Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001448

Physical Location & Seq

Genomic Coordinates Forward (+)

65344054 .. 65344878

Gene Structure 825 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00273610.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGTGCTGGACAGCGTAATTCCCAAGCGCATCAAGCTCTTCGAGGCCATCCAGGCTGAGCAGCTCGCCCAGCGCCAAGCCCTCCCGTCCGATCCAATCAAGATTACAATATTGCCGGACGGGAAGGTGAAGGAGGGAAAGAAGTGGGAGGTTTCGAAGAGCTTGGCGTCTAATGCGTTGGCTGCCGAGGTGAATGGGGTACTGTGGGACATGAGCAGGCCTTTGGAGGGTGACTGTGAGCTGAAGCTGTTCACATTTGACAGTGATGAAGGCCGGGACACTTTCTGGCATTCTAGCGCACACATTCTCGGACAGGCACTTGAGGGTTTGTATGGATGTAAACTCTGCATTGGTCCCTGCCACACTAGTAGAGAAGAGGGTTTCTATTATGATGCGTTTTATGGTGATTTGGGGTTGAAAGATGAACACTTGAAGCTAATTGACTCAGAAGCAGACAAGGCTGTTAAGGCCAAACAGCCATTTGAGCGCATTCAAGTATCAAGGGATCAAGCACTTGAAATTTTCTCTGATAATAGATTCAAGGTTGAAATCATCAATGATCTTCCAGCTGATGACAAAACTATCAGAGTCTACAGATGTGGCTCCTTGGTTGATTTGTGTTGTGGACCGCACATACCAAACACATCATTTGTCAAAGCATTTGCATGTGTGAATGCTTCTTCTGCCTACTGGAGAGGAAATAAAGACCGTGAAAGCTTACAGAGAGTTTATGGAGTGTCTTATCCTGATAAGAAAGGTTTGCAGTTATATTTCCAGCGACGGGAAGAAGCGAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004829 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005829 GO:0005886 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006435 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0030312 GO:0034641 GO:0034645 GO:0034660 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 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:0071944 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

HGTP_anticodon TGS tRNA-synt_2b tRNA_SAD

Protein Analysis

265

Amino Acids

29.93

Weight (kDa)

6.02

Isoelectric Point (pI)

37.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TGS	PF02824	33 - 85	2e-08	TGS domain
tRNA_SAD	PF07973	195 - 244	9.6e-15	Threonyl and Alanyl tRNA synthetase second additional 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: OG0001448)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G18130 AT5G26830
fragaria_vesca	FvH4_3g11970 FvH4_4g07680 FvH4_4g07680 FvH4_4g07680 FvH4_4g07690 FvH4_4g07690 FvH4_6g47820
malus_domestica	MD13G1089000.v1.1 MD16G1089100.v1.1
prunus_persica	Prupe.1G256800_v2.0.a1 Prupe.7G261600_v2.0.a1 Prupe.8G070800_v2.0.a1 Prupe.8G074400_v2.0.a1 Prupe.8G074400_v2.0.a1
pyrus_communis	pycom13g07710 pycom16g07630
rosa_chinensis	RchiOBHm_Chr4g0400731 RchiOBHm_Chr4g0444241 RchiOBHm_Chr5g0019561 RchiOBHm_Chr5g0019571 RchiOBHm_Chr5g0025481
rosa_laevigata	RLG00000005338 RLG00000008608 RLG00000009182 RLG00000032456
rosa_multiflora	Rmu_sc0002636.1_g000026 Rmu_sc0002759.1_g000056
rosa_roxburghii	Rroxscaffold_155G00443880 Rroxscaffold_1G00058510 Rroxscaffold_3G00273610 Rroxscaffold_5G00345580
rosa_rugosa	Rorug04G0025500 Rorug04G0093800 Rorug05G0052000 Rorug06G0426500
rosa_samantha	Rh4AG103300 Rh4AG411800 Rh4CG111600 Rh4DG095200 Rh5AG142600 Rh5BG141100 Rh5CG153100 Rh5CG153200 Rh5DG141700 Rh5DG141800 Rh7CG027000 Rh7CG027200 Rh7DG026700
rosa_wichuraiana	Rw4G008360 Rw5G012620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	591
AciI	CCGC	1 cut(s)	629
AclWI	GGATC	2 cut(s)	86, 513
AcsI	RAATTY	1 cut(s)	519
AcuI	CTGAAG	1 cut(s)	263
AcyI	GRCGYC	1 cut(s)	167
AfaI	GTAC	1 cut(s)	201
AfiI	CCNNNNNNNGG	2 cut(s)	227, 781
AgsI	TTSAA	6 cut(s)	418, 433, 494, 518, 541, 548
AhlI	ACTAGT	1 cut(s)	365
AjnI	CCWGG	1 cut(s)	51
AluBI	AGCT	8 cut(s)	37, 64, 162, 241, 247, 436, 569, 717
AluI	AGCT	8 cut(s)	37, 64, 162, 241, 247, 436, 569, 717
AlwI	GGATC	2 cut(s)	86, 513
AoxI	GGCC	4 cut(s)	45, 218, 271, 468
ApeKI	GCWGC	2 cut(s)	61, 182
ApoI	RAATTY	1 cut(s)	519
Asp700I	GAANNNNTTC	1 cut(s)	248
AspLEI	GCGC	4 cut(s)	30, 75, 299, 489
AspS9I	GGNCC	2 cut(s)	353, 626
AsuC2I	CCSGG	1 cut(s)	275
AsuHPI	GGTGA	4 cut(s)	139, 202, 242, 416
AsuII	TTCGAA	1 cut(s)	155
AvaII	GGWCC	2 cut(s)	353, 626
BbvI	GCAGC	2 cut(s)	73, 169
BccI	CCATC	1 cut(s)	56
BciT130I	CCWGG	1 cut(s)	53
BcnI	CCSGG	1 cut(s)	275
BcuI	ACTAGT	1 cut(s)	365
BfaI	CTAG	2 cut(s)	294, 366
BfmI	CTRYAG	1 cut(s)	592
BfoI	RGCGCY	1 cut(s)	76
BglI	GCCNNNNNGGC	1 cut(s)	53
BisI	GCNGC	2 cut(s)	62, 183
BlpI	GCTNAGC	1 cut(s)	57
BlsI	GCNGC	2 cut(s)	63, 184
Bme1390I	CCNGG	2 cut(s)	53, 275
Bme18I	GGWCC	2 cut(s)	353, 626
BmgT120I	GGNCC	2 cut(s)	353, 626
BmiI	GGNNCC	2 cut(s)	355, 604
BmrFI	CCNGG	2 cut(s)	53, 275
BmsI	GCATC	2 cut(s)	39, 382
BpmI	CTGGAG	1 cut(s)	712
Bpu1102I	GCTNAGC	1 cut(s)	57
Bpu14I	TTCGAA	1 cut(s)	155
BpuEI	CTTGAG	1 cut(s)	341
BpuMI	CCSGG	1 cut(s)	275
BsaHI	GRCGYC	1 cut(s)	167
BsaJI	CCNNGG	2 cut(s)	186, 606
Bsc4I	CCNNNNNNNGG	2 cut(s)	227, 781
Bse1I	ACTGG	1 cut(s)	695
BseBI	CCWGG	1 cut(s)	53
BseDI	CCNNGG	2 cut(s)	186, 606
BseGI	GGATG	2 cut(s)	48, 341
BseLI	CCNNNNNNNGG	2 cut(s)	227, 781
BseMII	CTCAG	2 cut(s)	48, 459
BseNI	ACTGG	1 cut(s)	695
BseXI	GCAGC	2 cut(s)	73, 169
BseYI	CCCAGC	1 cut(s)	69
BshFI	GGCC	4 cut(s)	47, 220, 273, 470
BsiSI	CCGG	2 cut(s)	116, 274
BslFI	GGGAC	3 cut(s)	221, 290, 339
BslI	CCNNNNNNNGG	2 cut(s)	227, 781
BsmFI	GGGAC	3 cut(s)	221, 290, 339
BsmI	GAATGC	3 cut(s)	289, 489, 679
BsnI	GGCC	4 cut(s)	47, 220, 273, 470
Bsp119I	TTCGAA	1 cut(s)	155
Bsp143I	GATC	3 cut(s)	91, 505, 559
Bsp1720I	GCTNAGC	1 cut(s)	57
BspACI	CCGC	1 cut(s)	629
BspANI	GGCC	4 cut(s)	47, 220, 273, 470
BspCNI	CTCAG	2 cut(s)	49, 458
BspLI	GGNNCC	2 cut(s)	355, 604
BspPI	GGATC	2 cut(s)	86, 513
BspQI	GCTCTTC	2 cut(s)	44, 152
BspT104I	TTCGAA	1 cut(s)	155
BsrI	ACTGG	1 cut(s)	695
BssECI	CCNNGG	2 cut(s)	186, 606
BssMI	GATC	3 cut(s)	91, 505, 559
BssNI	GRCGYC	1 cut(s)	167
BssT1I	CCWWGG	1 cut(s)	606
Bst2UI	CCWGG	1 cut(s)	53
Bst4CI	ACNGT	4 cut(s)	204, 236, 263, 710
Bst6I	CTCTTC	3 cut(s)	44, 152, 369
BstACI	GRCGYC	1 cut(s)	167
BstBI	TTCGAA	1 cut(s)	155
BstC8I	GCNNGC	2 cut(s)	66, 218
BstDEI	CTNAG	2 cut(s)	57, 445
BstF5I	GGATG	2 cut(s)	48, 341
BstH2I	RGCGCY	1 cut(s)	76
BstHHI	GCGC	4 cut(s)	30, 75, 299, 489
BstKTI	GATC	3 cut(s)	94, 508, 562
BstMBI	GATC	3 cut(s)	91, 505, 559
BstMWI	GCNNNNNNNGC	9 cut(s)	34, 53, 70, 173, 182, 458, 467, 484, 683
BstNI	CCWGG	1 cut(s)	53
BstNSI	RCATGY	1 cut(s)	669
BstSCI	CCNGG	2 cut(s)	51, 273
BstSFI	CTRYAG	1 cut(s)	592
BstV1I	GCAGC	2 cut(s)	73, 169
BsuRI	GGCC	4 cut(s)	47, 220, 273, 470
BtsCI	GGATG	2 cut(s)	48, 341
BtsIMutI	CAGTG	1 cut(s)	268
Cac8I	GCNNGC	2 cut(s)	66, 218
CfoI	GCGC	4 cut(s)	30, 75, 299, 489
Cfr13I	GGNCC	2 cut(s)	353, 626
CseI	GACGC	1 cut(s)	156
Csp6I	GTAC	1 cut(s)	200
CviAII	CATG	2 cut(s)	211, 666
CviQI	GTAC	1 cut(s)	200
DdeI	CTNAG	2 cut(s)	57, 445
DpnI	GATC	3 cut(s)	93, 507, 561
DpnII	GATC	3 cut(s)	91, 505, 559
Eam1104I	CTCTTC	3 cut(s)	44, 152, 369
EarI	CTCTTC	3 cut(s)	44, 152, 369
Eco130I	CCWWGG	1 cut(s)	606
Eco147I	AGGCCT	1 cut(s)	220
Eco47I	GGWCC	2 cut(s)	353, 626
Eco57I	CTGAAG	1 cut(s)	263
EcoRII	CCWGG	1 cut(s)	51
EcoT14I	CCWWGG	1 cut(s)	606
ErhI	CCWWGG	1 cut(s)	606
FaeI	CATG	2 cut(s)	214, 669
FaiI	YATR	8 cut(s)	212, 333, 390, 402, 635, 667, 732, 769
FaqI	GGGAC	3 cut(s)	221, 290, 339
FatI	CATG	2 cut(s)	210, 665
FblI	GTMKAC	1 cut(s)	591
Fnu4HI	GCNGC	2 cut(s)	62, 183
FokI	GGATG	2 cut(s)	35, 348
Fsp4HI	GCNGC	2 cut(s)	62, 183
FspBI	CTAG	2 cut(s)	294, 366
GlaI	GCGC	4 cut(s)	29, 74, 298, 488
GluI	GCNGC	2 cut(s)	62, 183
GsaI	CCCAGC	1 cut(s)	73
GsuI	CTGGAG	1 cut(s)	712
HaeII	RGCGCY	1 cut(s)	76
HaeIII	GGCC	4 cut(s)	47, 220, 273, 470
HapII	CCGG	2 cut(s)	116, 274
HgaI	GACGC	1 cut(s)	156
HhaI	GCGC	4 cut(s)	30, 75, 299, 489
Hin1I	GRCGYC	1 cut(s)	167
Hin1II	CATG	2 cut(s)	214, 669
Hin6I	GCGC	4 cut(s)	28, 73, 297, 487
HinP1I	GCGC	4 cut(s)	28, 73, 297, 487
HindIII	AAGCTT	1 cut(s)	715
HinfI	GANTC	3 cut(s)	443, 537, 588
HpaII	CCGG	2 cut(s)	116, 274
HphI	GGTGA	4 cut(s)	139, 202, 242, 416
Hpy166II	GTNNAC	4 cut(s)	252, 341, 592, 626
Hpy188I	TCNGA	5 cut(s)	91, 311, 448, 529, 587
Hpy188III	TCNNGA	2 cut(s)	100, 746
Hpy8I	GTNNAC	4 cut(s)	252, 341, 592, 626
Hpy99I	CGWCG	1 cut(s)	783
HpyAV	CCTTC	3 cut(s)	118, 124, 263
HpyCH4III	ACNGT	4 cut(s)	204, 236, 263, 710
HpyCH4V	TGCA	3 cut(s)	348, 665, 763
HpyF10VI	GCNNNNNNNGC	9 cut(s)	34, 53, 70, 173, 182, 458, 467, 484, 683
HpyF3I	CTNAG	2 cut(s)	57, 445
Hsp92I	GRCGYC	1 cut(s)	167
Hsp92II	CATG	2 cut(s)	214, 669
HspAI	GCGC	4 cut(s)	28, 73, 297, 487
Kzo9I	GATC	3 cut(s)	91, 505, 559
LguI	GCTCTTC	2 cut(s)	44, 152
LmnI	GCTCC	1 cut(s)	608
Lsp1109I	GCAGC	2 cut(s)	73, 169
LweI	GCATC	2 cut(s)	39, 382
MaeI	CTAG	2 cut(s)	294, 366
MaeIII	GTNAC	1 cut(s)	230
MalI	GATC	3 cut(s)	93, 507, 561
MboI	GATC	3 cut(s)	91, 505, 559
MboII	GAAGA	6 cut(s)	31, 169, 386, 554, 672, 797
MluCI	AATT	3 cut(s)	18, 438, 519
MlyI	GAGTC	2 cut(s)	437, 597
MnlI	CCTC	9 cut(s)	37, 92, 127, 142, 181, 220, 316, 370, 689
MroXI	GAANNNNTTC	1 cut(s)	248
MseI	TTAA	1 cut(s)	465
MslI	CAYNNNNRTG	1 cut(s)	664
MspA1I	CMGCKG	1 cut(s)	569
MspI	CCGG	2 cut(s)	116, 274
MspR9I	CCNGG	2 cut(s)	53, 275
Mva1269I	GAATGC	3 cut(s)	289, 489, 679
MvaI	CCWGG	1 cut(s)	53
MwoI	GCNNNNNNNGC	9 cut(s)	34, 53, 70, 173, 182, 458, 467, 484, 683
NciI	CCSGG	1 cut(s)	275
NdeII	GATC	3 cut(s)	91, 505, 559
NlaIII	CATG	2 cut(s)	214, 669
NlaIV	GGNNCC	2 cut(s)	355, 604
NmeAIII	GCCGAG	1 cut(s)	211
NmuCI	GTSAC	1 cut(s)	230
NspI	RCATGY	1 cut(s)	669
NspV	TTCGAA	1 cut(s)	155
PceI	AGGCCT	1 cut(s)	220
PciSI	GCTCTTC	2 cut(s)	44, 152
PctI	GAATGC	3 cut(s)	289, 489, 679
PdmI	GAANNNNTTC	1 cut(s)	248
PfeI	GAWTC	1 cut(s)	537
PkrI	GCNGC	2 cut(s)	63, 184
PleI	GAGTC	2 cut(s)	437, 596
PpsI	GAGTC	2 cut(s)	437, 596
Psp6I	CCWGG	1 cut(s)	51
PspFI	CCCAGC	1 cut(s)	69
PspGI	CCWGG	1 cut(s)	51
PspN4I	GGNNCC	2 cut(s)	355, 604
PspPI	GGNCC	2 cut(s)	353, 626
PvuII	CAGCTG	1 cut(s)	569
RsaI	GTAC	1 cut(s)	201
RsaNI	GTAC	1 cut(s)	200
RseI	CAYNNNNRTG	1 cut(s)	664
SapI	GCTCTTC	2 cut(s)	44, 152
SaqAI	TTAA	1 cut(s)	465
SatI	GCNGC	2 cut(s)	62, 183
Sau3AI	GATC	3 cut(s)	91, 505, 559
Sau96I	GGNCC	2 cut(s)	353, 626
SchI	GAGTC	2 cut(s)	437, 597
ScrFI	CCNGG	2 cut(s)	53, 275
SfaNI	GCATC	2 cut(s)	39, 382
SfcI	CTRYAG	1 cut(s)	592
SfuI	TTCGAA	1 cut(s)	155
SinI	GGWCC	2 cut(s)	353, 626
SmiMI	CAYNNNNRTG	1 cut(s)	664
SmlI	CTYRAG	1 cut(s)	320
SmoI	CTYRAG	1 cut(s)	320
SpeI	ACTAGT	1 cut(s)	365
Sse9I	AATT	3 cut(s)	18, 438, 519
SseBI	AGGCCT	1 cut(s)	220
SsiI	CCGC	1 cut(s)	629
SspI	AATATT	1 cut(s)	111
SspMI	CTAG	2 cut(s)	294, 366
StuI	AGGCCT	1 cut(s)	220
StyD4I	CCNGG	2 cut(s)	51, 273
StyI	CCWWGG	1 cut(s)	606
TaaI	ACNGT	4 cut(s)	204, 236, 263, 710
TaqI	TCGA	2 cut(s)	42, 155
TasI	AATT	3 cut(s)	18, 438, 519
TfiI	GAWTC	1 cut(s)	537
Tru1I	TTAA	1 cut(s)	465
Tru9I	TTAA	1 cut(s)	465
TscAI	CASTG	1 cut(s)	268
TseFI	GTSAC	1 cut(s)	230
TseI	GCWGC	2 cut(s)	61, 182
Tsp45I	GTSAC	1 cut(s)	230
TspDTI	ATGAA	2 cut(s)	282, 438
TspRI	CASTG	1 cut(s)	268
VpaK11BI	GGWCC	2 cut(s)	353, 626
XapI	RAATTY	1 cut(s)	519
XceI	RCATGY	1 cut(s)	669
XmiI	GTMKAC	1 cut(s)	591
XmnI	GAANNNNTTC	1 cut(s)	248
XspI	CTAG	2 cut(s)	294, 366

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