Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0009332

Physical Location & Seq

Genomic Coordinates Forward (+)

47253313 .. 47257066

Gene Structure 3754 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG222400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 327 bp

ATGATCTCATTAGAGGGGAGTTGGAACTTGGACACTCTTGGAGATTTTGTAATTATGAGAAGCAATGGGCAACCGGTGTGCTATTTTTGTGTCACAGTTGATGATGCTAGCATGGCTATCTCACATGTTATTAGAGCAGATGAGCATTTACCAAGTACTCTAAGGCATGCATTAATATATAAGGGACTAGGATTTCCAATGCCTTACTTTGCACATGTATCCTTAATTCTTGCACCTGATAGAAGTAAGCTATCAAAAAGGCATGGAGCAACTTTAGTAGGCCAGGTAGTTATTTCTTCATTATACTCACTTTTAATTCATTGCTAA

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

108

Amino Acids

11.91

Weight (kDa)

7.0

Isoelectric Point (pI)

31.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	11 - 94	3.8e-20	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)
AfaI	GTAC	1 cut(s)	157
AflIII	ACRYGT	2 cut(s)	124, 214
AgeI	ACCGGT	1 cut(s)	73
AjnI	CCWGG	1 cut(s)	282
AluBI	AGCT	1 cut(s)	250
AluI	AGCT	1 cut(s)	250
AoxI	GGCC	1 cut(s)	280
AseI	ATTAAT	1 cut(s)	173
AsiGI	ACCGGT	1 cut(s)	73
AsuNHI	GCTAGC	1 cut(s)	107
BciT130I	CCWGG	1 cut(s)	284
BciVI	GTATCC	1 cut(s)	229
BfaI	CTAG	2 cut(s)	108, 188
BfuI	GTATCC	1 cut(s)	229
BmcAI	AGTACT	1 cut(s)	157
Bme1390I	CCNGG	1 cut(s)	284
BmrFI	CCNGG	1 cut(s)	284
BmsI	GCATC	1 cut(s)	94
BmtI	GCTAGC	1 cut(s)	111
BsaWI	WCCGGW	1 cut(s)	73
BsaXI	ACNNNNNCTCC	2 cut(s)	33, 63
Bse118I	RCCGGY	1 cut(s)	73
Bse3DI	GCAATG	2 cut(s)	70, 319
BseBI	CCWGG	1 cut(s)	284
BseMI	GCAATG	2 cut(s)	70, 319
BshFI	GGCC	1 cut(s)	282
BshTI	ACCGGT	1 cut(s)	73
BsiSI	CCGG	1 cut(s)	74
BslFI	GGGAC	1 cut(s)	198
BsmFI	GGGAC	1 cut(s)	198
BsnI	GGCC	1 cut(s)	282
Bsp143I	GATC	1 cut(s)	3
BspANI	GGCC	1 cut(s)	282
BspOI	GCTAGC	1 cut(s)	111
BsrDI	GCAATG	2 cut(s)	70, 319
BsrFI	RCCGGY	1 cut(s)	73
BssAI	RCCGGY	1 cut(s)	73
BssMI	GATC	1 cut(s)	3
Bst2UI	CCWGG	1 cut(s)	284
Bst4CI	ACNGT	1 cut(s)	97
BstC8I	GCNNGC	2 cut(s)	109, 168
BstDEI	CTNAG	1 cut(s)	161
BstKTI	GATC	1 cut(s)	6
BstMBI	GATC	1 cut(s)	3
BstMWI	GCNNNNNNNGC	1 cut(s)	113
BstNI	CCWGG	1 cut(s)	284
BstNSI	RCATGY	3 cut(s)	128, 170, 218
BstSCI	CCNGG	1 cut(s)	282
BsuI	GTATCC	1 cut(s)	229
BsuRI	GGCC	1 cut(s)	282
Cac8I	GCNNGC	2 cut(s)	109, 168
Cfr10I	RCCGGY	1 cut(s)	73
Csp6I	GTAC	1 cut(s)	156
CspAI	ACCGGT	1 cut(s)	73
CviAII	CATG	5 cut(s)	112, 125, 167, 215, 263
CviJI	RGCY	3 cut(s)	116, 250, 282
CviKI_1	RGCY	3 cut(s)	116, 250, 282
CviQI	GTAC	1 cut(s)	156
DdeI	CTNAG	1 cut(s)	161
DpnI	GATC	1 cut(s)	5
DpnII	GATC	1 cut(s)	3
EcoRII	CCWGG	1 cut(s)	282
EcoT22I	ATGCAT	1 cut(s)	172
FaeI	CATG	5 cut(s)	115, 128, 170, 218, 266
FaiI	YATR	9 cut(s)	56, 113, 126, 168, 178, 180, 216, 264, 304
FaqI	GGGAC	1 cut(s)	198
FatI	CATG	5 cut(s)	111, 124, 166, 214, 262
FspBI	CTAG	2 cut(s)	108, 188
HaeIII	GGCC	1 cut(s)	282
HapII	CCGG	1 cut(s)	74
Hin1II	CATG	5 cut(s)	115, 128, 170, 218, 266
HpaII	CCGG	1 cut(s)	74
HpyCH4III	ACNGT	1 cut(s)	97
HpyCH4V	TGCA	3 cut(s)	170, 212, 233
HpyF10VI	GCNNNNNNNGC	1 cut(s)	113
HpyF3I	CTNAG	1 cut(s)	161
Hsp92II	CATG	5 cut(s)	115, 128, 170, 218, 266
Kzo9I	GATC	1 cut(s)	3
LmnI	GCTCC	1 cut(s)	266
LpnPI	CCDG	4 cut(s)	87, 249, 269, 296
LweI	GCATC	1 cut(s)	94
MaeI	CTAG	2 cut(s)	108, 188
MaeIII	GTNAC	1 cut(s)	91
MalI	GATC	1 cut(s)	5
MboI	GATC	1 cut(s)	3
MboII	GAAGA	1 cut(s)	288
MluCI	AATT	3 cut(s)	51, 225, 315
MnlI	CCTC	1 cut(s)	7
Mph1103I	ATGCAT	1 cut(s)	172
MseI	TTAA	3 cut(s)	173, 224, 314
MspI	CCGG	1 cut(s)	74
MspR9I	CCNGG	1 cut(s)	284
MvaI	CCWGG	1 cut(s)	284
MwoI	GCNNNNNNNGC	1 cut(s)	113
NdeII	GATC	1 cut(s)	3
NheI	GCTAGC	1 cut(s)	107
NlaIII	CATG	5 cut(s)	115, 128, 170, 218, 266
NmuCI	GTSAC	1 cut(s)	91
NsiI	ATGCAT	1 cut(s)	172
NspI	RCATGY	3 cut(s)	128, 170, 218
PaeI	GCATGC	1 cut(s)	170
PciI	ACATGT	2 cut(s)	124, 214
PinAI	ACCGGT	1 cut(s)	73
PscI	ACATGT	2 cut(s)	124, 214
PshBI	ATTAAT	1 cut(s)	173
Psp6I	CCWGG	1 cut(s)	282
PspGI	CCWGG	1 cut(s)	282
RsaI	GTAC	1 cut(s)	157
RsaNI	GTAC	1 cut(s)	156
SaqAI	TTAA	3 cut(s)	173, 224, 314
Sau3AI	GATC	1 cut(s)	3
ScaI	AGTACT	1 cut(s)	157
ScrFI	CCNGG	1 cut(s)	284
SetI	ASST	3 cut(s)	238, 252, 288
SfaNI	GCATC	1 cut(s)	94
SphI	GCATGC	1 cut(s)	170
Sse9I	AATT	3 cut(s)	51, 225, 315
SspMI	CTAG	2 cut(s)	108, 188
StyD4I	CCNGG	1 cut(s)	282
TaaI	ACNGT	1 cut(s)	97
TasI	AATT	3 cut(s)	51, 225, 315
TatI	WGTACW	1 cut(s)	155
Tru1I	TTAA	3 cut(s)	173, 224, 314
Tru9I	TTAA	3 cut(s)	173, 224, 314
TseFI	GTSAC	1 cut(s)	91
Tsp45I	GTSAC	1 cut(s)	91
TspDTI	ATGAA	2 cut(s)	288, 308
VspI	ATTAAT	1 cut(s)	173
XceI	RCATGY	3 cut(s)	128, 170, 218
XspI	CTAG	2 cut(s)	108, 188
ZrmI	AGTACT	1 cut(s)	157
Zsp2I	ATGCAT	1 cut(s)	172

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