Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0018138

Physical Location & Seq

Genomic Coordinates Reverse (-)

66951660 .. 66952881

Gene Structure 1222 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG387000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 336 bp

ATGTCTACTAAGGAGTCCAAGGAGGTTGTGTTGCAAGATCTCTCTTGGCTTGGTCTTGATTGGGATGAAGGGCCTGGGGTGAATGCTGCAGGGCCTGGTGTGAATGGAGATTATGGGCCATATCGGCAATTAGAAAGAAATTATTTGTACAAGCAATATGCTGAGAAGCTTTTAGAGTGTGGTTATGTTTATTGCAGCTTTTGCTCTAGTGAGGTCAGTTGGAACTTGGACACTCTTGGAGATTTTGTAATTATGAGAAGCAATGGGCAACCGGTGTACTATTTTTGTGTCACAGTTGATGATGCTAACATGGCTATCTCACATGTTATTAGGTAA

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

111

Amino Acids

12.55

Weight (kDa)

4.43

Isoelectric Point (pI)

32.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	3 - 71	1.4e-09	tRNA synthetases class I (E and Q), catalytic domain
tRNA-synt_1c	PF00749	72 - 111	1e-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: OG0018138)

Species	Orthologous Gene IDs
pyrus_communis	pycom10g00740
rosa_chinensis	RchiOBHm_Chr3g0490481
rosa_laevigata	RLG00000022888
rosa_multiflora	Rmu_sc0000375.1_g000009
rosa_roxburghii	Rroxscaffold_5G00358670
rosa_samantha	Rh1AG237900 Rh3AG293100 Rh3CG327200 Rh4AG027400 Rh5AG387000
rosa_wichuraiana	Rw5G036410

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	5
AfaI	GTAC	2 cut(s)	149, 278
AflIII	ACRYGT	1 cut(s)	322
AgeI	ACCGGT	1 cut(s)	271
AjnI	CCWGG	2 cut(s)	73, 94
AluBI	AGCT	2 cut(s)	169, 198
AluI	AGCT	2 cut(s)	169, 198
AlwNI	CAGNNNCTG	1 cut(s)	95
AoxI	GGCC	3 cut(s)	71, 92, 116
ApeKI	GCWGC	2 cut(s)	86, 195
AsiGI	ACCGGT	1 cut(s)	271
AspS9I	GGNCC	3 cut(s)	71, 92, 116
AsuHPI	GGTGA	1 cut(s)	91
BbvI	GCAGC	2 cut(s)	73, 207
BciT130I	CCWGG	2 cut(s)	75, 96
BfaI	CTAG	1 cut(s)	207
BfmI	CTRYAG	1 cut(s)	87
BglI	GCCNNNNNGGC	1 cut(s)	124
BglII	AGATCT	1 cut(s)	37
BisI	GCNGC	2 cut(s)	87, 196
BlsI	GCNGC	2 cut(s)	88, 197
Bme1390I	CCNGG	2 cut(s)	75, 96
BmgT120I	GGNCC	3 cut(s)	71, 92, 116
BmrFI	CCNGG	2 cut(s)	75, 96
BmsI	GCATC	1 cut(s)	292
BsaJI	CCNNGG	2 cut(s)	18, 74
BsaWI	WCCGGW	1 cut(s)	271
BsaXI	ACNNNNNCTCC	4 cut(s)	14, 44, 231, 261
Bse118I	RCCGGY	1 cut(s)	271
Bse3DI	GCAATG	1 cut(s)	268
BseBI	CCWGG	2 cut(s)	75, 96
BseDI	CCNNGG	2 cut(s)	18, 74
BseGI	GGATG	1 cut(s)	70
BseMI	GCAATG	1 cut(s)	268
BseMII	CTCAG	1 cut(s)	153
BseXI	GCAGC	2 cut(s)	73, 207
BshFI	GGCC	3 cut(s)	73, 94, 118
BshTI	ACCGGT	1 cut(s)	271
BsiSI	CCGG	1 cut(s)	272
BsmI	GAATGC	1 cut(s)	88
BsnI	GGCC	3 cut(s)	73, 94, 118
Bsp1407I	TGTACA	1 cut(s)	147
Bsp143I	GATC	1 cut(s)	37
BspANI	GGCC	3 cut(s)	73, 94, 118
BspCNI	CTCAG	1 cut(s)	154
BspMAI	CTGCAG	1 cut(s)	91
BsrDI	GCAATG	1 cut(s)	268
BsrFI	RCCGGY	1 cut(s)	271
BsrGI	TGTACA	1 cut(s)	147
BssAI	RCCGGY	1 cut(s)	271
BssECI	CCNNGG	2 cut(s)	18, 74
BssMI	GATC	1 cut(s)	37
BssT1I	CCWWGG	1 cut(s)	18
Bst2UI	CCWGG	2 cut(s)	75, 96
Bst4CI	ACNGT	1 cut(s)	295
BstAPI	GCANNNNNTGC	1 cut(s)	201
BstAUI	TGTACA	1 cut(s)	147
BstDEI	CTNAG	2 cut(s)	9, 162
BstF5I	GGATG	1 cut(s)	70
BstKTI	GATC	1 cut(s)	40
BstMBI	GATC	1 cut(s)	37
BstMWI	GCNNNNNNNGC	3 cut(s)	124, 201, 311
BstNI	CCWGG	2 cut(s)	75, 96
BstNSI	RCATGY	1 cut(s)	326
BstSCI	CCNGG	2 cut(s)	73, 94
BstSFI	CTRYAG	1 cut(s)	87
BstV1I	GCAGC	2 cut(s)	73, 207
BstX2I	RGATCY	1 cut(s)	37
BstYI	RGATCY	1 cut(s)	37
BsuRI	GGCC	3 cut(s)	73, 94, 118
BtsCI	GGATG	1 cut(s)	70
CaiI	CAGNNNCTG	1 cut(s)	95
Cfr10I	RCCGGY	1 cut(s)	271
Cfr13I	GGNCC	3 cut(s)	71, 92, 116
Csp6I	GTAC	2 cut(s)	148, 277
CspAI	ACCGGT	1 cut(s)	271
CviAII	CATG	2 cut(s)	310, 323
CviJI	RGCY	7 cut(s)	49, 73, 94, 118, 169, 198, 314
CviKI_1	RGCY	7 cut(s)	49, 73, 94, 118, 169, 198, 314
CviQI	GTAC	2 cut(s)	148, 277
DdeI	CTNAG	2 cut(s)	9, 162
DpnI	GATC	1 cut(s)	39
DpnII	GATC	1 cut(s)	37
Eco130I	CCWWGG	1 cut(s)	18
EcoO109I	RGGNCCY	2 cut(s)	71, 92
EcoRII	CCWGG	2 cut(s)	73, 94
EcoT14I	CCWWGG	1 cut(s)	18
ErhI	CCWWGG	1 cut(s)	18
FaeI	CATG	2 cut(s)	313, 326
FaiI	YATR	7 cut(s)	114, 121, 159, 186, 254, 311, 324
FatI	CATG	2 cut(s)	309, 322
FblI	GTMKAC	1 cut(s)	5
Fnu4HI	GCNGC	2 cut(s)	87, 196
FokI	GGATG	1 cut(s)	77
Fsp4HI	GCNGC	2 cut(s)	87, 196
FspBI	CTAG	1 cut(s)	207
GluI	GCNGC	2 cut(s)	87, 196
HaeIII	GGCC	3 cut(s)	73, 94, 118
HapII	CCGG	1 cut(s)	272
Hin1II	CATG	2 cut(s)	313, 326
HindIII	AAGCTT	1 cut(s)	167
HinfI	GANTC	1 cut(s)	14
HpaII	CCGG	1 cut(s)	272
HphI	GGTGA	1 cut(s)	91
Hpy166II	GTNNAC	2 cut(s)	6, 277
Hpy188III	TCNNGA	1 cut(s)	56
Hpy8I	GTNNAC	2 cut(s)	6, 277
HpyAV	CCTTC	1 cut(s)	62
HpyCH4III	ACNGT	1 cut(s)	295
HpyCH4V	TGCA	3 cut(s)	34, 89, 195
HpyF10VI	GCNNNNNNNGC	3 cut(s)	124, 201, 311
HpyF3I	CTNAG	2 cut(s)	9, 162
Hsp92II	CATG	2 cut(s)	313, 326
Kzo9I	GATC	1 cut(s)	37
LpnPI	CCDG	6 cut(s)	60, 75, 81, 87, 108, 285
Lsp1109I	GCAGC	2 cut(s)	73, 207
LweI	GCATC	1 cut(s)	292
MaeI	CTAG	1 cut(s)	207
MaeIII	GTNAC	1 cut(s)	289
MalI	GATC	1 cut(s)	39
MboI	GATC	1 cut(s)	37
MflI	RGATCY	1 cut(s)	37
MluCI	AATT	3 cut(s)	128, 139, 249
MlyI	GAGTC	1 cut(s)	23
MmeI	TCCRAC	1 cut(s)	200
MnlI	CCTC	2 cut(s)	16, 205
MspI	CCGG	1 cut(s)	272
MspR9I	CCNGG	2 cut(s)	75, 96
Mva1269I	GAATGC	1 cut(s)	88
MvaI	CCWGG	2 cut(s)	75, 96
MwoI	GCNNNNNNNGC	3 cut(s)	124, 201, 311
NdeII	GATC	1 cut(s)	37
NlaIII	CATG	2 cut(s)	313, 326
NmuCI	GTSAC	1 cut(s)	289
NspI	RCATGY	1 cut(s)	326
PciI	ACATGT	1 cut(s)	322
PctI	GAATGC	1 cut(s)	88
PinAI	ACCGGT	1 cut(s)	271
PkrI	GCNGC	2 cut(s)	88, 197
PleI	GAGTC	1 cut(s)	22
PpsI	GAGTC	1 cut(s)	22
PscI	ACATGT	1 cut(s)	322
Psp6I	CCWGG	2 cut(s)	73, 94
PspGI	CCWGG	2 cut(s)	73, 94
PspPI	GGNCC	3 cut(s)	71, 92, 116
PstI	CTGCAG	1 cut(s)	91
PstNI	CAGNNNCTG	1 cut(s)	95
PsuI	RGATCY	1 cut(s)	37
RsaI	GTAC	2 cut(s)	149, 278
RsaNI	GTAC	2 cut(s)	148, 277
SatI	GCNGC	2 cut(s)	87, 196
Sau3AI	GATC	1 cut(s)	37
Sau96I	GGNCC	3 cut(s)	71, 92, 116
SchI	GAGTC	1 cut(s)	23
ScrFI	CCNGG	2 cut(s)	75, 96
SetI	ASST	5 cut(s)	27, 171, 200, 216, 335
SfaNI	GCATC	1 cut(s)	292
SfcI	CTRYAG	1 cut(s)	87
Sse9I	AATT	3 cut(s)	128, 139, 249
SspMI	CTAG	1 cut(s)	207
StyD4I	CCNGG	2 cut(s)	73, 94
StyI	CCWWGG	1 cut(s)	18
TaaI	ACNGT	1 cut(s)	295
TasI	AATT	3 cut(s)	128, 139, 249
TatI	WGTACW	2 cut(s)	147, 276
TseFI	GTSAC	1 cut(s)	289
TseI	GCWGC	2 cut(s)	86, 195
Tsp45I	GTSAC	1 cut(s)	289
TspDTI	ATGAA	1 cut(s)	81
XceI	RCATGY	1 cut(s)	326
XmiI	GTMKAC	1 cut(s)	5
XspI	CTAG	1 cut(s)	207

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