Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0012386

Physical Location & Seq

Genomic Coordinates Reverse (-)

13834059 .. 13836187

Gene Structure 2129 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00393700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGCGACCTCCCAGAGGCGGCGGTAGTTTCAGAGGCAACCGCGGTGGCGGAGGTTTCAGAGGCCGCGGCGGCGGAGACTTCAGAGGTGGCCGTGGTGGGTTCCGCGACGAAGGCCCTCCTTCGGAAGTGGTAGAGGTTTCAACGTTTGTTCATGCATGTGAGGGTGATGCTGTCACAAAGCTCACACATGAGAAGATACCCTATTTCAATGCCCCAATCTATCTGCAGAACAAGACTCAGATAGGCAAAGTTGATGAAATTTTTGGCCCAATTAATGAATCTTACTTCTCGGTCAAAGTGATGGAAGGCATTGTGGCAACTTCATATTCACAGGGTGATAAGTTCTATATCGACCCAGCGAAGCTTCTTCCTCTTGCAAGATTTCTTCCACAGCCCAAGGGACAGAAACCAGCTTTTTCTCGAGGTGGAGGACGTGGAGGCAGGGGACCTCCAAGGGGTGGCAGAGGTGGAGTTTTTCGTGGCAGGGGACCTCCAAGGGGGGTGGTAGAGGACCCCCGAGGGGTGGGCGTGGTGGCTTCAGGGGCAGAGGGAGATTTTAGAGTAACATTGCTCCCCCCATTTCATGTTGTCGCTATTTCAGGATGCTTTAGGATTCACAAGAAGTCACAGTTTCATGCTTGTTCTGGTGGTGACATGTGGTTTTGTGGATGTTCATGTTTTATGTCTATGTTTATCTTGCTGAAGAATTTGTACTGGATGAAGTTAATTATAGATGTTTATTTTGAATTTATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000154 GO:0000454 GO:0001522 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005732 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009534 GO:0009535 GO:0009536 GO:0009579 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016072 GO:0016074 GO:0022613 GO:0030515 GO:0031118 GO:0031429 GO:0031974 GO:0031976 GO:0031981 GO:0031984 GO:0032991 GO:0034357 GO:0034470 GO:0034513 GO:0034641 GO:0034660 GO:0042254 GO:0042651 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055035 GO:0070013 GO:0071704 GO:0071840 GO:0072588 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

Gar1

Protein Analysis

251

Amino Acids

27.25

Weight (kDa)

9.72

Isoelectric Point (pI)

33.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Gar1	PF04410	43 - 129	1.5e-27	Gar1/Naf1 RNA binding region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0012386)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G03920 AT5G18180
fragaria_vesca	FvH4_1g30320
malus_domestica	MD00G1189600.v1.1 MD05G1045500.v1.1
prunus_persica	Prupe.8G064800_v2.0.a1
pyrus_communis	pycom05g03790 pycom10g03750
rosa_chinensis	RchiOBHm_Chr3g0490211
rosa_laevigata	RLG00000022895
rosa_multiflora	Rmu_sc0018339.1_g000001 Rmu_sc0019534.1_g000007
rosa_roxburghii	Rroxscaffold_6G00393700
rosa_rugosa	Rorug03G0243000
rosa_samantha	Rh3AG291400 Rh3BG328400 Rh3CG325400 Rh3DG324700
rosa_wichuraiana	Rw3G025790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	458
AccII	CGCG	3 cut(s)	42, 66, 105
AclI	AACGTT	1 cut(s)	143
AcoI	YGGCCR	1 cut(s)	88
AcsI	RAATTY	3 cut(s)	258, 706, 746
AcuI	CTGAAG	3 cut(s)	64, 522, 722
AdeI	CACNNNGTG	1 cut(s)	335
AfaI	GTAC	1 cut(s)	713
AfiI	CCNNNNNNNGG	8 cut(s)	14, 17, 121, 455, 458, 497, 520, 523
AflIII	ACRYGT	1 cut(s)	654
AgsI	TTSAA	3 cut(s)	141, 208, 746
AjiI	CACGTC	1 cut(s)	434
AluBI	AGCT	3 cut(s)	181, 364, 413
AluI	AGCT	3 cut(s)	181, 364, 413
Alw26I	GTCTC	1 cut(s)	69
Ama87I	CYCGRG	2 cut(s)	420, 516
AoxI	GGCC	4 cut(s)	61, 88, 112, 265
ApoI	RAATTY	3 cut(s)	258, 706, 746
AseI	ATTAAT	1 cut(s)	273
AspS9I	GGNCC	5 cut(s)	113, 266, 446, 488, 511
AsuHPI	GGTGA	3 cut(s)	176, 347, 662
AvaI	CYCGRG	2 cut(s)	420, 516
AvaII	GGWCC	3 cut(s)	446, 488, 511
BarI	GAAGNNNNNNTAC	2 cut(s)	695, 727
BccI	CCATC	1 cut(s)	295
BceAI	ACGGC	1 cut(s)	75
BcoDI	GTCTC	1 cut(s)	69
BfmI	CTRYAG	1 cut(s)	224
BglI	GCCNNNNNGGC	1 cut(s)	69
BisI	GCNGC	4 cut(s)	19, 64, 67, 70
BlsI	GCNGC	4 cut(s)	20, 65, 68, 71
Bme18I	GGWCC	3 cut(s)	446, 488, 511
BmeT110I	CYCGRG	2 cut(s)	420, 516
BmgBI	CACGTC	1 cut(s)	434
BmgT120I	GGNCC	5 cut(s)	113, 266, 446, 488, 511
BmiI	GGNNCC	4 cut(s)	101, 447, 489, 513
BmsI	GCATC	2 cut(s)	157, 593
BsaJI	CCNNGG	7 cut(s)	40, 64, 91, 396, 452, 494, 517
Bsc4I	CCNNNNNNNGG	8 cut(s)	14, 17, 121, 455, 458, 497, 520, 523
Bse1I	ACTGG	1 cut(s)	719
Bse3DI	GCAATG	1 cut(s)	566
BseDI	CCNNGG	7 cut(s)	40, 64, 91, 396, 452, 494, 517
BseGI	GGATG	3 cut(s)	608, 674, 723
BseLI	CCNNNNNNNGG	8 cut(s)	14, 17, 121, 455, 458, 497, 520, 523
BseMI	GCAATG	1 cut(s)	566
BseMII	CTCAG	1 cut(s)	251
BseNI	ACTGG	1 cut(s)	719
BseYI	CCCAGC	1 cut(s)	355
Bsh1236I	CGCG	3 cut(s)	42, 66, 105
BshFI	GGCC	4 cut(s)	63, 90, 114, 267
BsiHKCI	CYCGRG	2 cut(s)	420, 516
BslFI	GGGAC	3 cut(s)	414, 459, 501
BslI	CCNNNNNNNGG	8 cut(s)	14, 17, 121, 455, 458, 497, 520, 523
BsmAI	GTCTC	1 cut(s)	69
BsmFI	GGGAC	3 cut(s)	414, 459, 501
BsnI	GGCC	4 cut(s)	63, 90, 114, 267
BsoBI	CYCGRG	2 cut(s)	420, 516
BspANI	GGCC	4 cut(s)	63, 90, 114, 267
BspCNI	CTCAG	1 cut(s)	250
BspFNI	CGCG	3 cut(s)	42, 66, 105
BspLI	GGNNCC	4 cut(s)	101, 447, 489, 513
BspMAI	CTGCAG	1 cut(s)	228
BsrDI	GCAATG	1 cut(s)	566
BsrI	ACTGG	1 cut(s)	719
BssECI	CCNNGG	7 cut(s)	40, 64, 91, 396, 452, 494, 517
BssT1I	CCWWGG	3 cut(s)	396, 452, 494
Bst4CI	ACNGT	1 cut(s)	630
BstDEI	CTNAG	1 cut(s)	237
BstDSI	CCRYGG	3 cut(s)	40, 64, 91
BstENI	CCTNNNNNAGG	1 cut(s)	12
BstF5I	GGATG	3 cut(s)	608, 674, 723
BstFNI	CGCG	3 cut(s)	42, 66, 105
BstMAI	GTCTC	1 cut(s)	69
BstMWI	GCNNNNNNNGC	3 cut(s)	69, 111, 542
BstNSI	RCATGY	2 cut(s)	159, 658
BstSFI	CTRYAG	1 cut(s)	224
BstUI	CGCG	3 cut(s)	42, 66, 105
BsuRI	GGCC	4 cut(s)	63, 90, 114, 267
BtgI	CCRYGG	3 cut(s)	40, 64, 91
BtrI	CACGTC	1 cut(s)	434
BtsCI	GGATG	3 cut(s)	608, 674, 723
Cfr13I	GGNCC	5 cut(s)	113, 266, 446, 488, 511
Cfr42I	CCGCGG	2 cut(s)	43, 67
Csp6I	GTAC	1 cut(s)	712
CspCI	CAANNNNNGTGG	4 cut(s)	25, 60, 483, 518
CviAII	CATG	7 cut(s)	152, 156, 188, 584, 635, 655, 675
CviJI	RGCY	9 cut(s)	63, 90, 114, 181, 267, 364, 394, 413, 536
CviKI_1	RGCY	9 cut(s)	63, 90, 114, 181, 267, 364, 394, 413, 536
CviQI	GTAC	1 cut(s)	712
DdeI	CTNAG	1 cut(s)	237
DraIII	CACNNNGTG	1 cut(s)	335
EaeI	YGGCCR	1 cut(s)	88
EciI	GGCGGA	2 cut(s)	63, 87
Eco130I	CCWWGG	3 cut(s)	396, 452, 494
Eco47I	GGWCC	3 cut(s)	446, 488, 511
Eco57I	CTGAAG	3 cut(s)	64, 522, 722
Eco88I	CYCGRG	2 cut(s)	420, 516
EcoNI	CCTNNNNNAGG	1 cut(s)	12
EcoO109I	RGGNCCY	4 cut(s)	113, 446, 488, 511
EcoT14I	CCWWGG	3 cut(s)	396, 452, 494
EcoT22I	ATGCAT	1 cut(s)	157
ErhI	CCWWGG	3 cut(s)	396, 452, 494
FaeI	CATG	7 cut(s)	155, 159, 191, 587, 638, 658, 678
FaqI	GGGAC	3 cut(s)	414, 459, 501
FatI	CATG	7 cut(s)	151, 155, 187, 583, 634, 654, 674
Fnu4HI	GCNGC	4 cut(s)	19, 64, 67, 70
FokI	GGATG	3 cut(s)	615, 681, 730
Fsp4HI	GCNGC	4 cut(s)	19, 64, 67, 70
GluI	GCNGC	4 cut(s)	19, 64, 67, 70
GsaI	CCCAGC	1 cut(s)	359
HaeIII	GGCC	4 cut(s)	63, 90, 114, 267
Hin1II	CATG	7 cut(s)	155, 159, 191, 587, 638, 658, 678
HindIII	AAGCTT	1 cut(s)	362
HinfI	GANTC	3 cut(s)	235, 278, 613
HphI	GGTGA	3 cut(s)	176, 347, 662
Hpy188I	TCNGA	5 cut(s)	32, 59, 83, 124, 240
Hpy188III	TCNNGA	2 cut(s)	420, 600
Hpy99I	CGWCG	1 cut(s)	110
HpyAV	CCTTC	3 cut(s)	104, 129, 299
HpyCH4III	ACNGT	1 cut(s)	630
HpyCH4IV	ACGT	2 cut(s)	143, 433
HpyCH4V	TGCA	3 cut(s)	155, 226, 377
HpyF10VI	GCNNNNNNNGC	3 cut(s)	69, 111, 542
HpyF3I	CTNAG	1 cut(s)	237
HpySE526I	ACGT	2 cut(s)	143, 433
Hsp92II	CATG	7 cut(s)	155, 159, 191, 587, 638, 658, 678
KspI	CCGCGG	2 cut(s)	43, 67
LmnI	GCTCC	1 cut(s)	576
LweI	GCATC	2 cut(s)	157, 593
MaeII	ACGT	2 cut(s)	143, 433
MaeIII	GTNAC	4 cut(s)	172, 562, 624, 650
MboII	GAAGA	4 cut(s)	205, 359, 377, 715
MluCI	AATT	5 cut(s)	258, 270, 706, 726, 746
MlyI	GAGTC	1 cut(s)	229
Mph1103I	ATGCAT	1 cut(s)	157
MseI	TTAA	2 cut(s)	273, 725
MslI	CAYNNNNRTG	1 cut(s)	156
MspA1I	CMGCKG	2 cut(s)	42, 66
MvnI	CGCG	3 cut(s)	42, 66, 105
MwoI	GCNNNNNNNGC	3 cut(s)	69, 111, 542
NlaIII	CATG	7 cut(s)	155, 159, 191, 587, 638, 658, 678
NlaIV	GGNNCC	4 cut(s)	101, 447, 489, 513
NmuCI	GTSAC	3 cut(s)	172, 624, 650
NsiI	ATGCAT	1 cut(s)	157
NspI	RCATGY	2 cut(s)	159, 658
PaeR7I	CTCGAG	1 cut(s)	420
PciI	ACATGT	1 cut(s)	654
PfeI	GAWTC	2 cut(s)	278, 613
PflMI	CCANNNNNTGG	1 cut(s)	458
PkrI	GCNGC	4 cut(s)	20, 65, 68, 71
PleI	GAGTC	1 cut(s)	229
PpsI	GAGTC	1 cut(s)	229
PpuMI	RGGWCCY	3 cut(s)	446, 488, 511
PscI	ACATGT	1 cut(s)	654
PshBI	ATTAAT	1 cut(s)	273
Psp1406I	AACGTT	1 cut(s)	143
Psp5II	RGGWCCY	3 cut(s)	446, 488, 511
PspFI	CCCAGC	1 cut(s)	355
PspN4I	GGNNCC	4 cut(s)	101, 447, 489, 513
PspPI	GGNCC	5 cut(s)	113, 266, 446, 488, 511
PspPPI	RGGWCCY	3 cut(s)	446, 488, 511
PstI	CTGCAG	1 cut(s)	228
RsaI	GTAC	1 cut(s)	713
RsaNI	GTAC	1 cut(s)	712
RseI	CAYNNNNRTG	1 cut(s)	156
SacII	CCGCGG	2 cut(s)	43, 67
SaqAI	TTAA	2 cut(s)	273, 725
SatI	GCNGC	4 cut(s)	19, 64, 67, 70
Sau96I	GGNCC	5 cut(s)	113, 266, 446, 488, 511
SchI	GAGTC	1 cut(s)	229
SfaNI	GCATC	2 cut(s)	157, 593
SfcI	CTRYAG	1 cut(s)	224
Sfr274I	CTCGAG	1 cut(s)	420
Sfr303I	CCGCGG	2 cut(s)	43, 67
SgrBI	CCGCGG	2 cut(s)	43, 67
SinI	GGWCC	3 cut(s)	446, 488, 511
SlaI	CTCGAG	1 cut(s)	420
SmiMI	CAYNNNNRTG	1 cut(s)	156
SmlI	CTYRAG	1 cut(s)	420
SmoI	CTYRAG	1 cut(s)	420
Sse9I	AATT	5 cut(s)	258, 270, 706, 726, 746
StyI	CCWWGG	3 cut(s)	396, 452, 494
TaaI	ACNGT	1 cut(s)	630
TaiI	ACGT	2 cut(s)	146, 436
TaqI	TCGA	2 cut(s)	351, 421
TaqII	GACCGA	1 cut(s)	280
TasI	AATT	5 cut(s)	258, 270, 706, 726, 746
TatI	WGTACW	1 cut(s)	711
TauI	GCSGC	4 cut(s)	21, 66, 69, 72
TfiI	GAWTC	2 cut(s)	278, 613
Tru1I	TTAA	2 cut(s)	273, 725
Tru9I	TTAA	2 cut(s)	273, 725
TseFI	GTSAC	3 cut(s)	172, 624, 650
Tsp45I	GTSAC	3 cut(s)	172, 624, 650
TspDTI	ATGAA	8 cut(s)	140, 270, 291, 312, 572, 623, 663, 734
Van91I	CCANNNNNTGG	1 cut(s)	458
VpaK11BI	GGWCC	3 cut(s)	446, 488, 511
VspI	ATTAAT	1 cut(s)	273
XagI	CCTNNNNNAGG	1 cut(s)	12
XapI	RAATTY	3 cut(s)	258, 706, 746
XceI	RCATGY	2 cut(s)	159, 658
XhoI	CTCGAG	1 cut(s)	420
Zsp2I	ATGCAT	1 cut(s)	157

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