Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Reverse (-)

21335551 .. 21335988

Gene Structure 438 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG102700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 252 bp

ATGGAGTTTGATTATCTGATAACAAAGAAGAAGCTTGAGGAAGGTGAGGATTTCGTTGATGTGCTTAACCCATGTACCGAAAAGGAGACAGCAGCCCTTGGGGATCCCAACATGCGAAATCTGAAGTGTGGAGATGTAGTGCAACTTGAGAGGAAAGGATACTTCAGATGTGATGTTCCCTACCTTAAGCCTTCAAAGCCTATTGTTCTCTCTGCAATCCCCGATGGCAGGCAGCAGGCTGGGTTAAAGTGA

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

83

Amino Acids

9.37

Weight (kDa)

5.4

Isoelectric Point (pI)

20.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c_C2	PF20974	2 - 58	8.8e-14	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)

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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)
AclWI	GGATC	2 cut(s)	98, 111
AcuI	CTGAAG	2 cut(s)	143, 148
AfaI	GTAC	1 cut(s)	76
AfiI	CCNNNNNNNGG	1 cut(s)	228
AflII	CTTAAG	1 cut(s)	185
AgsI	TTSAA	1 cut(s)	195
AluBI	AGCT	1 cut(s)	34
AluI	AGCT	1 cut(s)	34
Alw26I	GTCTC	1 cut(s)	80
AlwI	GGATC	2 cut(s)	98, 111
ApeKI	GCWGC	2 cut(s)	92, 232
AsuHPI	GGTGA	1 cut(s)	56
BaeI	ACNNNNGTAYC	2 cut(s)	58, 91
BamHI	GGATCC	1 cut(s)	103
BbvI	GCAGC	2 cut(s)	104, 244
BccI	CCATC	1 cut(s)	218
BciVI	GTATCC	1 cut(s)	152
BcoDI	GTCTC	1 cut(s)	80
BfrI	CTTAAG	1 cut(s)	185
BfuI	GTATCC	1 cut(s)	152
BisI	GCNGC	2 cut(s)	93, 233
BlsI	GCNGC	2 cut(s)	94, 234
BmiI	GGNNCC	1 cut(s)	105
BpuEI	CTTGAG	2 cut(s)	56, 167
BsaJI	CCNNGG	1 cut(s)	97
BsaXI	ACNNNNNCTCC	2 cut(s)	123, 153
Bsc4I	CCNNNNNNNGG	1 cut(s)	228
BseDI	CCNNGG	1 cut(s)	97
BseLI	CCNNNNNNNGG	1 cut(s)	228
BseXI	GCAGC	2 cut(s)	104, 244
BseYI	CCCAGC	1 cut(s)	239
BslI	CCNNNNNNNGG	1 cut(s)	228
BsmAI	GTCTC	1 cut(s)	80
Bsp143I	GATC	1 cut(s)	103
BspLI	GGNNCC	1 cut(s)	105
BspPI	GGATC	2 cut(s)	98, 111
BspTI	CTTAAG	1 cut(s)	185
BssECI	CCNNGG	1 cut(s)	97
BssMI	GATC	1 cut(s)	103
BssT1I	CCWWGG	1 cut(s)	97
BstAFI	CTTAAG	1 cut(s)	185
BstC8I	GCNNGC	2 cut(s)	230, 237
BstKTI	GATC	1 cut(s)	106
BstMAI	GTCTC	1 cut(s)	80
BstMBI	GATC	1 cut(s)	103
BstMWI	GCNNNNNNNGC	1 cut(s)	196
BstNSI	RCATGY	1 cut(s)	115
BstV1I	GCAGC	2 cut(s)	104, 244
BstX2I	RGATCY	1 cut(s)	103
BstYI	RGATCY	1 cut(s)	103
BsuI	GTATCC	1 cut(s)	152
Cac8I	GCNNGC	2 cut(s)	230, 237
Csp6I	GTAC	1 cut(s)	75
CviAII	CATG	2 cut(s)	72, 112
CviJI	RGCY	5 cut(s)	34, 95, 190, 199, 239
CviKI_1	RGCY	5 cut(s)	34, 95, 190, 199, 239
CviQI	GTAC	1 cut(s)	75
DpnI	GATC	1 cut(s)	105
DpnII	GATC	1 cut(s)	103
Eco130I	CCWWGG	1 cut(s)	97
Eco57I	CTGAAG	2 cut(s)	143, 148
EcoT14I	CCWWGG	1 cut(s)	97
ErhI	CCWWGG	1 cut(s)	97
FaeI	CATG	2 cut(s)	75, 115
FaiI	YATR	2 cut(s)	73, 113
FatI	CATG	2 cut(s)	71, 111
Fnu4HI	GCNGC	2 cut(s)	93, 233
Fsp4HI	GCNGC	2 cut(s)	93, 233
GluI	GCNGC	2 cut(s)	93, 233
GsaI	CCCAGC	1 cut(s)	243
Hin1II	CATG	2 cut(s)	75, 115
HindIII	AAGCTT	1 cut(s)	32
HphI	GGTGA	1 cut(s)	56
Hpy188I	TCNGA	3 cut(s)	18, 123, 167
HpyAV	CCTTC	2 cut(s)	35, 201
HpyCH4V	TGCA	2 cut(s)	142, 215
HpyF10VI	GCNNNNNNNGC	1 cut(s)	196
Hsp92II	CATG	2 cut(s)	75, 115
Kzo9I	GATC	1 cut(s)	103
LpnPI	CCDG	3 cut(s)	214, 221, 225
Lsp1109I	GCAGC	2 cut(s)	104, 244
MalI	GATC	1 cut(s)	105
MboI	GATC	1 cut(s)	103
MboII	GAAGA	1 cut(s)	40
MflI	RGATCY	1 cut(s)	103
MnlI	CCTC	3 cut(s)	31, 40, 144
MseI	TTAA	3 cut(s)	66, 186, 245
MspCI	CTTAAG	1 cut(s)	185
MwoI	GCNNNNNNNGC	1 cut(s)	196
NdeII	GATC	1 cut(s)	103
NlaIII	CATG	2 cut(s)	75, 115
NlaIV	GGNNCC	1 cut(s)	105
NspI	RCATGY	1 cut(s)	115
PkrI	GCNGC	2 cut(s)	94, 234
PspFI	CCCAGC	1 cut(s)	239
PspN4I	GGNNCC	1 cut(s)	105
PsuI	RGATCY	1 cut(s)	103
RsaI	GTAC	1 cut(s)	76
RsaNI	GTAC	1 cut(s)	75
SaqAI	TTAA	3 cut(s)	66, 186, 245
SatI	GCNGC	2 cut(s)	93, 233
Sau3AI	GATC	1 cut(s)	103
SetI	ASST	3 cut(s)	36, 46, 186
SgeI	CNNG	8 cut(s)	47, 84, 110, 124, 158, 233, 241, 248
SmlI	CTYRAG	3 cut(s)	35, 146, 185
SmoI	CTYRAG	3 cut(s)	35, 146, 185
StyI	CCWWGG	1 cut(s)	97
Tru1I	TTAA	3 cut(s)	66, 186, 245
Tru9I	TTAA	3 cut(s)	66, 186, 245
TseI	GCWGC	2 cut(s)	92, 232
Vha464I	CTTAAG	1 cut(s)	185
XceI	RCATGY	1 cut(s)	115

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