Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0004327

Physical Location & Seq

Genomic Coordinates Forward (+)

4004888 .. 4008964

Gene Structure 4077 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G004700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGTTGGACATCAATCTTTTCAGAGAAGAGAAAGGCAACAACCCCCAAATCATCCGCGAATCTCAGAAGCGTCGTTTCAAAAGCGTCGAGATCGTCGACGAGGTCATCCTGCTCGATAAAGAATGGCGTCAACGTCAATTCGAGCTCGAGAATCTCCGGAAAGAGTTCAACAAGATCAACAAGAAAGTTGCTCAGCTCAGGATCTCAGGTCAGGATGCAACCGAGGTGATTAAGGACACAGACGAAAACAAGAAGTTGACTGCAGAAAAAGAAGTTGAAGTTCGAGAGGCTTTAAACCTTTTGAATTCAAAATTGGAAATCATTGGAAACCTTGTGCATGATAGCGTTCCCATCCATGATGATGAGGCCAATAATGCTGTGGTTAGATCATGGGGTGAGAAACGGATGGAGCCAAAACTCAAAAATCACGTTGAGCTTGTTGAGCTTCTGGGTATTGCTGACTTGAAGAAAGGTGCTGAAGTAGCAGGAGGTAGAGGTTTCTACTTGAAAGGTGCTGGCGTCCGCCTCAATCAAGCTCTGATAAATTTTGGTCTTGATTTCCTTGAGAAAAGGGGATACACAGCATTGCAGACTCCATTTTTTATGAGAAAAGATATTATGGCAAAGTGTGCTCAATTAGCACAATTCGATGAGGAGCTGTATAAGGTAACCGGAGAGGGTGATGACAAATATCTGATTGCTACAGCTGAACAGCCACTTTGTGCATATCATGTGGATGATTGGATTCATCCTACACAGCTGCCCATAAGATATGCTGGATATTCATCGTGTTTCCGCAAGGAAGCTGGTTCACATGGTCGAGATACCTTGGGAATTTTCAGAGTTCATCAGTTTGAAAAAGTTGAACAGTTCTGTGACAAGCCCAAATGGCCAGGACTCTTGGGAAATGCACGAGGAAATGATCAAAAACTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004828 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006434 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 GO:0042221 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:0046686 GO:0050896 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

Seryl_tRNA_N tRNA-synt_2b

Protein Analysis

311

Amino Acids

35.71

Weight (kDa)

6.69

Isoelectric Point (pI)

23.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Seryl_tRNA_N	PF02403	1 - 112	4.5e-23	Seryl-tRNA synthetase N-terminal domain
tRNA-synt_2b	PF00587	221 - 292	1.7e-15	tRNA synthetase class II core domain (G, H, P, S and T)

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: OG0004327)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G27470
fragaria_vesca	FvH4_3g37770 FvH4_6g05710
malus_domestica	MD04G1206100.v1.1 MD04G1206400.v1.1 MD12G1220200.v1.1
prunus_persica	Prupe.6G327000_v2.0.a1
pyrus_communis	pycom04g18250 pycom12g20570
rosa_chinensis	RchiOBHm_Chr2g0115881 RchiOBHm_Chr3g0454601
rosa_laevigata	RLG00000018221 RLG00000019452 RLG00000025430 RLG00000031813
rosa_multiflora	Rmu_co8405619.1_g000001 Rmu_sc0001792.1_g000036 Rmu_ssc0000197.1_g000016
rosa_roxburghii	Rroxscaffold_1G00065260 Rroxscaffold_6G00424940
rosa_rugosa	Rorug02G0200700 Rorug03G0000500 Rorug04G0455300 Rorug05G0211400
rosa_samantha	Rh2BG268600 Rh2CG264100 Rh3AG060400 Rh3BG062500 Rh3CG061300 Rh3DG062100
rosa_wichuraiana	Rw2G020190 Rw3G004700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	96
AccII	CGCG	1 cut(s)	57
AccIII	TCCGGA	1 cut(s)	156
AciI	CCGC	3 cut(s)	55, 523, 796
AclWI	GGATC	1 cut(s)	209
AcoI	YGGCCR	1 cut(s)	890
AcsI	RAATTY	3 cut(s)	304, 544, 834
AcuI	CTGAAG	1 cut(s)	498
AcyI	GRCGYC	2 cut(s)	127, 519
AdeI	CACNNNGTG	1 cut(s)	722
AgsI	TTSAA	9 cut(s)	79, 169, 278, 304, 309, 466, 508, 857, 866
AjnI	CCWGG	1 cut(s)	892
AjuI	GAANNNNNNNTTGG	2 cut(s)	296, 328
AluBI	AGCT	9 cut(s)	145, 196, 436, 445, 536, 658, 707, 760, 806
AluI	AGCT	9 cut(s)	145, 196, 436, 445, 536, 658, 707, 760, 806
Alw21I	GWGCWC	2 cut(s)	147, 634
AlwI	GGATC	1 cut(s)	209
Ama87I	CYCGRG	1 cut(s)	146
Aor13HI	TCCGGA	1 cut(s)	156
AoxI	GGCC	2 cut(s)	366, 890
ApeKI	GCWGC	1 cut(s)	760
ApoI	RAATTY	3 cut(s)	304, 544, 834
Asp700I	GAANNNNTTC	1 cut(s)	164
AsuHPI	GGTGA	3 cut(s)	238, 407, 692
AvaI	CYCGRG	1 cut(s)	146
BalI	TGGCCA	1 cut(s)	892
BanII	GRGCYC	1 cut(s)	147
BauI	CACGAG	1 cut(s)	912
Bbv12I	GWGCWC	2 cut(s)	147, 634
BbvI	GCAGC	1 cut(s)	747
BccI	CCATC	2 cut(s)	359, 400
BciT130I	CCWGG	1 cut(s)	894
BciVI	GTATCC	1 cut(s)	569
BclI	TGATCA	1 cut(s)	922
BfmI	CTRYAG	2 cut(s)	261, 702
BfuI	GTATCC	1 cut(s)	569
BglI	GCCNNNNNGGC	1 cut(s)	889
BisI	GCNGC	1 cut(s)	761
BlpI	GCTNAGC	1 cut(s)	192
BlsI	GCNGC	1 cut(s)	762
Bme1390I	CCNGG	1 cut(s)	894
BmeT110I	CYCGRG	1 cut(s)	146
BmiI	GGNNCC	1 cut(s)	411
BmrFI	CCNGG	1 cut(s)	894
BmsI	GCATC	1 cut(s)	205
Bpu10I	CCTNAGC	1 cut(s)	197
Bpu1102I	GCTNAGC	1 cut(s)	192
BpuEI	CTTGAG	1 cut(s)	584
BsaBI	GATNNNNATC	1 cut(s)	784
BsaHI	GRCGYC	2 cut(s)	127, 519
BsaJI	CCNNGG	2 cut(s)	222, 828
BsaWI	WCCGGW	2 cut(s)	156, 671
Bse3DI	GCAATG	1 cut(s)	584
Bse8I	GATNNNNATC	1 cut(s)	784
BseAI	TCCGGA	1 cut(s)	156
BseBI	CCWGG	1 cut(s)	894
BseDI	CCNNGG	2 cut(s)	222, 828
BseGI	GGATG	7 cut(s)	51, 105, 220, 351, 411, 742, 748
BseJI	GATNNNNATC	1 cut(s)	784
BseMI	GCAATG	1 cut(s)	584
BseMII	CTCAG	4 cut(s)	77, 206, 211, 219
BseRI	GAGGAG	1 cut(s)	668
BseXI	GCAGC	1 cut(s)	747
Bsh1236I	CGCG	1 cut(s)	57
BshFI	GGCC	2 cut(s)	368, 892
BsiHKAI	GWGCWC	2 cut(s)	147, 634
BsiHKCI	CYCGRG	1 cut(s)	146
BsiSI	CCGG	2 cut(s)	157, 672
BsnI	GGCC	2 cut(s)	368, 892
BsoBI	CYCGRG	1 cut(s)	146
Bsp1286I	GDGCHC	2 cut(s)	147, 634
Bsp13I	TCCGGA	1 cut(s)	156
Bsp143I	GATC	5 cut(s)	90, 174, 201, 386, 922
Bsp1720I	GCTNAGC	1 cut(s)	192
BspACI	CCGC	3 cut(s)	55, 523, 796
BspANI	GGCC	2 cut(s)	368, 892
BspCNI	CTCAG	4 cut(s)	76, 205, 210, 218
BspEI	TCCGGA	1 cut(s)	156
BspFNI	CGCG	1 cut(s)	57
BspLI	GGNNCC	1 cut(s)	411
BspMAI	CTGCAG	1 cut(s)	265
BspPI	GGATC	1 cut(s)	209
BsrDI	GCAATG	1 cut(s)	584
BssECI	CCNNGG	2 cut(s)	222, 828
BssMI	GATC	5 cut(s)	90, 174, 201, 386, 922
BssNI	GRCGYC	2 cut(s)	127, 519
BssSI	CACGAG	1 cut(s)	912
BssT1I	CCWWGG	1 cut(s)	828
Bst2BI	CACGAG	1 cut(s)	912
Bst2UI	CCWGG	1 cut(s)	894
Bst4CI	ACNGT	1 cut(s)	870
Bst6I	CTCTTC	1 cut(s)	21
BstACI	GRCGYC	2 cut(s)	127, 519
BstAPI	GCANNNNNTGC	1 cut(s)	629
BstC8I	GCNNGC	1 cut(s)	517
BstDEI	CTNAG	4 cut(s)	63, 192, 197, 205
BstEII	GGTNACC	1 cut(s)	667
BstF5I	GGATG	7 cut(s)	51, 105, 220, 351, 411, 742, 748
BstFNI	CGCG	1 cut(s)	57
BstKTI	GATC	5 cut(s)	93, 177, 204, 389, 925
BstMBI	GATC	5 cut(s)	90, 174, 201, 386, 922
BstMWI	GCNNNNNNNGC	6 cut(s)	374, 442, 482, 629, 638, 889
BstNI	CCWGG	1 cut(s)	894
BstPI	GGTNACC	1 cut(s)	667
BstSCI	CCNGG	1 cut(s)	892
BstSFI	CTRYAG	2 cut(s)	261, 702
BstUI	CGCG	1 cut(s)	57
BstV1I	GCAGC	1 cut(s)	747
BstX2I	RGATCY	1 cut(s)	201
BstYI	RGATCY	1 cut(s)	201
BsuI	GTATCC	1 cut(s)	569
BsuRI	GGCC	2 cut(s)	368, 892
BtsCI	GGATG	7 cut(s)	51, 105, 220, 351, 411, 742, 748
Cac8I	GCNNGC	1 cut(s)	517
CseI	GACGC	4 cut(s)	59, 73, 116, 508
CviAII	CATG	5 cut(s)	338, 356, 390, 731, 815
DdeI	CTNAG	4 cut(s)	63, 192, 197, 205
DpnI	GATC	5 cut(s)	92, 176, 203, 388, 924
DpnII	GATC	5 cut(s)	90, 174, 201, 386, 922
DraI	TTTAAA	1 cut(s)	294
DraIII	CACNNNGTG	1 cut(s)	722
EaeI	YGGCCR	1 cut(s)	890
Eam1104I	CTCTTC	1 cut(s)	21
EarI	CTCTTC	1 cut(s)	21
EciI	GGCGGA	1 cut(s)	512
Ecl136II	GAGCTC	1 cut(s)	145
Eco130I	CCWWGG	1 cut(s)	828
Eco24I	GRGCYC	1 cut(s)	147
Eco53kI	GAGCTC	1 cut(s)	145
Eco57I	CTGAAG	1 cut(s)	498
Eco88I	CYCGRG	1 cut(s)	146
Eco91I	GGTNACC	1 cut(s)	667
EcoICRI	GAGCTC	1 cut(s)	145
EcoO65I	GGTNACC	1 cut(s)	667
EcoRI	GAATTC	1 cut(s)	304
EcoRII	CCWGG	1 cut(s)	892
EcoT14I	CCWWGG	1 cut(s)	828
EcoT38I	GRGCYC	1 cut(s)	147
ErhI	CCWWGG	1 cut(s)	828
FaeI	CATG	5 cut(s)	341, 359, 393, 734, 818
FatI	CATG	5 cut(s)	337, 355, 389, 730, 814
FbaI	TGATCA	1 cut(s)	922
FblI	GTMKAC	1 cut(s)	96
Fnu4HI	GCNGC	1 cut(s)	761
FokI	GGATG	7 cut(s)	38, 92, 227, 338, 418, 735, 749
FriOI	GRGCYC	1 cut(s)	147
Fsp4HI	GCNGC	1 cut(s)	761
GluI	GCNGC	1 cut(s)	761
HaeIII	GGCC	2 cut(s)	368, 892
HapII	CCGG	2 cut(s)	157, 672
HgaI	GACGC	4 cut(s)	59, 73, 116, 508
Hin1I	GRCGYC	2 cut(s)	127, 519
Hin1II	CATG	5 cut(s)	341, 359, 393, 734, 818
HincII	GTYRAC	3 cut(s)	97, 131, 258
HindII	GTYRAC	3 cut(s)	97, 131, 258
HinfI	GANTC	5 cut(s)	59, 151, 592, 745, 897
HpaII	CCGG	2 cut(s)	157, 672
HphI	GGTGA	3 cut(s)	238, 407, 692
Hpy166II	GTNNAC	4 cut(s)	97, 131, 258, 812
Hpy188I	TCNGA	6 cut(s)	23, 66, 540, 696, 842, 935
Hpy188III	TCNNGA	8 cut(s)	88, 148, 157, 199, 212, 284, 554, 821
Hpy8I	GTNNAC	4 cut(s)	97, 131, 258, 812
Hpy99I	CGWCG	4 cut(s)	75, 89, 98, 101
HpyCH4III	ACNGT	1 cut(s)	870
HpyCH4IV	ACGT	2 cut(s)	133, 429
HpyCH4V	TGCA	6 cut(s)	218, 263, 337, 589, 725, 911
HpyF10VI	GCNNNNNNNGC	6 cut(s)	374, 442, 482, 629, 638, 889
HpyF3I	CTNAG	4 cut(s)	63, 192, 197, 205
HpySE526I	ACGT	2 cut(s)	133, 429
Hsp92I	GRCGYC	2 cut(s)	127, 519
Hsp92II	CATG	5 cut(s)	341, 359, 393, 734, 818
Kpn2I	TCCGGA	1 cut(s)	156
Ksp22I	TGATCA	1 cut(s)	922
Kzo9I	GATC	5 cut(s)	90, 174, 201, 386, 922
LmnI	GCTCC	2 cut(s)	409, 655
Lsp1109I	GCAGC	1 cut(s)	747
LweI	GCATC	1 cut(s)	205
MaeII	ACGT	2 cut(s)	133, 429
MaeIII	GTNAC	2 cut(s)	667, 875
MalI	GATC	5 cut(s)	92, 176, 203, 388, 924
MboI	GATC	5 cut(s)	90, 174, 201, 386, 922
MboII	GAAGA	2 cut(s)	38, 478
MflI	RGATCY	1 cut(s)	201
MhlI	GDGCHC	2 cut(s)	147, 634
MlsI	TGGCCA	1 cut(s)	892
MluCI	AATT	7 cut(s)	137, 304, 311, 544, 635, 644, 834
MluNI	TGGCCA	1 cut(s)	892
MlyI	GAGTC	2 cut(s)	586, 891
Mox20I	TGGCCA	1 cut(s)	892
MroI	TCCGGA	1 cut(s)	156
MroXI	GAANNNNTTC	1 cut(s)	164
MscI	TGGCCA	1 cut(s)	892
MseI	TTAA	2 cut(s)	231, 293
MslI	CAYNNNNRTG	2 cut(s)	360, 735
Msp20I	TGGCCA	1 cut(s)	892
MspA1I	CMGCKG	2 cut(s)	707, 760
MspI	CCGG	2 cut(s)	157, 672
MspR9I	CCNGG	1 cut(s)	894
MvaI	CCWGG	1 cut(s)	894
MvnI	CGCG	1 cut(s)	57
MwoI	GCNNNNNNNGC	6 cut(s)	374, 442, 482, 629, 638, 889
NdeII	GATC	5 cut(s)	90, 174, 201, 386, 922
NlaIII	CATG	5 cut(s)	341, 359, 393, 734, 818
NlaIV	GGNNCC	1 cut(s)	411
NmuCI	GTSAC	1 cut(s)	875
PaeR7I	CTCGAG	1 cut(s)	146
PcsI	WCGNNNNNNNCGW	1 cut(s)	93
PdmI	GAANNNNTTC	1 cut(s)	164
PfeI	GAWTC	3 cut(s)	59, 151, 745
PflFI	GACNNNGTC	1 cut(s)	101
PkrI	GCNGC	1 cut(s)	762
PleI	GAGTC	2 cut(s)	586, 891
PpsI	GAGTC	2 cut(s)	586, 891
Psp124BI	GAGCTC	1 cut(s)	147
Psp6I	CCWGG	1 cut(s)	892
PspEI	GGTNACC	1 cut(s)	667
PspGI	CCWGG	1 cut(s)	892
PspN4I	GGNNCC	1 cut(s)	411
PstI	CTGCAG	1 cut(s)	265
PsuI	RGATCY	1 cut(s)	201
PsyI	GACNNNGTC	1 cut(s)	101
PvuII	CAGCTG	2 cut(s)	707, 760
RseI	CAYNNNNRTG	2 cut(s)	360, 735
SacI	GAGCTC	1 cut(s)	147
SalI	GTCGAC	1 cut(s)	95
SaqAI	TTAA	2 cut(s)	231, 293
SatI	GCNGC	1 cut(s)	761
Sau3AI	GATC	5 cut(s)	90, 174, 201, 386, 922
SchI	GAGTC	2 cut(s)	586, 891
ScrFI	CCNGG	1 cut(s)	894
SduI	GDGCHC	2 cut(s)	147, 634
SfaNI	GCATC	1 cut(s)	205
SfcI	CTRYAG	2 cut(s)	261, 702
Sfr274I	CTCGAG	1 cut(s)	146
SgrDI	CGTCGACG	1 cut(s)	95
SlaI	CTCGAG	1 cut(s)	146
SmiMI	CAYNNNNRTG	2 cut(s)	360, 735
SmlI	CTYRAG	2 cut(s)	146, 563
SmoI	CTYRAG	2 cut(s)	146, 563
Sse9I	AATT	7 cut(s)	137, 304, 311, 544, 635, 644, 834
SsiI	CCGC	3 cut(s)	55, 523, 796
SstI	GAGCTC	1 cut(s)	147
StyD4I	CCNGG	1 cut(s)	892
StyI	CCWWGG	1 cut(s)	828
TaaI	ACNGT	1 cut(s)	870
TaiI	ACGT	2 cut(s)	136, 432
TaqI	TCGA	8 cut(s)	87, 96, 114, 141, 147, 283, 648, 820
TasI	AATT	7 cut(s)	137, 304, 311, 544, 635, 644, 834
TfiI	GAWTC	3 cut(s)	59, 151, 745
Tru1I	TTAA	2 cut(s)	231, 293
Tru9I	TTAA	2 cut(s)	231, 293
TseFI	GTSAC	1 cut(s)	875
TseI	GCWGC	1 cut(s)	760
Tsp45I	GTSAC	1 cut(s)	875
TspDTI	ATGAA	3 cut(s)	737, 774, 836
TspGWI	ACGGA	1 cut(s)	418
Tth111I	GACNNNGTC	1 cut(s)	101
XapI	RAATTY	3 cut(s)	304, 544, 834
XcmI	CCANNNNNNNNNTGG	1 cut(s)	376
XhoI	CTCGAG	1 cut(s)	146
XmiI	GTMKAC	1 cut(s)	96
XmnI	GAANNNNTTC	1 cut(s)	164

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