Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Reverse (-)

78656525 .. 78657307

Gene Structure 783 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG502200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGCAGGACCCTAATAAATCACTTAGAGATCCAGTTTATTATCGTTGCAATCCAATGCCACATCATAGGAAAGGGTCTGATTACAAGGTCTACCCAACTTATGATTTTGCTTGTCCATTTGTTGATTCCATTGAAGGTATAACCCATGCACTTCGATCCAGTGAGTATCATGATCGCAACGCCCAGTACTATCGGATTCAAGATGATATGGGACTGAGAAGAGTGCATCTGTATGAGTTCAGTAGGTTGAACATGGTCTATACACTCCTCAGCAAGCGCAAGCTTTTGTGGTTTGTTCAAAATGAGAAGGTCAACGGATGGGATGATCCTCTATTTCCAACTGTTCAAGGAATTGTGCGTAGAGGTCTCAAAGTTGAAGCATTGATACAGTTCATTCTTGAGCAGGGGGCTTCAAAGAATCTGAATCTTATGGAATGGGACAAACTGTGGACAATTAACAAGAAGATTATTGATCCTGTATGCCCAAGACATACTGCCGTCATTGAAGAGGGACGAGTGTTGTTGACCCTCTCTAATGGCCCTGAGAAGCCATTTGTCCGCATAATACCTAGGCATAAGAAGTATGAAGGTGCTGGAGAAAAGGCAACAACATTCACAAGAAGCATATGGATAGATCGAGCTGATGCAGAGTTGATATCAGTAGACGAGGAAGTGACATTGATGGATTGGGGGAATGCCATTGTTAAGAAAATTGAGAAAGACCAAGACGAAAATCTTGCGCTCACAGGGGTTTTGCATCTTGAACTCTTGAACGATCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002181 GO:0003674 GO:0003824 GO:0004812 GO:0004818 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006424 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 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:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00860 ko00970 ko01100 ko01110 ko01120 map00860 map00970 map01100 map01110 map01120

Pfam Domains

Protein Families

GST_C GST_C_3 tRNA-synt_1c tRNA-synt_1c_C

Protein Analysis

260

Amino Acids

30.34

Weight (kDa)

6.72

Isoelectric Point (pI)

37.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	6 - 158	3.3e-42	tRNA synthetases class I (E and Q), catalytic domain
tRNA-synt_1c_C	PF03950	161 - 246	1.8e-16	tRNA synthetases class I (E and Q), anti-codon binding 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: OG0001659)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26710
fragaria_vesca	FvH4_1g07040 FvH4_3g18420 FvH4_5g29940 FvH4_5g29940 FvH4_6g08750
malus_domestica	MD04G1184100.v1.1 MD12G1197300.v1.1
prunus_persica	Prupe.6G302600_v2.0.a1 Prupe.6G302600_v2.0.a1
pyrus_communis	pycom04g16310
rosa_chinensis	RchiOBHm_Chr1g0323481 RchiOBHm_Chr1g0323531 RchiOBHm_Chr1g0330311 RchiOBHm_Chr1g0330321 RchiOBHm_Chr1g0330421 RchiOBHm_Chr1g0330431 RchiOBHm_Chr3g0459011
rosa_laevigata	RLG00000025126 RLG00000029811 RLG00000030323 RLG00000030332
rosa_multiflora	Rmu_co8493977.1_g000001 Rmu_sc0002634.1_g000044 Rmu_sc0004343.1_g000022 Rmu_sc0007290.1_g000009 Rmu_sc0007290.1_g000010
rosa_roxburghii	Rroxscaffold_4G00319950 Rroxscaffold_4G00319960 Rroxscaffold_6G00420600
rosa_rugosa	Rorug01G0088900 Rorug03G0032500 Rorug05G0414800
rosa_samantha	Rh1AG106700 Rh1AG106800 Rh1CG056600 Rh1CG057900 Rh1CG102700 Rh1CG102800 Rh1DG060600 Rh1DG061700 Rh1DG110600 Rh3BG093600 Rh5DG502200 Rh6BG457000 Rh6BG457100
rosa_wichuraiana	Rw1G008430 Rw1G008550 Rw3G007770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	90, 663
AciI	CCGC	1 cut(s)	559
AclWI	GGATC	4 cut(s)	23, 150, 320, 467
AfaI	GTAC	1 cut(s)	188
AluBI	AGCT	2 cut(s)	283, 641
AluI	AGCT	2 cut(s)	283, 641
Alw26I	GTCTC	1 cut(s)	371
AlwI	GGATC	4 cut(s)	23, 150, 320, 467
AoxI	GGCC	1 cut(s)	538
AspA2I	CCTAGG	1 cut(s)	569
AspLEI	GCGC	2 cut(s)	279, 742
AspS9I	GGNCC	2 cut(s)	7, 539
AvaII	GGWCC	1 cut(s)	7
AvrII	CCTAGG	1 cut(s)	569
BarI	GAAGNNNNNNTAC	2 cut(s)	369, 401
BbvCI	CCTCAGC	1 cut(s)	269
BccI	CCATC	2 cut(s)	312, 676
BceAI	ACGGC	1 cut(s)	482
BcgI	CGANNNNNNTGC	2 cut(s)	719, 753
BcoDI	GTCTC	1 cut(s)	371
BfaI	CTAG	1 cut(s)	570
BlnI	CCTAGG	1 cut(s)	569
BmcAI	AGTACT	1 cut(s)	188
Bme18I	GGWCC	1 cut(s)	7
BmgT120I	GGNCC	2 cut(s)	7, 539
BmiI	GGNNCC	1 cut(s)	9
BmrI	ACTGGG	1 cut(s)	178
BmsI	GCATC	3 cut(s)	235, 634, 766
BmuI	ACTGGG	1 cut(s)	178
BpmI	CTGGAG	1 cut(s)	615
Bpu10I	CCTNAGC	1 cut(s)	269
BpuEI	CTTGAG	1 cut(s)	419
BsaI	GGTCTC	1 cut(s)	371
BsaJI	CCNNGG	1 cut(s)	569
Bse1I	ACTGG	3 cut(s)	32, 159, 184
BseDI	CCNNGG	1 cut(s)	569
BseGI	GGATG	2 cut(s)	323, 328
BseMII	CTCAG	3 cut(s)	206, 283, 534
BseNI	ACTGG	3 cut(s)	32, 159, 184
BseRI	GAGGAG	1 cut(s)	257
BshFI	GGCC	1 cut(s)	540
BslFI	GGGAC	3 cut(s)	225, 452, 525
BsmAI	GTCTC	1 cut(s)	371
BsmFI	GGGAC	3 cut(s)	225, 452, 525
BsmI	GAATGC	1 cut(s)	700
BsnI	GGCC	1 cut(s)	540
Bso31I	GGTCTC	1 cut(s)	371
Bsp143I	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
BspACI	CCGC	1 cut(s)	559
BspANI	GGCC	1 cut(s)	540
BspCNI	CTCAG	3 cut(s)	207, 282, 535
BspHI	TCATGA	1 cut(s)	169
BspLI	GGNNCC	1 cut(s)	9
BspPI	GGATC	4 cut(s)	23, 150, 320, 467
BspTNI	GGTCTC	1 cut(s)	371
BsrI	ACTGG	3 cut(s)	32, 159, 184
BssECI	CCNNGG	1 cut(s)	569
BssMI	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
BssT1I	CCWWGG	1 cut(s)	569
Bst4CI	ACNGT	3 cut(s)	343, 390, 447
Bst6I	CTCTTC	2 cut(s)	214, 501
BstC8I	GCNNGC	2 cut(s)	275, 281
BstDEI	CTNAG	4 cut(s)	23, 215, 269, 543
BstF5I	GGATG	2 cut(s)	323, 328
BstHHI	GCGC	2 cut(s)	279, 742
BstKTI	GATC	7 cut(s)	31, 158, 175, 328, 475, 637, 778
BstMAI	GTCTC	1 cut(s)	371
BstMBI	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
BstX2I	RGATCY	1 cut(s)	28
BstYI	RGATCY	1 cut(s)	28
BsuRI	GGCC	1 cut(s)	540
BtsCI	GGATG	2 cut(s)	323, 328
BtsIMutI	CAGTG	1 cut(s)	166
Cac8I	GCNNGC	2 cut(s)	275, 281
CciI	TCATGA	1 cut(s)	169
CfoI	GCGC	2 cut(s)	279, 742
Cfr13I	GGNCC	2 cut(s)	7, 539
Csp6I	GTAC	1 cut(s)	187
CviAII	CATG	3 cut(s)	146, 170, 253
CviJI	RGCY	5 cut(s)	283, 410, 540, 550, 641
CviKI_1	RGCY	5 cut(s)	283, 410, 540, 550, 641
CviQI	GTAC	1 cut(s)	187
DdeI	CTNAG	4 cut(s)	23, 215, 269, 543
DpnI	GATC	7 cut(s)	30, 157, 174, 327, 474, 636, 777
DpnII	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
Eam1104I	CTCTTC	2 cut(s)	214, 501
EarI	CTCTTC	2 cut(s)	214, 501
Eco130I	CCWWGG	1 cut(s)	569
Eco31I	GGTCTC	1 cut(s)	371
Eco32I	GATATC	1 cut(s)	657
Eco47I	GGWCC	1 cut(s)	7
EcoO109I	RGGNCCY	1 cut(s)	7
EcoRV	GATATC	1 cut(s)	657
EcoT14I	CCWWGG	1 cut(s)	569
ErhI	CCWWGG	1 cut(s)	569
FaeI	CATG	3 cut(s)	149, 173, 256
FaqI	GGGAC	3 cut(s)	225, 452, 525
FatI	CATG	3 cut(s)	145, 169, 252
FauNDI	CATATG	1 cut(s)	626
FblI	GTMKAC	2 cut(s)	90, 663
FokI	GGATG	2 cut(s)	330, 335
FspBI	CTAG	1 cut(s)	570
GlaI	GCGC	2 cut(s)	278, 741
GsuI	CTGGAG	1 cut(s)	615
HaeIII	GGCC	1 cut(s)	540
HhaI	GCGC	2 cut(s)	279, 742
Hin1II	CATG	3 cut(s)	149, 173, 256
Hin6I	GCGC	2 cut(s)	277, 740
HinP1I	GCGC	2 cut(s)	277, 740
HincII	GTYRAC	2 cut(s)	313, 525
HindII	GTYRAC	2 cut(s)	313, 525
HindIII	AAGCTT	1 cut(s)	281
HinfI	GANTC	4 cut(s)	125, 196, 418, 424
Hpy166II	GTNNAC	5 cut(s)	91, 313, 450, 525, 664
Hpy188I	TCNGA	3 cut(s)	79, 195, 423
Hpy188III	TCNNGA	5 cut(s)	170, 200, 398, 761, 769
Hpy8I	GTNNAC	5 cut(s)	91, 313, 450, 525, 664
HpyAV	CCTTC	3 cut(s)	128, 301, 581
HpyCH4III	ACNGT	3 cut(s)	343, 390, 447
HpyCH4V	TGCA	6 cut(s)	4, 48, 149, 226, 647, 757
HpyF3I	CTNAG	4 cut(s)	23, 215, 269, 543
Hsp92II	CATG	3 cut(s)	149, 173, 256
HspAI	GCGC	2 cut(s)	277, 740
Kzo9I	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
LpnPI	CCDG	8 cut(s)	45, 172, 197, 389, 489, 555, 579, 732
LweI	GCATC	3 cut(s)	235, 634, 766
MaeI	CTAG	1 cut(s)	570
MaeIII	GTNAC	1 cut(s)	673
MalI	GATC	7 cut(s)	30, 157, 174, 327, 474, 636, 777
MboI	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
MboII	GAAGA	3 cut(s)	231, 475, 518
MflI	RGATCY	1 cut(s)	28
MluCI	AATT	3 cut(s)	351, 453, 711
MmeI	TCCRAC	1 cut(s)	362
MnlI	CCTC	6 cut(s)	278, 339, 356, 502, 539, 661
MseI	TTAA	2 cut(s)	456, 705
MslI	CAYNNNNRTG	1 cut(s)	231
Mva1269I	GAATGC	1 cut(s)	700
NdeI	CATATG	1 cut(s)	626
NdeII	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
NlaIII	CATG	3 cut(s)	149, 173, 256
NlaIV	GGNNCC	1 cut(s)	9
NmuCI	GTSAC	1 cut(s)	673
PagI	TCATGA	1 cut(s)	169
PctI	GAATGC	1 cut(s)	700
PfeI	GAWTC	4 cut(s)	125, 196, 418, 424
PpuMI	RGGWCCY	1 cut(s)	7
Psp5II	RGGWCCY	1 cut(s)	7
PspN4I	GGNNCC	1 cut(s)	9
PspPI	GGNCC	2 cut(s)	7, 539
PspPPI	RGGWCCY	1 cut(s)	7
PsuI	RGATCY	1 cut(s)	28
RsaI	GTAC	1 cut(s)	188
RsaNI	GTAC	1 cut(s)	187
RseI	CAYNNNNRTG	1 cut(s)	231
SaqAI	TTAA	2 cut(s)	456, 705
Sau3AI	GATC	7 cut(s)	28, 155, 172, 325, 472, 634, 775
Sau96I	GGNCC	2 cut(s)	7, 539
ScaI	AGTACT	1 cut(s)	188
SetI	ASST	9 cut(s)	90, 139, 248, 285, 312, 367, 571, 592, 643
SfaNI	GCATC	3 cut(s)	235, 634, 766
SinI	GGWCC	1 cut(s)	7
SmiMI	CAYNNNNRTG	1 cut(s)	231
SmlI	CTYRAG	1 cut(s)	398
SmoI	CTYRAG	1 cut(s)	398
Sse9I	AATT	3 cut(s)	351, 453, 711
SsiI	CCGC	1 cut(s)	559
SspMI	CTAG	1 cut(s)	570
StyI	CCWWGG	1 cut(s)	569
TaaI	ACNGT	3 cut(s)	343, 390, 447
TaqI	TCGA	2 cut(s)	154, 637
TasI	AATT	3 cut(s)	351, 453, 711
TatI	WGTACW	1 cut(s)	186
TfiI	GAWTC	4 cut(s)	125, 196, 418, 424
Tru1I	TTAA	2 cut(s)	456, 705
Tru9I	TTAA	2 cut(s)	456, 705
TscAI	CASTG	1 cut(s)	166
TseFI	GTSAC	1 cut(s)	673
Tsp45I	GTSAC	1 cut(s)	673
TspDTI	ATGAA	2 cut(s)	382, 600
TspGWI	ACGGA	1 cut(s)	330
TspRI	CASTG	1 cut(s)	166
VpaK11BI	GGWCC	1 cut(s)	7
XmaJI	CCTAGG	1 cut(s)	569
XmiI	GTMKAC	2 cut(s)	90, 663
XspI	CTAG	1 cut(s)	570
ZrmI	AGTACT	1 cut(s)	188

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