Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001148

Physical Location & Seq

Genomic Coordinates Reverse (-)

26005169 .. 26011846

Gene Structure 6678 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00238030.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGACCCGAGATGTTGCTCCACGCATTGGATATCACAAACCTGCTTTAATCGAGTCTCTATTCTTCCCCGCCCTCCAGGGAGAAACGGGAAAAATGTCGGCTAGTGATCCAAATTCTGCCATCTATGTAACTGATTCTGCAAAGGATATTAAGAGCAAGATAAACAAGTTTGCATTTTCAGGGGGACAAGATATAATAGAGAAACACAGGGAGTTGGGAGCAAATCTCGAGGTAGACATTCCATATAAATATCTGAAATTTTTTCTGGATGATGACATCGAGCTTGCTTATATAGGAAAGGAGTATGGTGCAGGTCGAATGTTGACGGAAAGTGAAGCAGAGGCTCATTCAAGTTTTGACAGAAATTGTGGAGAGACATTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004830 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006436 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

ko00970 map00970

Pfam Domains

Protein Families

tRNA-synt_1b

Protein Analysis

127

Amino Acids

14.13

Weight (kDa)

5.02

Isoelectric Point (pI)

40.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1b	PF00579	1 - 93	3.4e-09	tRNA synthetases class I (W and Y)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001148)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04600 AT3G04600 AT3G04600
fragaria_vesca	FvH4_4g11950 FvH4_4g11950 FvH4_4g11950 FvH4_4g11950 FvH4_5g27321
malus_domestica	MD04G1236500.v1.1 MD12G1255800.v1.1
prunus_persica	Prupe.7G057000_v2.0.a1 Prupe.7G057800_v2.0.a1
pyrus_communis	pycom04g21040 pycom12g23440
rosa_chinensis	RchiOBHm_Chr3g0493481 RchiOBHm_Chr7g0219201 RchiOBHm_Chr7g0219221 RchiOBHm_Chr7g0223011
rosa_laevigata	RLG00000002003 RLG00000002302 RLG00000002303 RLG00000022713
rosa_multiflora	Rmu_sc0000868.1_g000014 Rmu_sc0006373.1_g000002 Rmu_sc0006514.1_g000024 Rmu_sc0007422.1_g000005 Rmu_sc0009785.1_g000024 Rmu_sc0039697.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234440 Rroxscaffold_3G00236350 Rroxscaffold_3G00237890 Rroxscaffold_3G00237970 Rroxscaffold_3G00238030 Rroxscaffold_3G00238960 Rroxscaffold_3G00238970 Rroxscaffold_5G00377610 Rroxscaffold_6G00391570 Rroxscaffold_7G00199590 Rroxscaffold_7G00199600
rosa_rugosa	Rorug07G0177500 Rorug07G0177500 Rorug07G0212800
rosa_samantha	Rh3AG310200 Rh3BG346300 Rh3CG344200 Rh3DG345400 Rh7AG319000 Rh7AG326700 Rh7AG357900 Rh7BG310900 Rh7BG346100 Rh7CG376000 Rh7DG318100 Rh7DG318200 Rh7DG352800
rosa_wichuraiana	Rw3G027260 Rw7G027160 Rw7G030440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	49, 302
AccB7I	CCANNNNNTGG	1 cut(s)	26
AccI	GTMKAC	1 cut(s)	234
AciI	CCGC	1 cut(s)	69
AclWI	GGATC	1 cut(s)	101
AcsI	RAATTY	2 cut(s)	112, 257
AfiI	CCNNNNNNNGG	1 cut(s)	26
AgsI	TTSAA	1 cut(s)	351
AjnI	CCWGG	1 cut(s)	75
AluBI	AGCT	1 cut(s)	283
AluI	AGCT	1 cut(s)	283
Alw26I	GTCTC	2 cut(s)	60, 368
AlwI	GGATC	1 cut(s)	101
Ama87I	CYCGRG	2 cut(s)	6, 227
ApoI	RAATTY	2 cut(s)	112, 257
AvaI	CYCGRG	2 cut(s)	6, 227
BccI	CCATC	1 cut(s)	128
BciT130I	CCWGG	1 cut(s)	77
BcoDI	GTCTC	2 cut(s)	60, 368
BfaI	CTAG	1 cut(s)	102
BfuAI	ACCTGC	2 cut(s)	49, 302
Bme1390I	CCNGG	1 cut(s)	77
BmeT110I	CYCGRG	2 cut(s)	6, 227
BmrFI	CCNGG	1 cut(s)	77
BplI	GAGNNNNNCTC	2 cut(s)	210, 242
BpmI	CTGGAG	1 cut(s)	59
BsaJI	CCNNGG	1 cut(s)	76
Bsc4I	CCNNNNNNNGG	1 cut(s)	26
BseBI	CCWGG	1 cut(s)	77
BseDI	CCNNGG	1 cut(s)	76
BseGI	GGATG	1 cut(s)	274
BseLI	CCNNNNNNNGG	1 cut(s)	26
BsgI	GTGCAG	1 cut(s)	330
BsiHKCI	CYCGRG	2 cut(s)	6, 227
BslFI	GGGAC	1 cut(s)	198
BslI	CCNNNNNNNGG	1 cut(s)	26
BsmAI	GTCTC	2 cut(s)	60, 368
BsmFI	GGGAC	1 cut(s)	198
BsoBI	CYCGRG	2 cut(s)	6, 227
Bsp143I	GATC	1 cut(s)	106
BspACI	CCGC	1 cut(s)	69
BspMI	ACCTGC	2 cut(s)	49, 302
BspPI	GGATC	1 cut(s)	101
BssECI	CCNNGG	1 cut(s)	76
BssMI	GATC	1 cut(s)	106
Bst2UI	CCWGG	1 cut(s)	77
BstC8I	GCNNGC	1 cut(s)	285
BstF5I	GGATG	1 cut(s)	274
BstKTI	GATC	1 cut(s)	109
BstMAI	GTCTC	2 cut(s)	60, 368
BstMBI	GATC	1 cut(s)	106
BstNI	CCWGG	1 cut(s)	77
BstSCI	CCNGG	1 cut(s)	75
BtsCI	GGATG	1 cut(s)	274
BveI	ACCTGC	2 cut(s)	49, 302
Cac8I	GCNNGC	1 cut(s)	285
CviJI	RGCY	3 cut(s)	101, 283, 344
CviKI_1	RGCY	3 cut(s)	101, 283, 344
DpnI	GATC	1 cut(s)	108
DpnII	GATC	1 cut(s)	106
Eco32I	GATATC	1 cut(s)	32
Eco88I	CYCGRG	2 cut(s)	6, 227
EcoRII	CCWGG	1 cut(s)	75
EcoRV	GATATC	1 cut(s)	32
FaiI	YATR	7 cut(s)	126, 194, 244, 246, 291, 293, 306
FaqI	GGGAC	1 cut(s)	198
FauI	CCCGC	1 cut(s)	76
FblI	GTMKAC	1 cut(s)	234
FokI	GGATG	1 cut(s)	281
FspBI	CTAG	1 cut(s)	102
GsuI	CTGGAG	1 cut(s)	59
HincII	GTYRAC	1 cut(s)	324
HindII	GTYRAC	1 cut(s)	324
HinfI	GANTC	2 cut(s)	53, 134
Hpy166II	GTNNAC	2 cut(s)	235, 324
Hpy188I	TCNGA	1 cut(s)	255
Hpy188III	TCNNGA	2 cut(s)	227, 266
Hpy8I	GTNNAC	2 cut(s)	235, 324
HpyCH4V	TGCA	3 cut(s)	140, 173, 311
Kzo9I	GATC	1 cut(s)	106
LmnI	GCTCC	2 cut(s)	22, 218
LpnPI	CCDG	7 cut(s)	54, 62, 89, 165, 193, 251, 297
MaeI	CTAG	1 cut(s)	102
MaeIII	GTNAC	1 cut(s)	127
MalI	GATC	1 cut(s)	108
MboI	GATC	1 cut(s)	106
MboII	GAAGA	1 cut(s)	55
MluCI	AATT	3 cut(s)	112, 257, 364
MlyI	GAGTC	1 cut(s)	62
MnlI	CCTC	3 cut(s)	83, 223, 334
MseI	TTAA	2 cut(s)	47, 150
MspR9I	CCNGG	1 cut(s)	77
MvaI	CCWGG	1 cut(s)	77
NdeII	GATC	1 cut(s)	106
PaeR7I	CTCGAG	1 cut(s)	227
PfeI	GAWTC	1 cut(s)	134
PflMI	CCANNNNNTGG	1 cut(s)	26
PleI	GAGTC	1 cut(s)	61
PpsI	GAGTC	1 cut(s)	61
Psp6I	CCWGG	1 cut(s)	75
PspGI	CCWGG	1 cut(s)	75
SaqAI	TTAA	2 cut(s)	47, 150
Sau3AI	GATC	1 cut(s)	106
SchI	GAGTC	1 cut(s)	62
ScrFI	CCNGG	1 cut(s)	77
SetI	ASST	4 cut(s)	43, 234, 285, 316
Sfr274I	CTCGAG	1 cut(s)	227
SlaI	CTCGAG	1 cut(s)	227
SmlI	CTYRAG	1 cut(s)	227
SmoI	CTYRAG	1 cut(s)	227
Sse9I	AATT	3 cut(s)	112, 257, 364
SsiI	CCGC	1 cut(s)	69
SspMI	CTAG	1 cut(s)	102
StyD4I	CCNGG	1 cut(s)	75
TaqI	TCGA	4 cut(s)	51, 228, 279, 316
TasI	AATT	3 cut(s)	112, 257, 364
TfiI	GAWTC	1 cut(s)	134
Tru1I	TTAA	2 cut(s)	47, 150
Tru9I	TTAA	2 cut(s)	47, 150
TspGWI	ACGGA	1 cut(s)	341
Van91I	CCANNNNNTGG	1 cut(s)	26
XapI	RAATTY	2 cut(s)	112, 257
XhoI	CTCGAG	1 cut(s)	227
XmiI	GTMKAC	1 cut(s)	234
XspI	CTAG	1 cut(s)	102

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