Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0012386

Physical Location & Seq

Genomic Coordinates Forward (+)

35532328 .. 35534915

Gene Structure 2588 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG324700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGCGACCTCCCAGAGGCGGCGGTAGTTTCAGAGGCAACCGCGGTGGCGGAGGTTTCAGAGGCCGCGGCGGCGGAGACTTCAGAGGTGGCCGTGGTGGCTTCCGCGACGAAGGCCCTCCTTCGGAAGTGGTAGAGGTTTCAACGTTTGTTCATGCATGTGAGGGTGATGCTGTCACAAAGCTCACACATGAGAAGATACCCTATTTCAATGCCCCAATCTATCTGCAGAACAAGACTCAGATAGGCAAAGTCGATGAAATTTTTGGCCCAATTAATGAATCTTACTTCTCGGTCAAAGTGATGGAAGGCATTGTGGCAACTTCATATTCACAGGGTGATAAGTTCTATATTGACCCAGCGAAGCTTCTTCCTCTTGCAAGATTTCTTCCACAGCCCAAGTATGCTTCACTTTCTTGTTCATTTGTGTTCCTACTGTAA

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

145

Amino Acids

15.78

Weight (kDa)

9.17

Isoelectric Point (pI)

36.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Gar1	PF04410	43 - 129	4e-28	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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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)
AccII	CGCG	3 cut(s)	42, 66, 105
AclI	AACGTT	1 cut(s)	143
AcoI	YGGCCR	1 cut(s)	88
AcsI	RAATTY	1 cut(s)	258
AcuI	CTGAAG	1 cut(s)	64
AdeI	CACNNNGTG	1 cut(s)	335
AfiI	CCNNNNNNNGG	3 cut(s)	14, 17, 121
AgsI	TTSAA	2 cut(s)	141, 208
AluBI	AGCT	2 cut(s)	181, 364
AluI	AGCT	2 cut(s)	181, 364
Alw26I	GTCTC	1 cut(s)	69
AoxI	GGCC	4 cut(s)	61, 88, 112, 265
ApoI	RAATTY	1 cut(s)	258
AseI	ATTAAT	1 cut(s)	273
AspS9I	GGNCC	2 cut(s)	113, 266
AsuHPI	GGTGA	2 cut(s)	176, 347
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	2 cut(s)	69, 96
BisI	GCNGC	4 cut(s)	19, 64, 67, 70
BlsI	GCNGC	4 cut(s)	20, 65, 68, 71
BmgT120I	GGNCC	2 cut(s)	113, 266
BmsI	GCATC	1 cut(s)	157
BsaJI	CCNNGG	3 cut(s)	40, 64, 91
Bsc4I	CCNNNNNNNGG	3 cut(s)	14, 17, 121
BseDI	CCNNGG	3 cut(s)	40, 64, 91
BseLI	CCNNNNNNNGG	3 cut(s)	14, 17, 121
BseMII	CTCAG	1 cut(s)	251
BseYI	CCCAGC	1 cut(s)	355
Bsh1236I	CGCG	3 cut(s)	42, 66, 105
BshFI	GGCC	4 cut(s)	63, 90, 114, 267
BslI	CCNNNNNNNGG	3 cut(s)	14, 17, 121
BsmAI	GTCTC	1 cut(s)	69
BsnI	GGCC	4 cut(s)	63, 90, 114, 267
BspANI	GGCC	4 cut(s)	63, 90, 114, 267
BspCNI	CTCAG	1 cut(s)	250
BspFNI	CGCG	3 cut(s)	42, 66, 105
BspMAI	CTGCAG	1 cut(s)	228
BssECI	CCNNGG	3 cut(s)	40, 64, 91
Bst4CI	ACNGT	1 cut(s)	435
BstDEI	CTNAG	1 cut(s)	237
BstDSI	CCRYGG	3 cut(s)	40, 64, 91
BstENI	CCTNNNNNAGG	1 cut(s)	12
BstFNI	CGCG	3 cut(s)	42, 66, 105
BstMAI	GTCTC	1 cut(s)	69
BstMWI	GCNNNNNNNGC	3 cut(s)	69, 96, 111
BstNSI	RCATGY	1 cut(s)	159
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
Cfr13I	GGNCC	2 cut(s)	113, 266
Cfr42I	CCGCGG	2 cut(s)	43, 67
CspCI	CAANNNNNGTGG	2 cut(s)	25, 60
CviAII	CATG	3 cut(s)	152, 156, 188
CviJI	RGCY	8 cut(s)	63, 90, 99, 114, 181, 267, 364, 394
CviKI_1	RGCY	8 cut(s)	63, 90, 99, 114, 181, 267, 364, 394
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
Eco57I	CTGAAG	1 cut(s)	64
EcoNI	CCTNNNNNAGG	1 cut(s)	12
EcoO109I	RGGNCCY	1 cut(s)	113
EcoT22I	ATGCAT	1 cut(s)	157
FaeI	CATG	3 cut(s)	155, 159, 191
FaiI	YATR	6 cut(s)	153, 157, 189, 325, 348, 402
FatI	CATG	3 cut(s)	151, 155, 187
Fnu4HI	GCNGC	4 cut(s)	19, 64, 67, 70
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	3 cut(s)	155, 159, 191
HindIII	AAGCTT	1 cut(s)	362
HinfI	GANTC	2 cut(s)	235, 278
HphI	GGTGA	2 cut(s)	176, 347
Hpy188I	TCNGA	5 cut(s)	32, 59, 83, 124, 240
Hpy99I	CGWCG	1 cut(s)	110
HpyAV	CCTTC	3 cut(s)	104, 129, 299
HpyCH4III	ACNGT	1 cut(s)	435
HpyCH4IV	ACGT	1 cut(s)	143
HpyCH4V	TGCA	3 cut(s)	155, 226, 377
HpyF10VI	GCNNNNNNNGC	3 cut(s)	69, 96, 111
HpyF3I	CTNAG	1 cut(s)	237
HpySE526I	ACGT	1 cut(s)	143
Hsp92II	CATG	3 cut(s)	155, 159, 191
KspI	CCGCGG	2 cut(s)	43, 67
LpnPI	CCDG	3 cut(s)	25, 317, 369
LweI	GCATC	1 cut(s)	157
MaeII	ACGT	1 cut(s)	143
MaeIII	GTNAC	1 cut(s)	172
MboII	GAAGA	3 cut(s)	205, 359, 377
MluCI	AATT	2 cut(s)	258, 270
MlyI	GAGTC	1 cut(s)	229
Mph1103I	ATGCAT	1 cut(s)	157
MseI	TTAA	1 cut(s)	273
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, 96, 111
NlaIII	CATG	3 cut(s)	155, 159, 191
NmuCI	GTSAC	1 cut(s)	172
NsiI	ATGCAT	1 cut(s)	157
NspI	RCATGY	1 cut(s)	159
PfeI	GAWTC	1 cut(s)	278
PkrI	GCNGC	4 cut(s)	20, 65, 68, 71
PleI	GAGTC	1 cut(s)	229
PpsI	GAGTC	1 cut(s)	229
PshBI	ATTAAT	1 cut(s)	273
Psp1406I	AACGTT	1 cut(s)	143
PspFI	CCCAGC	1 cut(s)	355
PspPI	GGNCC	2 cut(s)	113, 266
PstI	CTGCAG	1 cut(s)	228
RseI	CAYNNNNRTG	1 cut(s)	156
SacII	CCGCGG	2 cut(s)	43, 67
SaqAI	TTAA	1 cut(s)	273
SatI	GCNGC	4 cut(s)	19, 64, 67, 70
Sau96I	GGNCC	2 cut(s)	113, 266
SchI	GAGTC	1 cut(s)	229
SetI	ASST	7 cut(s)	10, 55, 88, 138, 146, 183, 366
SfaNI	GCATC	1 cut(s)	157
SfcI	CTRYAG	1 cut(s)	224
Sfr303I	CCGCGG	2 cut(s)	43, 67
SgrBI	CCGCGG	2 cut(s)	43, 67
SmiMI	CAYNNNNRTG	1 cut(s)	156
Sse9I	AATT	2 cut(s)	258, 270
TaaI	ACNGT	1 cut(s)	435
TaiI	ACGT	1 cut(s)	146
TaqI	TCGA	1 cut(s)	252
TaqII	GACCGA	1 cut(s)	280
TasI	AATT	2 cut(s)	258, 270
TauI	GCSGC	4 cut(s)	21, 66, 69, 72
TfiI	GAWTC	1 cut(s)	278
Tru1I	TTAA	1 cut(s)	273
Tru9I	TTAA	1 cut(s)	273
TseFI	GTSAC	1 cut(s)	172
Tsp45I	GTSAC	1 cut(s)	172
TspDTI	ATGAA	5 cut(s)	140, 270, 291, 312, 408
VspI	ATTAAT	1 cut(s)	273
XagI	CCTNNNNNAGG	1 cut(s)	12
XapI	RAATTY	1 cut(s)	258
XceI	RCATGY	1 cut(s)	159
Zsp2I	ATGCAT	1 cut(s)	157

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