCTTC	1 cut(s)	654
EarI	CTCTTC	1 cut(s)	654
Eco130I	CCWWGG	1 cut(s)	255
Eco24I	GRGCYC	1 cut(s)	35
Eco57I	CTGAAG	1 cut(s)	665
Eco88I	CYCGRG	1 cut(s)	768
EcoO109I	RGGNCCY	2 cut(s)	31, 32
EcoRII	CCWGG	2 cut(s)	49, 234
EcoT14I	CCWWGG	1 cut(s)	255
EcoT38I	GRGCYC	1 cut(s)	35
ErhI	CCWWGG	1 cut(s)	255
Esp3I	CGTCTC	1 cut(s)	170
FaeI	CATG	1 cut(s)	281
FaqI	GGGAC	3 cut(s)	86, 490, 582
FatI	CATG	1 cut(s)	277
FauI	CCCGC	1 cut(s)	720
Fnu4HI	GCNGC	5 cut(s)	127, 196, 386, 422, 425
FokI	GGATG	1 cut(s)	32
FriOI	GRGCYC	1 cut(s)	35
Fsp4HI	GCNGC	5 cut(s)	127, 196, 386, 422, 425
GlaI	GCGC	2 cut(s)	79, 139
GluI	GCNGC	5 cut(s)	127, 196, 386, 422, 425
GsuI	CTGGAG	2 cut(s)	257, 410
HaeII	RGCGCY	1 cut(s)	141
HaeIII	GGCC	2 cut(s)	33, 54
HapII	CCGG	3 cut(s)	169, 347, 601
HgaI	GACGC	1 cut(s)	352
HhaI	GCGC	2 cut(s)	80, 140
Hin1I	GRCGYC	1 cut(s)	344
Hin1II	CATG	1 cut(s)	281
Hin6I	GCGC	2 cut(s)	78, 138
HinP1I	GCGC	2 cut(s)	78, 138
HincII	GTYRAC	1 cut(s)	94
HindII	GTYRAC	1 cut(s)	94
HindIII	AAGCTT	2 cut(s)	542, 744
HinfI	GANTC	5 cut(s)	283, 595, 604, 756, 805
HpaII	CCGG	3 cut(s)	169, 347, 601
HphI	GGTGA	2 cut(s)	64, 797
Hpy166II	GTNNAC	2 cut(s)	94, 298
Hpy188I	TCNGA	3 cut(s)	409, 573, 723
Hpy188III	TCNNGA	1 cut(s)	608
Hpy8I	GTNNAC	2 cut(s)	94, 298
Hpy99I	CGWCG	1 cut(s)	346
HpyAV	CCTTC	1 cut(s)	640
HpyCH4III	ACNGT	3 cut(s)	184, 450, 536
HpyCH4IV	ACGT	4 cut(s)	90, 99, 144, 479
HpyCH4V	TGCA	4 cut(s)	421, 444, 512, 579
HpyF10VI	GCNNNNNNNGC	1 cut(s)	135
HpyF3I	CTNAG	2 cut(s)	134, 408
HpySE526I	ACGT	4 cut(s)	90, 99, 144, 479
Hsp92I	GRCGYC	1 cut(s)	344
Hsp92II	CATG	1 cut(s)	281
HspAI	GCGC	2 cut(s)	78, 138
Kzo9I	GATC	3 cut(s)	520, 568, 775
LmnI	GCTCC	2 cut(s)	45, 349
Lsp1109I	GCAGC	4 cut(s)	113, 372, 433, 436
MaeII	ACGT	4 cut(s)	90, 99, 144, 479
MaeIII	GTNAC	1 cut(s)	16
MalI	GATC	3 cut(s)	522, 570, 777
MboI	GATC	3 cut(s)	520, 568, 775
MboII	GAAGA	3 cut(s)	139, 671, 743
MfeI	CAATTG	1 cut(s)	833
MflI	RGATCY	1 cut(s)	568
MhlI	GDGCHC	2 cut(s)	35, 485
MluCI	AATT	6 cut(s)	326, 397, 560, 699, 762, 833
MlyI	GAGTC	2 cut(s)	604, 765
MmeI	TCCRAC	1 cut(s)	636
MroXI	GAANNNNTTC	2 cut(s)	717, 804
MseI	TTAA	2 cut(s)	548, 563
MspI	CCGG	3 cut(s)	169, 347, 601
MspR9I	CCNGG	4 cut(s)	51, 170, 236, 601
MunI	CAATTG	1 cut(s)	833
MvaI	CCWGG	2 cut(s)	51, 236
MwoI	GCNNNNNNNGC	1 cut(s)	135
NciI	CCSGG	2 cut(s)	170, 601
NdeII	GATC	3 cut(s)	520, 568, 775
NlaIII	CATG	1 cut(s)	281
NlaIV	GGNNCC	5 cut(s)	33, 34, 199, 214, 570
NmeAIII	GCCGAG	1 cut(s)	90
NspV	TTCGAA	1 cut(s)	711
PaqCI	CACCTGC	1 cut(s)	283
PcsI	WCGNNNNNNNCGW	2 cut(s)	96, 160
PdmI	GAANNNNTTC	2 cut(s)	717, 804
PfeI	GAWTC	3 cut(s)	283, 604, 805
Pfl23II	CGTACG	1 cut(s)	87
PkrI	GCNGC	5 cut(s)	128, 197, 387, 423, 426
PleI	GAGTC	2 cut(s)	603, 764
PpsI	GAGTC	2 cut(s)	603, 764
Psp6I	CCWGG	2 cut(s)	49, 234
PspGI	CCWGG	2 cut(s)	49, 234
PspLI	CGTACG	1 cut(s)	87
PspN4I	GGNNCC	5 cut(s)	33, 34, 199, 214, 570
PspOMI	GGGCCC	1 cut(s)	31
PspPI	GGNCC	2 cut(s)	31, 32
PsrI	GAACNNNNNNTAC	2 cut(s)	290, 322
PsuI	RGATCY	1 cut(s)	568
RsaI	GTAC	4 cut(s)	89, 209, 275, 299
RsaNI	GTAC	4 cut(s)	88, 208, 274, 298
SaqAI	TTAA	2 cut(s)	548, 563
SatI	GCNGC	5 cut(s)	127, 196, 386, 422, 425
Sau3AI	GATC	3 cut(s)	520, 568, 775
Sau96I	GGNCC	2 cut(s)	31, 32
SchI	GAGTC	2 cut(s)	604, 765
ScrFI	CCNGG	4 cut(s)	51, 170, 236, 601
SduI	GDGCHC	2 cut(s)	35, 485
SfuI	TTCGAA	1 cut(s)	711
SmlI	CTYRAG	1 cut(s)	489
SmoI	CTYRAG	1 cut(s)	489
Sse9I	AATT	6 cut(s)	326, 397, 560, 699, 762, 833
SsiI	CCGC	3 cut(s)	195, 216, 727
StyD4I	CCNGG	4 cut(s)	49, 168, 234, 599
StyI	CCWWGG	1 cut(s)	255
TaaI	ACNGT	3 cut(s)	184, 450, 536
TaiI	ACGT	4 cut(s)	93, 102, 147, 482
TaqI	TCGA	4 cut(s)	341, 593, 711, 798
TasI	AATT	6 cut(s)	326, 397, 560, 699, 762, 833
TauI	GCSGC	1 cut(s)	198
TfiI	GAWTC	3 cut(s)	283, 604, 805
Tru1I	TTAA	2 cut(s)	548, 563
Tru9I	TTAA	2 cut(s)	548, 563
TscAI	CASTG	1 cut(s)	530
TseI	GCWGC	4 cut(s)	126, 385, 421, 424
TspDTI	ATGAA	1 cut(s)	275
TspGWI	ACGGA	1 cut(s)	371
TspRI	CASTG	1 cut(s)	530
XapI	RAATTY	1 cut(s)	326
XcmI	CCANNNNNNNNNTGG	1 cut(s)	688
XmnI	GAANNNNTTC	2 cut(s)	717, 804

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