Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0000872

Physical Location & Seq

Genomic Coordinates Reverse (-)

48603340 .. 48609738

Gene Structure 6399 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00201130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGACGCTGGCTGGTTTACGACGTAGGGGCGTGACGTCGAGTGCCATTAACACGTTTGTTAGAGGAATTGGAATCACCAGAAGTGATTGTAGTATGATTCATCTGAGTCGCCTCGAGTACCACATCAGAGAAGAGCTCAATAAAACAGCTCCTCGCACAATGGTTGTGCTTGATCCTGTAAAGGTCGTCATTACCAACTGGAAAGATGACCTCATAAAGGACTGTGACGCAAGAAAGTGGCCCGATTCTGAGGCGGAGTCCTACAAGGTTCCATTTTCCAAGGTGTTGTACATTGAGCGCTCCGATTTTCGCCTTAAAGACTCAAAAGACTACTTCGGACTTGCTCCTGGAAAATCTGCCCTGCTTAGCAGATGTAGGCTCCCCAGTAACGATCTTTATCTTTATGGTCGCAGATACGCATGTCCTATCAGGTGTGTGGATGCAAAGGATGTTGTTTTAGCCGAGGATAATGAGACTGTCCTTGAGATACGGGTCGAGTATGATCCGGAGAAGAAGACAAAGCCAAAGGGGGTGCTGCATTGGGTCGCTGAACCTTCTCCTGGGATCGATCCACTCAAAGTGGAAGTTCGATTGTTTGACAGACTATTCAATTCAGAGAATCCTGCTGAGCTTGACGACTGGCTTTCTGATTTGAATGGAAAATCGAAAGTGGTAATACCAAATGCATTTGCTGTTCCCCCGCTTGAGAAAGGTGTTGGTGTTGGTGACAAGTTTCAGTTCGAAAGACTTGGTATGTTCCTGCATTTACTTGTTGGCTGTCTTATAGAGATAGATAGGGCCACTTCGCATCTAGAGACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00970 ko01100 map00970 map01100

Pfam Domains

Protein Families

tRNA-synt_1c tRNA-synt_1c_C tRNA_synt_1c_R1 tRNA_synt_1c_R2

Protein Analysis

273

Amino Acids

30.98

Weight (kDa)

6.96

Isoelectric Point (pI)

40.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA-synt_1c_C	PF03950	50 - 117	6.5e-14	tRNA synthetases class I (E and Q), anti-codon binding domain
tRNA-synt_1c_C2	PF20974	178 - 253	1.2e-12	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: OG0000872)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G25350 AT1G25350 AT1G68325 AT5G19720
fragaria_vesca	FvH4_4g27080 FvH4_4g27080
malus_domestica	MD13G1039800.v1.1 MD16G1040700.v1.1
prunus_persica	Prupe.1G313400_v2.0.a1
pyrus_communis	pycom13g03420 pycom16g03530
rosa_chinensis	RchiOBHm_Chr1g0324521 RchiOBHm_Chr1g0324551 RchiOBHm_Chr1g0324791 RchiOBHm_Chr1g0324801 RchiOBHm_Chr4g0434881 RchiOBHm_Chr6g0267171 RchiOBHm_Chr6g0267561 RchiOBHm_Chr6g0267571
rosa_laevigata	RLG00000006639 RLG00000014022 RLG00000014023 RLG00000030192 RLG00000030194
rosa_multiflora	Rmu_co8125244.1_g000001 Rmu_sc0002328.1_g000004 Rmu_sc0002938.1_g000002 Rmu_sc0003124.1_g000003 Rmu_sc0007217.1_g000007 Rmu_sc0017253.1_g000007 Rmu_ssc0000388.1_g000042
rosa_roxburghii	Rroxscaffold_159G00432900 Rroxscaffold_159G00433020 Rroxscaffold_4G00325230 Rroxscaffold_4G00325240 Rroxscaffold_4G00325420 Rroxscaffold_4G00325440 Rroxscaffold_5G00376090 Rroxscaffold_7G00201130
rosa_rugosa	Rorug01G0047600 Rorug01G0047700 Rorug04G0279900 Rorug06G0030000 Rorug06G0033700
rosa_samantha	Rh1AG063900 Rh1CG065400 Rh1DG068700 Rh1DG070500 Rh4AG335700 Rh4BG344200 Rh4CG358600 Rh4DG338200 Rh6AG151800 Rh6BG152300 Rh6BG156400 Rh6CG147900 Rh6CG148000 Rh6CG152100 Rh6CG152200 Rh6DG136500 Rh6DG141600
rosa_wichuraiana	Rw1G005360 Rw4G029290 Rw6G013110 Rw6G013340 Rw6G013490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	38
AccIII	TCCGGA	1 cut(s)	505
AciI	CCGC	2 cut(s)	254, 701
AclWI	GGATC	4 cut(s)	167, 497, 563, 572
AcyI	GRCGYC	1 cut(s)	35
AfaI	GTAC	2 cut(s)	119, 290
AfeI	AGCGCT	1 cut(s)	299
AfiI	CCNNNNNNNGG	2 cut(s)	217, 560
AflIII	ACRYGT	1 cut(s)	51
AgsI	TTSAA	2 cut(s)	610, 655
AjnI	CCWGG	2 cut(s)	346, 559
AluBI	AGCT	3 cut(s)	136, 149, 631
AluI	AGCT	3 cut(s)	136, 149, 631
Alw21I	GWGCWC	1 cut(s)	138
Alw26I	GTCTC	2 cut(s)	467, 809
AlwI	GGATC	4 cut(s)	167, 497, 563, 572
Ama87I	CYCGRG	1 cut(s)	113
Aor13HI	TCCGGA	1 cut(s)	505
Aor51HI	AGCGCT	1 cut(s)	299
AoxI	GGCC	2 cut(s)	239, 798
ApeKI	GCWGC	1 cut(s)	535
AspLEI	GCGC	1 cut(s)	300
AspS9I	GGNCC	2 cut(s)	240, 798
AsuHPI	GGTGA	2 cut(s)	67, 737
AsuII	TTCGAA	1 cut(s)	741
AvaI	CYCGRG	1 cut(s)	113
BaeI	ACNNNNGTAYC	2 cut(s)	406, 439
BanII	GRGCYC	1 cut(s)	138
BbsI	GAAGAC	1 cut(s)	521
Bbv12I	GWGCWC	1 cut(s)	138
BbvI	GCAGC	1 cut(s)	522
BciT130I	CCWGG	2 cut(s)	348, 561
BcoDI	GTCTC	2 cut(s)	467, 809
BfaI	CTAG	1 cut(s)	812
BfoI	RGCGCY	1 cut(s)	301
BisI	GCNGC	1 cut(s)	536
BlpI	GCTNAGC	2 cut(s)	365, 627
BlsI	GCNGC	1 cut(s)	537
Bme1390I	CCNGG	2 cut(s)	348, 561
BmeT110I	CYCGRG	1 cut(s)	113
BmgT120I	GGNCC	2 cut(s)	240, 798
BmiI	GGNNCC	2 cut(s)	270, 380
BmrFI	CCNGG	2 cut(s)	348, 561
BmrI	ACTGGG	1 cut(s)	378
BmsI	GCATC	2 cut(s)	430, 817
BmuI	ACTGGG	1 cut(s)	378
BpiI	GAAGAC	1 cut(s)	521
BplI	GAGNNNNNCTC	2 cut(s)	120, 152
Bpu1102I	GCTNAGC	2 cut(s)	365, 627
Bpu14I	TTCGAA	1 cut(s)	741
BpuEI	CTTGAG	2 cut(s)	503, 725
Bsa29I	ATCGAT	1 cut(s)	567
BsaBI	GATNNNNATC	1 cut(s)	396
BsaHI	GRCGYC	1 cut(s)	35
BsaJI	CCNNGG	3 cut(s)	279, 462, 560
BsaWI	WCCGGW	1 cut(s)	505
Bsc4I	CCNNNNNNNGG	2 cut(s)	217, 560
Bse1I	ACTGG	3 cut(s)	203, 384, 644
Bse8I	GATNNNNATC	1 cut(s)	396
BseAI	TCCGGA	1 cut(s)	505
BseBI	CCWGG	2 cut(s)	348, 561
BseCI	ATCGAT	1 cut(s)	567
BseDI	CCNNGG	3 cut(s)	279, 462, 560
BseGI	GGATG	2 cut(s)	445, 454
BseJI	GATNNNNATC	1 cut(s)	396
BseLI	CCNNNNNNNGG	2 cut(s)	217, 560
BseMII	CTCAG	3 cut(s)	95, 240, 618
BseNI	ACTGG	3 cut(s)	203, 384, 644
BseRI	GAGGAG	1 cut(s)	141
BseXI	GCAGC	1 cut(s)	522
BshFI	GGCC	2 cut(s)	241, 800
BshVI	ATCGAT	1 cut(s)	567
BsiHKAI	GWGCWC	1 cut(s)	138
BsiHKCI	CYCGRG	1 cut(s)	113
BsiSI	CCGG	1 cut(s)	506
BslI	CCNNNNNNNGG	2 cut(s)	217, 560
BsmAI	GTCTC	2 cut(s)	467, 809
BsnI	GGCC	2 cut(s)	241, 800
BsoBI	CYCGRG	1 cut(s)	113
Bsp119I	TTCGAA	1 cut(s)	741
Bsp1286I	GDGCHC	1 cut(s)	138
Bsp13I	TCCGGA	1 cut(s)	505
Bsp1407I	TGTACA	1 cut(s)	288
Bsp143I	GATC	5 cut(s)	172, 391, 502, 564, 568
Bsp1720I	GCTNAGC	2 cut(s)	365, 627
BspACI	CCGC	2 cut(s)	254, 701
BspANI	GGCC	2 cut(s)	241, 800
BspCNI	CTCAG	3 cut(s)	96, 241, 619
BspDI	ATCGAT	1 cut(s)	567
BspEI	TCCGGA	1 cut(s)	505
BspLI	GGNNCC	2 cut(s)	270, 380
BspPI	GGATC	4 cut(s)	167, 497, 563, 572
BspQI	GCTCTTC	1 cut(s)	126
BspT104I	TTCGAA	1 cut(s)	741
BsrGI	TGTACA	1 cut(s)	288
BsrI	ACTGG	3 cut(s)	203, 384, 644
BssECI	CCNNGG	3 cut(s)	279, 462, 560
BssMI	GATC	5 cut(s)	172, 391, 502, 564, 568
BssNI	GRCGYC	1 cut(s)	35
BssT1I	CCWWGG	1 cut(s)	279
Bst2UI	CCWGG	2 cut(s)	348, 561
Bst4CI	ACNGT	2 cut(s)	224, 478
Bst6I	CTCTTC	1 cut(s)	126
BstACI	GRCGYC	1 cut(s)	35
BstAUI	TGTACA	1 cut(s)	288
BstBI	TTCGAA	1 cut(s)	741
BstC8I	GCNNGC	1 cut(s)	9
BstDEI	CTNAG	4 cut(s)	104, 249, 365, 627
BstENI	CCTNNNNNAGG	1 cut(s)	215
BstF5I	GGATG	2 cut(s)	445, 454
BstH2I	RGCGCY	1 cut(s)	301
BstHHI	GCGC	1 cut(s)	300
BstKTI	GATC	5 cut(s)	175, 394, 505, 567, 571
BstMAI	GTCTC	2 cut(s)	467, 809
BstMBI	GATC	5 cut(s)	172, 391, 502, 564, 568
BstNI	CCWGG	2 cut(s)	348, 561
BstNSI	RCATGY	1 cut(s)	423
BstSCI	CCNGG	2 cut(s)	346, 559
BstV1I	GCAGC	1 cut(s)	522
BstV2I	GAAGAC	1 cut(s)	521
Bsu15I	ATCGAT	1 cut(s)	567
BsuRI	GGCC	2 cut(s)	241, 800
BsuTUI	ATCGAT	1 cut(s)	567
BtsCI	GGATG	2 cut(s)	445, 454
Cac8I	GCNNGC	1 cut(s)	9
CfoI	GCGC	1 cut(s)	300
Cfr13I	GGNCC	2 cut(s)	240, 798
ClaI	ATCGAT	1 cut(s)	567
CseI	GACGC	2 cut(s)	13, 236
Csp6I	GTAC	2 cut(s)	118, 289
CviAII	CATG	2 cut(s)	420, 819
CviQI	GTAC	2 cut(s)	118, 289
DdeI	CTNAG	4 cut(s)	104, 249, 365, 627
DpnI	GATC	5 cut(s)	174, 393, 504, 566, 570
DpnII	GATC	5 cut(s)	172, 391, 502, 564, 568
Eam1104I	CTCTTC	1 cut(s)	126
EarI	CTCTTC	1 cut(s)	126
EciI	GGCGGA	1 cut(s)	269
Ecl136II	GAGCTC	1 cut(s)	136
Eco130I	CCWWGG	1 cut(s)	279
Eco24I	GRGCYC	1 cut(s)	138
Eco47III	AGCGCT	1 cut(s)	299
Eco53kI	GAGCTC	1 cut(s)	136
Eco88I	CYCGRG	1 cut(s)	113
EcoICRI	GAGCTC	1 cut(s)	136
EcoNI	CCTNNNNNAGG	1 cut(s)	215
EcoRII	CCWGG	2 cut(s)	346, 559
EcoT14I	CCWWGG	1 cut(s)	279
EcoT22I	ATGCAT	1 cut(s)	688
EcoT38I	GRGCYC	1 cut(s)	138
ErhI	CCWWGG	1 cut(s)	279
FaeI	CATG	2 cut(s)	423, 822
FaiI	YATR	8 cut(s)	95, 215, 405, 421, 501, 755, 785, 820
FatI	CATG	2 cut(s)	419, 818
FauI	CCCGC	1 cut(s)	708
Fnu4HI	GCNGC	1 cut(s)	536
FokI	GGATG	2 cut(s)	452, 461
FriOI	GRGCYC	1 cut(s)	138
Fsp4HI	GCNGC	1 cut(s)	536
FspBI	CTAG	1 cut(s)	812
GlaI	GCGC	1 cut(s)	299
GluI	GCNGC	1 cut(s)	536
HaeII	RGCGCY	1 cut(s)	301
HaeIII	GGCC	2 cut(s)	241, 800
HapII	CCGG	1 cut(s)	506
HgaI	GACGC	2 cut(s)	13, 236
HhaI	GCGC	1 cut(s)	300
Hin1I	GRCGYC	1 cut(s)	35
Hin1II	CATG	2 cut(s)	423, 822
Hin6I	GCGC	1 cut(s)	298
HinP1I	GCGC	1 cut(s)	298
HinfI	GANTC	7 cut(s)	72, 97, 106, 245, 257, 320, 619
HpaII	CCGG	1 cut(s)	506
HphI	GGTGA	2 cut(s)	67, 737
Hpy166II	GTNNAC	1 cut(s)	17
Hpy188I	TCNGA	7 cut(s)	105, 128, 250, 304, 338, 616, 649
Hpy188III	TCNNGA	2 cut(s)	506, 812
Hpy8I	GTNNAC	1 cut(s)	17
Hpy99I	CGWCG	2 cut(s)	24, 40
HpyAV	CCTTC	1 cut(s)	564
HpyCH4III	ACNGT	2 cut(s)	224, 478
HpyCH4IV	ACGT	3 cut(s)	22, 35, 53
HpyCH4V	TGCA	4 cut(s)	443, 538, 686, 763
HpyF3I	CTNAG	4 cut(s)	104, 249, 365, 627
HpySE526I	ACGT	3 cut(s)	22, 35, 53
Hsp92I	GRCGYC	1 cut(s)	35
Hsp92II	CATG	2 cut(s)	423, 822
HspAI	GCGC	1 cut(s)	298
Kpn2I	TCCGGA	1 cut(s)	505
Kzo9I	GATC	5 cut(s)	172, 391, 502, 564, 568
LguI	GCTCTTC	1 cut(s)	126
LmnI	GCTCC	4 cut(s)	154, 305, 349, 384
Lsp1109I	GCAGC	1 cut(s)	522
LweI	GCATC	2 cut(s)	430, 817
MaeI	CTAG	1 cut(s)	812
MaeII	ACGT	3 cut(s)	22, 35, 53
MaeIII	GTNAC	4 cut(s)	31, 224, 386, 725
MalI	GATC	5 cut(s)	174, 393, 504, 566, 570
MboI	GATC	5 cut(s)	172, 391, 502, 564, 568
MboII	GAAGA	3 cut(s)	143, 523, 526
MhlI	GDGCHC	1 cut(s)	138
MluCI	AATT	2 cut(s)	66, 610
MlyI	GAGTC	3 cut(s)	115, 266, 314
MnlI	CCTC	6 cut(s)	56, 122, 162, 221, 244, 457
Mph1103I	ATGCAT	1 cut(s)	688
MroI	TCCGGA	1 cut(s)	505
MseI	TTAA	2 cut(s)	48, 315
MspI	CCGG	1 cut(s)	506
MspR9I	CCNGG	2 cut(s)	348, 561
MvaI	CCWGG	2 cut(s)	348, 561
NdeII	GATC	5 cut(s)	172, 391, 502, 564, 568
NlaIII	CATG	2 cut(s)	423, 822
NlaIV	GGNNCC	2 cut(s)	270, 380
NmeAIII	GCCGAG	1 cut(s)	487
NmuCI	GTSAC	3 cut(s)	31, 224, 725
NsiI	ATGCAT	1 cut(s)	688
NspI	RCATGY	1 cut(s)	423
NspV	TTCGAA	1 cut(s)	741
PaeR7I	CTCGAG	1 cut(s)	113
PciSI	GCTCTTC	1 cut(s)	126
PfeI	GAWTC	4 cut(s)	72, 97, 245, 619
PfoI	TCCNGGA	1 cut(s)	346
PkrI	GCNGC	1 cut(s)	537
PleI	GAGTC	3 cut(s)	114, 265, 314
PpsI	GAGTC	3 cut(s)	114, 265, 314
Psp124BI	GAGCTC	1 cut(s)	138
Psp6I	CCWGG	2 cut(s)	346, 559
PspGI	CCWGG	2 cut(s)	346, 559
PspN4I	GGNNCC	2 cut(s)	270, 380
PspPI	GGNCC	2 cut(s)	240, 798
PspXI	VCTCGAGB	1 cut(s)	113
RsaI	GTAC	2 cut(s)	119, 290
RsaNI	GTAC	2 cut(s)	118, 289
SacI	GAGCTC	1 cut(s)	138
SapI	GCTCTTC	1 cut(s)	126
SaqAI	TTAA	2 cut(s)	48, 315
SatI	GCNGC	1 cut(s)	536
Sau3AI	GATC	5 cut(s)	172, 391, 502, 564, 568
Sau96I	GGNCC	2 cut(s)	240, 798
SchI	GAGTC	3 cut(s)	115, 266, 314
ScrFI	CCNGG	2 cut(s)	348, 561
SduI	GDGCHC	1 cut(s)	138
SfaNI	GCATC	2 cut(s)	430, 817
Sfr274I	CTCGAG	1 cut(s)	113
SfuI	TTCGAA	1 cut(s)	741
SlaI	CTCGAG	1 cut(s)	113
SmlI	CTYRAG	3 cut(s)	113, 482, 704
SmoI	CTYRAG	3 cut(s)	113, 482, 704
Sse9I	AATT	2 cut(s)	66, 610
SsiI	CCGC	2 cut(s)	254, 701
SspMI	CTAG	1 cut(s)	812
SstI	GAGCTC	1 cut(s)	138
StyD4I	CCNGG	2 cut(s)	346, 559
StyI	CCWWGG	1 cut(s)	279
TaaI	ACNGT	2 cut(s)	224, 478
TaiI	ACGT	3 cut(s)	25, 38, 56
TaqI	TCGA	7 cut(s)	38, 114, 495, 567, 589, 665, 741
TasI	AATT	2 cut(s)	66, 610
TatI	WGTACW	1 cut(s)	288
TfiI	GAWTC	4 cut(s)	72, 97, 245, 619
Tru1I	TTAA	2 cut(s)	48, 315
Tru9I	TTAA	2 cut(s)	48, 315
TseFI	GTSAC	3 cut(s)	31, 224, 725
TseI	GCWGC	1 cut(s)	535
Tsp45I	GTSAC	3 cut(s)	31, 224, 725
TspDTI	ATGAA	1 cut(s)	89
XagI	CCTNNNNNAGG	1 cut(s)	215
XbaI	TCTAGA	1 cut(s)	811
XceI	RCATGY	1 cut(s)	423
XhoI	CTCGAG	1 cut(s)	113
XspI	CTAG	1 cut(s)	812
ZraI	GACGTC	1 cut(s)	36
Zsp2I	ATGCAT	1 cut(s)	688

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