Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0012238

Physical Location & Seq

Genomic Coordinates Forward (+)

20306198 .. 20307609

Gene Structure 1412 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG125100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 660 bp

ATGAAGGTTGAAAGAGAACGAAGATACGCGCTTCTGCTTGCAGCAAAGGATTCCGAGTACGTGAAGAAAGTGTATGGTGGTTACTTCAATGTGTTTGTTGCAGCTTTTGGGGAAGAAGGAGAGAGGTGGGACTTGTTCAGGGTAGTCGATGGCGAGTTTCCGGAAACGAGTGAGCTTCAAGATTATGATGGGTTTGTGGTCAGTGGAAGCCCTTATGATGCTTATGGTAATGACCACTGGATTATTAAACTCTGCTTTCTCTTGCAAACTCTGGATGCCATGGAGAAGAAAGTCCTCGGAATTTGCTTCGGTCATCAGGTGTTGTGCAGAGCACTAGGAGGAAAAGTTGGGAAAGCTTGTACTGGATGGGATATTGGACTGAGGAAAGTGAACATAGTGAACGACCTGAGTCCATTTAGCTTCCTTGATGACTTGGATGAAATCCCAGCTGCCCTTTCCATCATTGAGTGCCACCAGGATGAGGTTTGGGAAGTTCCTTTGGGTGCTCAAGTTATTGCCTTCTCGGACAAAACTGGGGTAGAGATGTTCACCATTGGAGGTCATGTTCTGGGCATTCAAGGCCATCCAGAGTATACTAATGACATCCTTTCCAATCTCATCGATCGCCTTCTCAATAACAACTCCATTGAGGTAAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006508 GO:0006725 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0008238 GO:0008242 GO:0009058 GO:0009403 GO:0009404 GO:0009700 GO:0009987 GO:0010120 GO:0016143 GO:0016787 GO:0018130 GO:0019438 GO:0019538 GO:0019748 GO:0019757 GO:0019760 GO:0034641 GO:0034722 GO:0042430 GO:0042435 GO:0043170 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044272 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0044550 GO:0046217 GO:0046483 GO:0052314 GO:0052315 GO:0052317 GO:0070011 GO:0071704 GO:0140096 GO:1901135 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576 GO:1901657

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GATase

Protein Analysis

219

Amino Acids

24.5

Weight (kDa)

4.64

Isoelectric Point (pI)

41.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GATase	PF00117	32 - 200	2.7e-14	Glutamine amidotransferase class-I

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Image

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Publication-ready

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Orthologous Genes (Group: OG0012238)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G23970 AT4G30550
fragaria_vesca	FvH4_7g12720 FvH4_7g12720
malus_domestica	MD13G1275500.v1.1 MD16G1259000.v1.1
prunus_persica	Prupe.1G101400_v2.0.a1
pyrus_communis	pycom16g22650
rosa_chinensis	RchiOBHm_Chr4g0405351
rosa_laevigata	RLG00000008849
rosa_multiflora	Rmu_sc0000161.1_g000077
rosa_roxburghii	Rroxscaffold_5G00349780
rosa_rugosa	Rorug04G0057600
rosa_samantha	Rh4AG131100 Rh4BG125700 Rh4CG137800 Rh4CG138000 Rh4DG125100
rosa_wichuraiana	Rw4G010620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	593
AccII	CGCG	1 cut(s)	29
AccIII	TCCGGA	1 cut(s)	160
AcsI	RAATTY	1 cut(s)	300
AfaI	GTAC	2 cut(s)	59, 361
AfiI	CCNNNNNNNGG	1 cut(s)	481
AgsI	TTSAA	4 cut(s)	11, 88, 179, 578
AjnI	CCWGG	1 cut(s)	474
AloI	GAACNNNNNNTCC	2 cut(s)	549, 581
AluBI	AGCT	5 cut(s)	104, 175, 356, 420, 449
AluI	AGCT	5 cut(s)	104, 175, 356, 420, 449
Alw21I	GWGCWC	2 cut(s)	334, 508
Aor13HI	TCCGGA	1 cut(s)	160
AoxI	GGCC	1 cut(s)	580
ApeKI	GCWGC	3 cut(s)	41, 101, 449
ApoI	RAATTY	1 cut(s)	300
AspLEI	GCGC	1 cut(s)	31
AsuHPI	GGTGA	1 cut(s)	541
Bbv12I	GWGCWC	2 cut(s)	334, 508
BbvI	GCAGC	3 cut(s)	53, 113, 436
BccI	CCATC	5 cut(s)	143, 182, 360, 467, 591
BciT130I	CCWGG	1 cut(s)	476
BfaI	CTAG	1 cut(s)	335
BisI	GCNGC	3 cut(s)	42, 102, 450
BlsI	GCNGC	3 cut(s)	43, 103, 451
Bme1390I	CCNGG	1 cut(s)	476
BmrFI	CCNGG	1 cut(s)	476
BmrI	ACTGGG	1 cut(s)	543
BmsI	GCATC	2 cut(s)	208, 265
BmuI	ACTGGG	1 cut(s)	543
BoxI	GACNNNNGTC	1 cut(s)	408
BpuEI	CTTGAG	1 cut(s)	492
Bsa29I	ATCGAT	1 cut(s)	621
BsaAI	YACGTR	1 cut(s)	61
BsaJI	CCNNGG	2 cut(s)	279, 295
BsaWI	WCCGGW	1 cut(s)	160
BsaXI	ACNNNNNCTCC	4 cut(s)	330, 360, 549, 579
Bsc4I	CCNNNNNNNGG	1 cut(s)	481
Bse1I	ACTGG	3 cut(s)	242, 367, 538
BseAI	TCCGGA	1 cut(s)	160
BseBI	CCWGG	1 cut(s)	476
BseCI	ATCGAT	1 cut(s)	621
BseDI	CCNNGG	2 cut(s)	279, 295
BseGI	GGATG	6 cut(s)	280, 371, 442, 484, 583, 603
BseLI	CCNNNNNNNGG	1 cut(s)	481
BseMII	CTCAG	2 cut(s)	371, 398
BseNI	ACTGG	3 cut(s)	242, 367, 538
BseXI	GCAGC	3 cut(s)	53, 113, 436
BseYI	CCCAGC	1 cut(s)	445
BsgI	GTGCAG	1 cut(s)	346
Bsh1236I	CGCG	1 cut(s)	29
Bsh1285I	CGRYCG	1 cut(s)	625
BshFI	GGCC	1 cut(s)	582
BshVI	ATCGAT	1 cut(s)	621
BsiEI	CGRYCG	1 cut(s)	625
BsiHKAI	GWGCWC	2 cut(s)	334, 508
BsiSI	CCGG	1 cut(s)	161
BslFI	GGGAC	1 cut(s)	143
BslI	CCNNNNNNNGG	1 cut(s)	481
BsmFI	GGGAC	1 cut(s)	143
BsmI	GAATGC	1 cut(s)	573
BsnI	GGCC	1 cut(s)	582
Bsp1286I	GDGCHC	2 cut(s)	334, 508
Bsp13I	TCCGGA	1 cut(s)	160
Bsp143I	GATC	1 cut(s)	622
Bsp19I	CCATGG	1 cut(s)	279
BspANI	GGCC	1 cut(s)	582
BspCNI	CTCAG	2 cut(s)	372, 399
BspDI	ATCGAT	1 cut(s)	621
BspEI	TCCGGA	1 cut(s)	160
BspFNI	CGCG	1 cut(s)	29
BsrI	ACTGG	3 cut(s)	242, 367, 538
BssECI	CCNNGG	2 cut(s)	279, 295
BssMI	GATC	1 cut(s)	622
BssNAI	GTATAC	1 cut(s)	594
BssT1I	CCWWGG	1 cut(s)	279
Bst1107I	GTATAC	1 cut(s)	594
Bst2UI	CCWGG	1 cut(s)	476
BstBAI	YACGTR	1 cut(s)	61
BstC8I	GCNNGC	1 cut(s)	39
BstDEI	CTNAG	2 cut(s)	380, 407
BstDSI	CCRYGG	1 cut(s)	279
BstF5I	GGATG	6 cut(s)	280, 371, 442, 484, 583, 603
BstFNI	CGCG	1 cut(s)	29
BstHHI	GCGC	1 cut(s)	31
BstKTI	GATC	1 cut(s)	625
BstMBI	GATC	1 cut(s)	622
BstMCI	CGRYCG	1 cut(s)	625
BstMWI	GCNNNNNNNGC	1 cut(s)	579
BstNI	CCWGG	1 cut(s)	476
BstPAI	GACNNNNGTC	1 cut(s)	408
BstSCI	CCNGG	1 cut(s)	474
BstUI	CGCG	1 cut(s)	29
BstV1I	GCAGC	3 cut(s)	53, 113, 436
BstZ17I	GTATAC	1 cut(s)	594
Bsu15I	ATCGAT	1 cut(s)	621
BsuRI	GGCC	1 cut(s)	582
BsuTUI	ATCGAT	1 cut(s)	621
BtgI	CCRYGG	1 cut(s)	279
BtsCI	GGATG	6 cut(s)	280, 371, 442, 484, 583, 603
BtsIMutI	CAGTG	2 cut(s)	208, 235
Cac8I	GCNNGC	1 cut(s)	39
CfoI	GCGC	1 cut(s)	31
ClaI	ATCGAT	1 cut(s)	621
Csp6I	GTAC	2 cut(s)	58, 360
CviAII	CATG	2 cut(s)	280, 563
CviJI	RGCY	7 cut(s)	104, 175, 210, 356, 420, 449, 582
CviKI_1	RGCY	7 cut(s)	104, 175, 210, 356, 420, 449, 582
CviQI	GTAC	2 cut(s)	58, 360
DdeI	CTNAG	2 cut(s)	380, 407
DpnI	GATC	1 cut(s)	624
DpnII	GATC	1 cut(s)	622
Eco130I	CCWWGG	1 cut(s)	279
EcoRII	CCWGG	1 cut(s)	474
EcoT14I	CCWWGG	1 cut(s)	279
ErhI	CCWWGG	1 cut(s)	279
FaeI	CATG	2 cut(s)	283, 566
FaiI	YATR	8 cut(s)	75, 186, 216, 225, 281, 395, 564, 594
FaqI	GGGAC	1 cut(s)	143
FatI	CATG	2 cut(s)	279, 562
FblI	GTMKAC	1 cut(s)	593
Fnu4HI	GCNGC	3 cut(s)	42, 102, 450
FokI	GGATG	6 cut(s)	287, 378, 449, 491, 570, 590
Fsp4HI	GCNGC	3 cut(s)	42, 102, 450
FspBI	CTAG	1 cut(s)	335
GlaI	GCGC	1 cut(s)	30
GluI	GCNGC	3 cut(s)	42, 102, 450
GsaI	CCCAGC	1 cut(s)	449
HaeIII	GGCC	1 cut(s)	582
HapII	CCGG	1 cut(s)	161
HhaI	GCGC	1 cut(s)	31
Hin1II	CATG	2 cut(s)	283, 566
Hin6I	GCGC	1 cut(s)	29
HinP1I	GCGC	1 cut(s)	29
HindIII	AAGCTT	1 cut(s)	354
HinfI	GANTC	2 cut(s)	50, 409
HpaII	CCGG	1 cut(s)	161
HphI	GGTGA	1 cut(s)	541
Hpy166II	GTNNAC	4 cut(s)	391, 400, 549, 594
Hpy188I	TCNGA	3 cut(s)	55, 299, 526
Hpy188III	TCNNGA	4 cut(s)	161, 179, 272, 587
Hpy8I	GTNNAC	4 cut(s)	391, 400, 549, 594
HpyAV	CCTTC	3 cut(s)	110, 529, 638
HpyCH4IV	ACGT	1 cut(s)	60
HpyCH4V	TGCA	4 cut(s)	41, 101, 265, 327
HpyF10VI	GCNNNNNNNGC	1 cut(s)	579
HpyF3I	CTNAG	2 cut(s)	380, 407
HpySE526I	ACGT	1 cut(s)	60
Hsp92II	CATG	2 cut(s)	283, 566
HspAI	GCGC	1 cut(s)	29
Kpn2I	TCCGGA	1 cut(s)	160
Kzo9I	GATC	1 cut(s)	622
Lsp1109I	GCAGC	3 cut(s)	53, 113, 436
LweI	GCATC	2 cut(s)	208, 265
MaeI	CTAG	1 cut(s)	335
MaeII	ACGT	1 cut(s)	60
MaeIII	GTNAC	1 cut(s)	80
MalI	GATC	1 cut(s)	624
MboI	GATC	1 cut(s)	622
MboII	GAAGA	4 cut(s)	33, 76, 125, 298
MhlI	GDGCHC	2 cut(s)	334, 508
MluCI	AATT	2 cut(s)	300, 655
MlyI	GAGTC	1 cut(s)	418
MnlI	CCTC	7 cut(s)	117, 305, 332, 375, 475, 551, 643
MroI	TCCGGA	1 cut(s)	160
MseI	TTAA	1 cut(s)	246
MslI	CAYNNNNRTG	1 cut(s)	477
MspA1I	CMGCKG	1 cut(s)	449
MspI	CCGG	1 cut(s)	161
MspR9I	CCNGG	1 cut(s)	476
Mva1269I	GAATGC	1 cut(s)	573
MvaI	CCWGG	1 cut(s)	476
MvnI	CGCG	1 cut(s)	29
MwoI	GCNNNNNNNGC	1 cut(s)	579
NcoI	CCATGG	1 cut(s)	279
NdeII	GATC	1 cut(s)	622
NlaIII	CATG	2 cut(s)	283, 566
PctI	GAATGC	1 cut(s)	573
PfeI	GAWTC	1 cut(s)	50
PkrI	GCNGC	3 cut(s)	43, 103, 451
Ple19I	CGATCG	1 cut(s)	625
PleI	GAGTC	1 cut(s)	417
PpsI	GAGTC	1 cut(s)	417
Ppu21I	YACGTR	1 cut(s)	61
PshAI	GACNNNNGTC	1 cut(s)	408
Psp6I	CCWGG	1 cut(s)	474
PspFI	CCCAGC	1 cut(s)	445
PspGI	CCWGG	1 cut(s)	474
PvuI	CGATCG	1 cut(s)	625
PvuII	CAGCTG	1 cut(s)	449
RsaI	GTAC	2 cut(s)	59, 361
RsaNI	GTAC	2 cut(s)	58, 360
RseI	CAYNNNNRTG	1 cut(s)	477
SaqAI	TTAA	1 cut(s)	246
SatI	GCNGC	3 cut(s)	42, 102, 450
Sau3AI	GATC	1 cut(s)	622
SchI	GAGTC	1 cut(s)	418
ScrFI	CCNGG	1 cut(s)	476
SduI	GDGCHC	2 cut(s)	334, 508
SfaNI	GCATC	2 cut(s)	208, 265
SmiMI	CAYNNNNRTG	1 cut(s)	477
SmlI	CTYRAG	1 cut(s)	507
SmoI	CTYRAG	1 cut(s)	507
Sse9I	AATT	2 cut(s)	300, 655
SspMI	CTAG	1 cut(s)	335
StyD4I	CCNGG	1 cut(s)	474
StyI	CCWWGG	1 cut(s)	279
TaiI	ACGT	1 cut(s)	63
TaqI	TCGA	2 cut(s)	147, 621
TaqII	GACCGA	1 cut(s)	299
TasI	AATT	2 cut(s)	300, 655
TatI	WGTACW	1 cut(s)	359
TfiI	GAWTC	1 cut(s)	50
Tru1I	TTAA	1 cut(s)	246
Tru9I	TTAA	1 cut(s)	246
TscAI	CASTG	2 cut(s)	208, 242
TseI	GCWGC	3 cut(s)	41, 101, 449
TspDTI	ATGAA	2 cut(s)	17, 453
TspRI	CASTG	2 cut(s)	208, 242
XapI	RAATTY	1 cut(s)	300
XmiI	GTMKAC	1 cut(s)	593
XspI	CTAG	1 cut(s)	335

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