Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Forward (+)

48161919 .. 48167729

Gene Structure 5811 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00319960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGGATTGGGGGAATGCCATTGTTAAGAAGATTGACAAAAACCAAGACGGAAATCTTGTGCTCACAGGGGTTTTGCATCTTGAAGGATCTGTGAAAACCACCAAACTGAAGCTTACCTGGCTGCCTGAAATAGATGAACTGGTTAAGATCTTGTTGATGGAGTTTGATTATCTGATAACAAAGAAGAAGCTTGAGGAAAGCGAGGATTTCGTTGATGTGCTTAACCCATGTACCGAAAAGGAGACAGCAGCCCTTGGGGATCCCAACATGCGAAATCTGAAGCGTGGAGATGTAGTGCAACTTGAGAGGAAAGGATACTTCAGATGTGATGTTCCCTACCTCAAGCCTTCAAAGCCTATTGTTCTCTTTGCAATCCCCGATGGCAGGCAGCAGGCTGGGTTAAAGTGA

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

135

Amino Acids

15.34

Weight (kDa)

6.6

Isoelectric Point (pI)

20.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c_C2	PF20974	37 - 110	4.7e-16	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

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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	3 cut(s)	94, 254, 267
AcuI	CTGAAG	3 cut(s)	128, 299, 304
AfaI	GTAC	1 cut(s)	232
AfiI	CCNNNNNNNGG	1 cut(s)	384
AgsI	TTSAA	2 cut(s)	83, 351
AjnI	CCWGG	1 cut(s)	116
AluBI	AGCT	2 cut(s)	112, 190
AluI	AGCT	2 cut(s)	112, 190
Alw21I	GWGCWC	1 cut(s)	63
Alw26I	GTCTC	1 cut(s)	236
AlwI	GGATC	3 cut(s)	94, 254, 267
ApeKI	GCWGC	3 cut(s)	121, 248, 388
BaeI	ACNNNNGTAYC	2 cut(s)	214, 247
BamHI	GGATCC	1 cut(s)	259
Bbv12I	GWGCWC	1 cut(s)	63
BbvI	GCAGC	3 cut(s)	108, 260, 400
BccI	CCATC	2 cut(s)	151, 374
BciT130I	CCWGG	1 cut(s)	118
BciVI	GTATCC	1 cut(s)	308
BcoDI	GTCTC	1 cut(s)	236
BfuI	GTATCC	1 cut(s)	308
BglII	AGATCT	1 cut(s)	147
BisI	GCNGC	3 cut(s)	122, 249, 389
BlsI	GCNGC	3 cut(s)	123, 250, 390
Bme1390I	CCNGG	1 cut(s)	118
BmiI	GGNNCC	1 cut(s)	261
BmrFI	CCNGG	1 cut(s)	118
BmsI	GCATC	1 cut(s)	85
BpuEI	CTTGAG	3 cut(s)	212, 323, 326
BsaJI	CCNNGG	1 cut(s)	253
BsaXI	ACNNNNNCTCC	2 cut(s)	279, 309
Bsc4I	CCNNNNNNNGG	1 cut(s)	384
Bse1I	ACTGG	1 cut(s)	144
BseBI	CCWGG	1 cut(s)	118
BseDI	CCNNGG	1 cut(s)	253
BseLI	CCNNNNNNNGG	1 cut(s)	384
BseNI	ACTGG	1 cut(s)	144
BseXI	GCAGC	3 cut(s)	108, 260, 400
BseYI	CCCAGC	1 cut(s)	395
BsiHKAI	GWGCWC	1 cut(s)	63
BslI	CCNNNNNNNGG	1 cut(s)	384
BsmAI	GTCTC	1 cut(s)	236
BsmI	GAATGC	1 cut(s)	19
Bsp1286I	GDGCHC	1 cut(s)	63
Bsp143I	GATC	3 cut(s)	86, 147, 259
BspLI	GGNNCC	1 cut(s)	261
BspPI	GGATC	3 cut(s)	94, 254, 267
BsrI	ACTGG	1 cut(s)	144
BssECI	CCNNGG	1 cut(s)	253
BssMI	GATC	3 cut(s)	86, 147, 259
BssT1I	CCWWGG	1 cut(s)	253
Bst2UI	CCWGG	1 cut(s)	118
BstC8I	GCNNGC	2 cut(s)	386, 393
BstKTI	GATC	3 cut(s)	89, 150, 262
BstMAI	GTCTC	1 cut(s)	236
BstMBI	GATC	3 cut(s)	86, 147, 259
BstMWI	GCNNNNNNNGC	2 cut(s)	118, 352
BstNI	CCWGG	1 cut(s)	118
BstNSI	RCATGY	1 cut(s)	271
BstSCI	CCNGG	1 cut(s)	116
BstV1I	GCAGC	3 cut(s)	108, 260, 400
BstX2I	RGATCY	3 cut(s)	86, 147, 259
BstYI	RGATCY	3 cut(s)	86, 147, 259
BsuI	GTATCC	1 cut(s)	308
Cac8I	GCNNGC	2 cut(s)	386, 393
Csp6I	GTAC	1 cut(s)	231
CviAII	CATG	2 cut(s)	228, 268
CviJI	RGCY	7 cut(s)	112, 121, 190, 251, 346, 355, 395
CviKI_1	RGCY	7 cut(s)	112, 121, 190, 251, 346, 355, 395
CviQI	GTAC	1 cut(s)	231
DpnI	GATC	3 cut(s)	88, 149, 261
DpnII	GATC	3 cut(s)	86, 147, 259
Eco130I	CCWWGG	1 cut(s)	253
Eco57I	CTGAAG	3 cut(s)	128, 299, 304
EcoRII	CCWGG	1 cut(s)	116
EcoT14I	CCWWGG	1 cut(s)	253
ErhI	CCWWGG	1 cut(s)	253
FaeI	CATG	2 cut(s)	231, 271
FaiI	YATR	2 cut(s)	229, 269
FatI	CATG	2 cut(s)	227, 267
Fnu4HI	GCNGC	3 cut(s)	122, 249, 389
Fsp4HI	GCNGC	3 cut(s)	122, 249, 389
GluI	GCNGC	3 cut(s)	122, 249, 389
GsaI	CCCAGC	1 cut(s)	399
Hin1II	CATG	2 cut(s)	231, 271
HindIII	AAGCTT	2 cut(s)	110, 188
Hpy188I	TCNGA	3 cut(s)	174, 279, 323
Hpy188III	TCNNGA	1 cut(s)	80
HpyAV	CCTTC	2 cut(s)	77, 357
HpyCH4V	TGCA	3 cut(s)	76, 298, 371
HpyF10VI	GCNNNNNNNGC	2 cut(s)	118, 352
Hsp92II	CATG	2 cut(s)	231, 271
Kzo9I	GATC	3 cut(s)	86, 147, 259
LpnPI	CCDG	8 cut(s)	51, 103, 125, 130, 138, 370, 377, 381
Lsp1109I	GCAGC	3 cut(s)	108, 260, 400
LweI	GCATC	1 cut(s)	85
MalI	GATC	3 cut(s)	88, 149, 261
MboI	GATC	3 cut(s)	86, 147, 259
MboII	GAAGA	2 cut(s)	40, 196
MflI	RGATCY	3 cut(s)	86, 147, 259
MhlI	GDGCHC	1 cut(s)	63
MnlI	CCTC	4 cut(s)	187, 196, 300, 350
MseI	TTAA	4 cut(s)	24, 144, 222, 401
MspR9I	CCNGG	1 cut(s)	118
Mva1269I	GAATGC	1 cut(s)	19
MvaI	CCWGG	1 cut(s)	118
MwoI	GCNNNNNNNGC	2 cut(s)	118, 352
NdeII	GATC	3 cut(s)	86, 147, 259
NlaIII	CATG	2 cut(s)	231, 271
NlaIV	GGNNCC	1 cut(s)	261
NspI	RCATGY	1 cut(s)	271
PctI	GAATGC	1 cut(s)	19
PkrI	GCNGC	3 cut(s)	123, 250, 390
Psp6I	CCWGG	1 cut(s)	116
PspFI	CCCAGC	1 cut(s)	395
PspGI	CCWGG	1 cut(s)	116
PspN4I	GGNNCC	1 cut(s)	261
PsuI	RGATCY	3 cut(s)	86, 147, 259
RsaI	GTAC	1 cut(s)	232
RsaNI	GTAC	1 cut(s)	231
SaqAI	TTAA	4 cut(s)	24, 144, 222, 401
SatI	GCNGC	3 cut(s)	122, 249, 389
Sau3AI	GATC	3 cut(s)	86, 147, 259
ScrFI	CCNGG	1 cut(s)	118
SduI	GDGCHC	1 cut(s)	63
SetI	ASST	4 cut(s)	114, 119, 192, 342
SfaNI	GCATC	1 cut(s)	85
SmlI	CTYRAG	3 cut(s)	191, 302, 341
SmoI	CTYRAG	3 cut(s)	191, 302, 341
StyD4I	CCNGG	1 cut(s)	116
StyI	CCWWGG	1 cut(s)	253
Tru1I	TTAA	4 cut(s)	24, 144, 222, 401
Tru9I	TTAA	4 cut(s)	24, 144, 222, 401
TseI	GCWGC	3 cut(s)	121, 248, 388
TspDTI	ATGAA	1 cut(s)	150
TspGWI	ACGGA	1 cut(s)	63
XceI	RCATGY	1 cut(s)	271

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