Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0009332

Physical Location & Seq

Genomic Coordinates Forward (+)

65869257 .. 65870145

Gene Structure 889 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG414300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 321 bp

ATGATCTCATTAGAGGGGAGTTGGAACTTGGACACTCTTGGAGATTTTGTAATTATGAGAAGCAATGGGCAACCGGTGTACTATTTTTGTATCACAATTGATGATGCTAACATGGCTATCTCACATATCGATGAGCATTTACCAAATACTCTAAGGCATGCATTAATATATAAGGTTGAATACAAGATGTTTCAGCCTTGGTTTCCTGAAGGCCAACCCCAGTTTCTTCTTTTTTACTTTTTTCTTTTTTATACTGGTTTTCCTTATTCTAAGAGACTCGTTGGGAATATTGATAAGTATTACTGTAATCTAAATATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006424 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0006996 GO:0007005 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009658 GO:0009791 GO:0009908 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0019538 GO:0019752 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0034645 GO:0034660 GO:0035670 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0061458 GO:0071704 GO:0071840 GO:0090304 GO:0090567 GO:0099402 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

tRNA-synt_1c

Protein Analysis

106

Amino Acids

12.61

Weight (kDa)

5.41

Isoelectric Point (pI)

50.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	11 - 58	1.4e-06	tRNA synthetases class I (E and Q), catalytic 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

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Orthologous Genes (Group: OG0009332)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43210
fragaria_vesca	FvH4_7g01930
malus_domestica	MD02G1299300.v1.1
prunus_persica	Prupe.2G025000_v2.0.a1 Prupe.2G025000_v2.0.a1
pyrus_communis	pycom02g25170
rosa_chinensis	RchiOBHm_Chr1g0318641 RchiOBHm_Chr1g0318771
rosa_laevigata	RLG00000030521
rosa_multiflora	Rmu_sc0001304.1_g000040 Rmu_sc0002545.1_g000016
rosa_roxburghii	Rroxscaffold_4G00329010
rosa_rugosa	Rorug01G0022400 Rorug01G0022400
rosa_samantha	Rh1AG035500 Rh1AG238000 Rh1BG031100 Rh1CG034400 Rh1CG222400 Rh1DG036000 Rh5DG414300
rosa_wichuraiana	Rw1G002770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcuI	CTGAAG	1 cut(s)	228
AfaI	GTAC	1 cut(s)	80
AgeI	ACCGGT	1 cut(s)	73
AgsI	TTSAA	1 cut(s)	179
AjuI	GAANNNNNNNTTGG	2 cut(s)	207, 239
Alw26I	GTCTC	1 cut(s)	268
AoxI	GGCC	1 cut(s)	211
AseI	ATTAAT	1 cut(s)	164
AsiGI	ACCGGT	1 cut(s)	73
BcoDI	GTCTC	1 cut(s)	268
BmrI	ACTGGG	1 cut(s)	214
BmsI	GCATC	1 cut(s)	94
BmuI	ACTGGG	1 cut(s)	214
Bsa29I	ATCGAT	1 cut(s)	129
BsaJI	CCNNGG	1 cut(s)	197
BsaWI	WCCGGW	1 cut(s)	73
BsaXI	ACNNNNNCTCC	2 cut(s)	33, 63
Bse118I	RCCGGY	1 cut(s)	73
Bse1I	ACTGG	2 cut(s)	220, 259
Bse3DI	GCAATG	1 cut(s)	70
BseCI	ATCGAT	1 cut(s)	129
BseDI	CCNNGG	1 cut(s)	197
BseMI	GCAATG	1 cut(s)	70
BseNI	ACTGG	2 cut(s)	220, 259
BshFI	GGCC	1 cut(s)	213
BshTI	ACCGGT	1 cut(s)	73
BshVI	ATCGAT	1 cut(s)	129
BsiSI	CCGG	1 cut(s)	74
BsmAI	GTCTC	1 cut(s)	268
BsnI	GGCC	1 cut(s)	213
Bsp143I	GATC	1 cut(s)	3
BspANI	GGCC	1 cut(s)	213
BspDI	ATCGAT	1 cut(s)	129
BsrDI	GCAATG	1 cut(s)	70
BsrFI	RCCGGY	1 cut(s)	73
BsrI	ACTGG	2 cut(s)	220, 259
BssAI	RCCGGY	1 cut(s)	73
BssECI	CCNNGG	1 cut(s)	197
BssMI	GATC	1 cut(s)	3
BssT1I	CCWWGG	1 cut(s)	197
Bst4CI	ACNGT	1 cut(s)	305
BstC8I	GCNNGC	1 cut(s)	159
BstDEI	CTNAG	2 cut(s)	152, 270
BstKTI	GATC	1 cut(s)	6
BstMAI	GTCTC	1 cut(s)	268
BstMBI	GATC	1 cut(s)	3
BstMWI	GCNNNNNNNGC	1 cut(s)	113
BstNSI	RCATGY	1 cut(s)	161
Bsu15I	ATCGAT	1 cut(s)	129
BsuRI	GGCC	1 cut(s)	213
BsuTUI	ATCGAT	1 cut(s)	129
Cac8I	GCNNGC	1 cut(s)	159
Cfr10I	RCCGGY	1 cut(s)	73
ClaI	ATCGAT	1 cut(s)	129
Csp6I	GTAC	1 cut(s)	79
CspAI	ACCGGT	1 cut(s)	73
CviAII	CATG	2 cut(s)	112, 158
CviJI	RGCY	3 cut(s)	116, 196, 213
CviKI_1	RGCY	3 cut(s)	116, 196, 213
CviQI	GTAC	1 cut(s)	79
DdeI	CTNAG	2 cut(s)	152, 270
DpnI	GATC	1 cut(s)	5
DpnII	GATC	1 cut(s)	3
Eco130I	CCWWGG	1 cut(s)	197
Eco57I	CTGAAG	1 cut(s)	228
EcoT14I	CCWWGG	1 cut(s)	197
EcoT22I	ATGCAT	1 cut(s)	163
ErhI	CCWWGG	1 cut(s)	197
FaeI	CATG	2 cut(s)	115, 161
FaiI	YATR	7 cut(s)	56, 113, 126, 159, 169, 171, 252
FatI	CATG	2 cut(s)	111, 157
HaeIII	GGCC	1 cut(s)	213
HapII	CCGG	1 cut(s)	74
Hin1II	CATG	2 cut(s)	115, 161
HinfI	GANTC	1 cut(s)	276
HpaII	CCGG	1 cut(s)	74
Hpy166II	GTNNAC	1 cut(s)	79
Hpy188III	TCNNGA	1 cut(s)	206
Hpy8I	GTNNAC	1 cut(s)	79
HpyAV	CCTTC	1 cut(s)	203
HpyCH4III	ACNGT	1 cut(s)	305
HpyCH4V	TGCA	1 cut(s)	161
HpyF10VI	GCNNNNNNNGC	1 cut(s)	113
HpyF3I	CTNAG	2 cut(s)	152, 270
Hsp92II	CATG	2 cut(s)	115, 161
Kzo9I	GATC	1 cut(s)	3
LpnPI	CCDG	4 cut(s)	87, 219, 233, 240
LweI	GCATC	1 cut(s)	94
MalI	GATC	1 cut(s)	5
MboI	GATC	1 cut(s)	3
MboII	GAAGA	1 cut(s)	218
MfeI	CAATTG	1 cut(s)	96
MluCI	AATT	2 cut(s)	51, 96
MlyI	GAGTC	1 cut(s)	270
MnlI	CCTC	1 cut(s)	7
Mph1103I	ATGCAT	1 cut(s)	163
MseI	TTAA	1 cut(s)	164
MslI	CAYNNNNRTG	1 cut(s)	129
MspI	CCGG	1 cut(s)	74
MunI	CAATTG	1 cut(s)	96
MwoI	GCNNNNNNNGC	1 cut(s)	113
NdeII	GATC	1 cut(s)	3
NlaIII	CATG	2 cut(s)	115, 161
NsiI	ATGCAT	1 cut(s)	163
NspI	RCATGY	1 cut(s)	161
PaeI	GCATGC	1 cut(s)	161
PinAI	ACCGGT	1 cut(s)	73
PleI	GAGTC	1 cut(s)	270
PpsI	GAGTC	1 cut(s)	270
PshBI	ATTAAT	1 cut(s)	164
RsaI	GTAC	1 cut(s)	80
RsaNI	GTAC	1 cut(s)	79
RseI	CAYNNNNRTG	1 cut(s)	129
SaqAI	TTAA	1 cut(s)	164
Sau3AI	GATC	1 cut(s)	3
SchI	GAGTC	1 cut(s)	270
SetI	ASST	1 cut(s)	177
SfaNI	GCATC	1 cut(s)	94
SmiMI	CAYNNNNRTG	1 cut(s)	129
SphI	GCATGC	1 cut(s)	161
Sse9I	AATT	2 cut(s)	51, 96
SspI	AATATT	1 cut(s)	289
StyI	CCWWGG	1 cut(s)	197
TaaI	ACNGT	1 cut(s)	305
TaqI	TCGA	1 cut(s)	129
TasI	AATT	2 cut(s)	51, 96
TatI	WGTACW	1 cut(s)	78
Tru1I	TTAA	1 cut(s)	164
Tru9I	TTAA	1 cut(s)	164
VspI	ATTAAT	1 cut(s)	164
XceI	RCATGY	1 cut(s)	161
Zsp2I	ATGCAT	1 cut(s)	163

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