Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0001659

Physical Location & Seq

Genomic Coordinates Forward (+)

66897776 .. 66898753

Gene Structure 978 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG457100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGGGACTGAGAAAAGTGCATATGTATGAGTTCAGTAGGTTGAACATGGTCTATACACTCCTCAGCAAGCGCAAGCTTTTGTGGTTCGTTCAAAATGACAAGGTCAACAATGGATGGGATGATCCGCGATTTCCAACTGTTCAAGGAATTGTGCGTAGAGGTCTCAAAGTTGAAGCATTGATACAGTTCATTCTTGAGCAGGGGGCTTCAAAGAATCTGAATCTTATGGAATGGGACAAACTGTGGACAATTAACAAGAAGATTATTGATCCTGTATGCCCAAGACATACTGCTGTCATTGAAGAGGGACGAGTGTTGTTGACTCTTTCTAATGGCCCTGAGAAGCCATTTGTCCGCATAATACCTCGACATAAGAAGTATGAAGGTGCTGGAGAGAAGGCAACAACATTCACAAGGAGCATATGGATAGATCGAGCTGATGCAGAGTCAATATCAGTAGACGAGGAAGTGACATTGATGGATTGGGGGAATGCCATTGTTAAGAAGATTGAGAAAGATCAAGACAGAAATCTTGAGCTTACAGGGGTTTTGCATCTTGAAGGATCTGTGAAAACCACCAAATTGAAGCTTACCTGGCCGCCTGCAATAGATGAACTGGTTAAGATCTCGTTGATGGAGTTTGTTTATCTCGTTGATCCAGTGCCCTTTTTCTCATTCAATTTTGTATAG

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

229

Amino Acids

26.51

Weight (kDa)

8.85

Isoelectric Point (pI)

24.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c	PF00749	3 - 90	5.7e-17	tRNA synthetases class I (E and Q), catalytic domain
tRNA-synt_1c_C	PF03950	93 - 177	8.2e-17	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)

Image

Tree File

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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)
AccI	GTMKAC	1 cut(s)	459
AccII	CGCG	1 cut(s)	127
AciI	CCGC	3 cut(s)	125, 355, 599
AclWI	GGATC	4 cut(s)	116, 263, 571, 650
AcoI	YGGCCR	1 cut(s)	596
AgsI	TTSAA	9 cut(s)	43, 92, 143, 173, 210, 302, 560, 586, 679
AjnI	CCWGG	1 cut(s)	593
AluBI	AGCT	4 cut(s)	76, 437, 538, 589
AluI	AGCT	4 cut(s)	76, 437, 538, 589
Alw26I	GTCTC	1 cut(s)	167
AlwI	GGATC	4 cut(s)	116, 263, 571, 650
AoxI	GGCC	2 cut(s)	334, 596
AspLEI	GCGC	1 cut(s)	72
AspS9I	GGNCC	1 cut(s)	335
BaeGI	GKGCMC	1 cut(s)	666
BarI	GAAGNNNNNNTAC	2 cut(s)	165, 197
BbvCI	CCTCAGC	1 cut(s)	62
BccI	CCATC	3 cut(s)	108, 472, 628
BciT130I	CCWGG	1 cut(s)	595
BcoDI	GTCTC	1 cut(s)	167
BglII	AGATCT	1 cut(s)	624
BisI	GCNGC	1 cut(s)	599
BlsI	GCNGC	1 cut(s)	600
Bme1390I	CCNGG	1 cut(s)	595
BmgT120I	GGNCC	1 cut(s)	335
BmrFI	CCNGG	1 cut(s)	595
BmsI	GCATC	2 cut(s)	430, 562
BpmI	CTGGAG	1 cut(s)	411
Bpu10I	CCTNAGC	1 cut(s)	62
BpuEI	CTTGAG	2 cut(s)	215, 554
BsaI	GGTCTC	1 cut(s)	167
Bse1I	ACTGG	2 cut(s)	621, 659
BseBI	CCWGG	1 cut(s)	595
BseGI	GGATG	2 cut(s)	119, 124
BseMII	CTCAG	2 cut(s)	76, 330
BseNI	ACTGG	2 cut(s)	621, 659
BseRI	GAGGAG	1 cut(s)	50
BseSI	GKGCMC	1 cut(s)	666
Bsh1236I	CGCG	1 cut(s)	127
BshFI	GGCC	2 cut(s)	336, 598
BslFI	GGGAC	3 cut(s)	18, 248, 321
BsmAI	GTCTC	1 cut(s)	167
BsmFI	GGGAC	3 cut(s)	18, 248, 321
BsmI	GAATGC	1 cut(s)	496
BsnI	GGCC	2 cut(s)	336, 598
Bso31I	GGTCTC	1 cut(s)	167
Bsp1286I	GDGCHC	1 cut(s)	666
Bsp143I	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
BspACI	CCGC	3 cut(s)	125, 355, 599
BspANI	GGCC	2 cut(s)	336, 598
BspCNI	CTCAG	2 cut(s)	75, 331
BspFNI	CGCG	1 cut(s)	127
BspPI	GGATC	4 cut(s)	116, 263, 571, 650
BspTNI	GGTCTC	1 cut(s)	167
BsrI	ACTGG	2 cut(s)	621, 659
BssMI	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
Bst2UI	CCWGG	1 cut(s)	595
Bst4CI	ACNGT	3 cut(s)	139, 186, 243
Bst6I	CTCTTC	1 cut(s)	297
BstC8I	GCNNGC	3 cut(s)	68, 74, 603
BstDEI	CTNAG	3 cut(s)	8, 62, 339
BstF5I	GGATG	2 cut(s)	119, 124
BstFNI	CGCG	1 cut(s)	127
BstHHI	GCGC	1 cut(s)	72
BstKTI	GATC	7 cut(s)	124, 271, 433, 520, 566, 627, 658
BstMAI	GTCTC	1 cut(s)	167
BstMBI	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
BstMWI	GCNNNNNNNGC	1 cut(s)	595
BstNI	CCWGG	1 cut(s)	595
BstSCI	CCNGG	1 cut(s)	593
BstSLI	GKGCMC	1 cut(s)	666
BstUI	CGCG	1 cut(s)	127
BstX2I	RGATCY	2 cut(s)	563, 624
BstYI	RGATCY	2 cut(s)	563, 624
BsuRI	GGCC	2 cut(s)	336, 598
BtsCI	GGATG	2 cut(s)	119, 124
BtsIMutI	CAGTG	1 cut(s)	666
Cac8I	GCNNGC	3 cut(s)	68, 74, 603
CfoI	GCGC	1 cut(s)	72
Cfr13I	GGNCC	1 cut(s)	335
CviAII	CATG	1 cut(s)	46
CviJI	RGCY	8 cut(s)	76, 206, 336, 346, 437, 538, 589, 598
CviKI_1	RGCY	8 cut(s)	76, 206, 336, 346, 437, 538, 589, 598
DdeI	CTNAG	3 cut(s)	8, 62, 339
DpnI	GATC	7 cut(s)	123, 270, 432, 519, 565, 626, 657
DpnII	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
EaeI	YGGCCR	1 cut(s)	596
Eam1104I	CTCTTC	1 cut(s)	297
EarI	CTCTTC	1 cut(s)	297
Eco31I	GGTCTC	1 cut(s)	167
EcoRII	CCWGG	1 cut(s)	593
FaeI	CATG	1 cut(s)	49
FaqI	GGGAC	3 cut(s)	18, 248, 321
FatI	CATG	1 cut(s)	45
FauNDI	CATATG	2 cut(s)	21, 422
FblI	GTMKAC	1 cut(s)	459
Fnu4HI	GCNGC	1 cut(s)	599
FokI	GGATG	2 cut(s)	126, 131
Fsp4HI	GCNGC	1 cut(s)	599
GlaI	GCGC	1 cut(s)	71
GluI	GCNGC	1 cut(s)	599
GsuI	CTGGAG	1 cut(s)	411
HaeIII	GGCC	2 cut(s)	336, 598
HhaI	GCGC	1 cut(s)	72
Hin1II	CATG	1 cut(s)	49
Hin6I	GCGC	1 cut(s)	70
HinP1I	GCGC	1 cut(s)	70
HincII	GTYRAC	2 cut(s)	106, 321
HindII	GTYRAC	2 cut(s)	106, 321
HindIII	AAGCTT	2 cut(s)	74, 587
HinfI	GANTC	4 cut(s)	214, 220, 322, 446
Hpy166II	GTNNAC	4 cut(s)	106, 246, 321, 460
Hpy188I	TCNGA	1 cut(s)	219
Hpy188III	TCNNGA	4 cut(s)	194, 521, 533, 557
Hpy8I	GTNNAC	4 cut(s)	106, 246, 321, 460
HpyAV	CCTTC	3 cut(s)	377, 391, 554
HpyCH4III	ACNGT	3 cut(s)	139, 186, 243
HpyCH4V	TGCA	4 cut(s)	19, 443, 553, 605
HpyF10VI	GCNNNNNNNGC	1 cut(s)	595
HpyF3I	CTNAG	3 cut(s)	8, 62, 339
Hsp92II	CATG	1 cut(s)	49
HspAI	GCGC	1 cut(s)	70
Kzo9I	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
LmnI	GCTCC	1 cut(s)	417
LweI	GCATC	2 cut(s)	430, 562
MaeIII	GTNAC	1 cut(s)	469
MalI	GATC	7 cut(s)	123, 270, 432, 519, 565, 626, 657
MboI	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
MboII	GAAGA	3 cut(s)	271, 314, 517
MflI	RGATCY	2 cut(s)	563, 624
MhlI	GDGCHC	1 cut(s)	666
MluCI	AATT	4 cut(s)	147, 249, 581, 679
MlyI	GAGTC	2 cut(s)	316, 455
MmeI	TCCRAC	1 cut(s)	158
MnlI	CCTC	5 cut(s)	71, 152, 298, 375, 457
MseI	TTAA	3 cut(s)	252, 501, 621
MslI	CAYNNNNRTG	1 cut(s)	24
MspR9I	CCNGG	1 cut(s)	595
Mva1269I	GAATGC	1 cut(s)	496
MvaI	CCWGG	1 cut(s)	595
MvnI	CGCG	1 cut(s)	127
MwoI	GCNNNNNNNGC	1 cut(s)	595
NdeI	CATATG	2 cut(s)	21, 422
NdeII	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
NlaIII	CATG	1 cut(s)	49
NmuCI	GTSAC	1 cut(s)	469
PctI	GAATGC	1 cut(s)	496
PfeI	GAWTC	2 cut(s)	214, 220
PflFI	GACNNNGTC	1 cut(s)	101
PkrI	GCNGC	1 cut(s)	600
PleI	GAGTC	2 cut(s)	316, 454
PpsI	GAGTC	2 cut(s)	316, 454
Psp6I	CCWGG	1 cut(s)	593
PspGI	CCWGG	1 cut(s)	593
PspPI	GGNCC	1 cut(s)	335
PsuI	RGATCY	2 cut(s)	563, 624
PsyI	GACNNNGTC	1 cut(s)	101
RseI	CAYNNNNRTG	1 cut(s)	24
SaqAI	TTAA	3 cut(s)	252, 501, 621
SatI	GCNGC	1 cut(s)	599
Sau3AI	GATC	7 cut(s)	121, 268, 430, 517, 563, 624, 655
Sau96I	GGNCC	1 cut(s)	335
SchI	GAGTC	2 cut(s)	316, 455
ScrFI	CCNGG	1 cut(s)	595
SduI	GDGCHC	1 cut(s)	666
SfaNI	GCATC	2 cut(s)	430, 562
SmiMI	CAYNNNNRTG	1 cut(s)	24
SmlI	CTYRAG	2 cut(s)	194, 533
SmoI	CTYRAG	2 cut(s)	194, 533
Sse9I	AATT	4 cut(s)	147, 249, 581, 679
SsiI	CCGC	3 cut(s)	125, 355, 599
StyD4I	CCNGG	1 cut(s)	593
TaaI	ACNGT	3 cut(s)	139, 186, 243
TaqI	TCGA	2 cut(s)	367, 433
TasI	AATT	4 cut(s)	147, 249, 581, 679
TauI	GCSGC	1 cut(s)	601
TfiI	GAWTC	2 cut(s)	214, 220
Tru1I	TTAA	3 cut(s)	252, 501, 621
Tru9I	TTAA	3 cut(s)	252, 501, 621
TscAI	CASTG	1 cut(s)	666
TseFI	GTSAC	1 cut(s)	469
Tsp45I	GTSAC	1 cut(s)	469
TspDTI	ATGAA	3 cut(s)	178, 396, 627
TspRI	CASTG	1 cut(s)	666
Tth111I	GACNNNGTC	1 cut(s)	101
XmiI	GTMKAC	1 cut(s)	459

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