Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001381

Physical Location & Seq

Genomic Coordinates Forward (+)

69669477 .. 69679859

Gene Structure 10383 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG390400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGCTGCCGCAGTGACATCTCAGGCCTATCTGAAACAACCAAAGCTGCTCCCTTTCTCACCCAAAACCCCTCAAAACCCTCGCCCCACTTTAATCTATGTGCCCTCTTTCACTAACTCAAAACTGAAATCTGGTCTCAAATTGGGAAATGGGTTCGTTGCAAAAGCTTCAATGGTTGTCAATGAGACCAATTCGAAGTCTTTAGTTTCTGAAAAGAGGGCCAACAGCCCCATCATTGTTATTGACAATTATGATAGCTTCACCTACAATCTCTGCCAGTATATGGGAGAGCTCGGATGTCACTTTGAAGTTTATCGCAATGATGAATTAACAGTGGATGAACTAAAAAGGAAAAATCCCAGAGGAGTCTTGATCTCCCCAGGGCCAGGGGCACCCCAAGATTCTGGAATATCATTGCAAACTGTGTTGGAGTTAGGACCCATTGTCCCCTTATTTGGTGTGTGTATGGGTCTGCAGTGCATTGGGGAGGCTTTTGGAGGCAAGTCTTCTAAGACAGAATATTTGGTTTATAAATTTGATCATGTTATTACCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000162 GO:0003674 GO:0003824 GO:0004049 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005950 GO:0006082 GO:0006520 GO:0006568 GO:0006576 GO:0006586 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009072 GO:0009073 GO:0009308 GO:0009309 GO:0009889 GO:0009987 GO:0010600 GO:0010817 GO:0016053 GO:0016829 GO:0016830 GO:0016833 GO:0018130 GO:0019222 GO:0019438 GO:0019752 GO:0031323 GO:0031326 GO:0032350 GO:0032991 GO:0034641 GO:0042401 GO:0042430 GO:0042435 GO:0043436 GO:0044106 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046219 GO:0046394 GO:0046483 GO:0046885 GO:0050789 GO:0050794 GO:0065007 GO:0065008 GO:0071704 GO:0090354 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607 GO:1902494

KEGG Pathways

Metabolic & Signaling

ko00400 ko00405 ko01100 ko01110 ko01130 ko01230 ko02024 ko02025 map00400 map00405 map01100 map01110 map01130 map01230 map02024 map02025

Pfam Domains

Protein Families

GATase

Protein Analysis

184

Amino Acids

20.09

Weight (kDa)

8.83

Isoelectric Point (pI)

37.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GATase	PF00117	80 - 172	9.1e-26	Glutamine amidotransferase class-I

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: OG0001381)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G24807 AT1G24909 AT1G25083 AT1G25155 AT1G25220 AT1G25220 AT5G57890
fragaria_vesca	FvH4_4g33060
malus_domestica	MD13G1016400.v1.1 MD16G1013900.v1.1
prunus_persica	Prupe.1G337100_v2.0.a1
pyrus_communis	pycom13g01410 pycom16g01310
rosa_chinensis	RchiOBHm_Chr3g0486701 RchiOBHm_Chr3g0486721 RchiOBHm_Chr4g0388381 RchiOBHm_Chr4g0388411 RchiOBHm_Chr4g0388431 RchiOBHm_Chr4g0442101 RchiOBHm_Chr4g0442111
rosa_laevigata	RLG00000010056
rosa_multiflora	Rmu_sc0000753.1_g000008 Rmu_sc0001949.1_g000032 Rmu_sc0001949.1_g000033 Rmu_sc0002501.1_g000003 Rmu_sc0015680.1_g000001 Rmu_sc0018709.1_g000002 Rmu_sc0018709.1_g000003
rosa_roxburghii	Rroxscaffold_4G00314730 Rroxscaffold_4G00314740 Rroxscaffold_4G00314750 Rroxscaffold_4G00314770 Rroxscaffold_4G00314790 Rroxscaffold_4G00314820 Rroxscaffold_5G00334930 Rroxscaffold_5G00383020
rosa_rugosa	Rorug04G0338900 Rorug04G0338900 Rorug04G0339000
rosa_samantha	Rh3AG276100 Rh3AG276300 Rh4AG022400 Rh4AG390400 Rh4BG016000 Rh4BG016100 Rh4BG016300 Rh4BG404000 Rh4CG023200 Rh4CG023400 Rh4CG419000 Rh4DG397000
rosa_wichuraiana	Rw4G001550 Rw4G033740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	531
AccB1I	GGYRCC	1 cut(s)	391
AccB7I	CCANNNNNTGG	1 cut(s)	283
AciI	CCGC	1 cut(s)	9
AcsI	RAATTY	1 cut(s)	533
AfiI	CCNNNNNNNGG	3 cut(s)	283, 386, 455
AgsI	TTSAA	2 cut(s)	171, 308
AhdI	GACNNNNNGTC	1 cut(s)	443
AjnI	CCWGG	2 cut(s)	379, 385
AluBI	AGCT	4 cut(s)	46, 167, 258, 292
AluI	AGCT	4 cut(s)	46, 167, 258, 292
Alw21I	GWGCWC	1 cut(s)	294
Alw26I	GTCTC	2 cut(s)	140, 179
AoxI	GGCC	3 cut(s)	24, 219, 383
ApeKI	GCWGC	2 cut(s)	5, 46
ApoI	RAATTY	1 cut(s)	533
ArsI	GACNNNNNNTTYG	2 cut(s)	505, 537
AspS9I	GGNCC	3 cut(s)	219, 383, 437
AsuHPI	GGTGA	2 cut(s)	51, 253
AsuII	TTCGAA	1 cut(s)	194
AvaII	GGWCC	1 cut(s)	437
BaeGI	GKGCMC	2 cut(s)	105, 394
BanI	GGYRCC	1 cut(s)	391
BanII	GRGCYC	1 cut(s)	294
BbsI	GAAGAC	1 cut(s)	498
Bbv12I	GWGCWC	1 cut(s)	294
BbvI	GCAGC	1 cut(s)	33
BccI	CCATC	1 cut(s)	239
BciT130I	CCWGG	2 cut(s)	381, 387
BclI	TGATCA	1 cut(s)	538
BcoDI	GTCTC	2 cut(s)	140, 179
BfaI	CTAG	1 cut(s)	553
BfmI	CTRYAG	1 cut(s)	473
BisI	GCNGC	3 cut(s)	6, 9, 47
BlsI	GCNGC	3 cut(s)	7, 10, 48
Bme1390I	CCNGG	2 cut(s)	381, 387
Bme18I	GGWCC	1 cut(s)	437
BmeRI	GACNNNNNGTC	1 cut(s)	443
BmgT120I	GGNCC	3 cut(s)	219, 383, 437
BmiI	GGNNCC	2 cut(s)	393, 439
BmrFI	CCNGG	2 cut(s)	381, 387
BpiI	GAAGAC	1 cut(s)	498
Bpu14I	TTCGAA	1 cut(s)	194
BsaI	GGTCTC	2 cut(s)	140, 179
BsaJI	CCNNGG	3 cut(s)	379, 380, 386
Bsc4I	CCNNNNNNNGG	3 cut(s)	283, 386, 455
Bse1I	ACTGG	1 cut(s)	277
Bse3DI	GCAATG	2 cut(s)	325, 413
BseBI	CCWGG	2 cut(s)	381, 387
BseDI	CCNNGG	3 cut(s)	379, 380, 386
BseGI	GGATG	2 cut(s)	302, 343
BseLI	CCNNNNNNNGG	3 cut(s)	283, 386, 455
BseMI	GCAATG	2 cut(s)	325, 413
BseMII	CTCAG	1 cut(s)	35
BseNI	ACTGG	1 cut(s)	277
BseRI	GAGGAG	1 cut(s)	378
BseSI	GKGCMC	2 cut(s)	105, 394
BseXI	GCAGC	1 cut(s)	33
BshFI	GGCC	3 cut(s)	26, 221, 385
BshNI	GGYRCC	1 cut(s)	391
BsiHKAI	GWGCWC	1 cut(s)	294
BslFI	GGGAC	1 cut(s)	431
BslI	CCNNNNNNNGG	3 cut(s)	283, 386, 455
BsmAI	GTCTC	2 cut(s)	140, 179
BsmFI	GGGAC	1 cut(s)	431
BsnI	GGCC	3 cut(s)	26, 221, 385
Bso31I	GGTCTC	2 cut(s)	140, 179
Bsp119I	TTCGAA	1 cut(s)	194
Bsp1286I	GDGCHC	3 cut(s)	105, 294, 394
Bsp143I	GATC	2 cut(s)	372, 538
BspACI	CCGC	1 cut(s)	9
BspANI	GGCC	3 cut(s)	26, 221, 385
BspCNI	CTCAG	1 cut(s)	34
BspLI	GGNNCC	2 cut(s)	393, 439
BspMAI	CTGCAG	1 cut(s)	477
BspT104I	TTCGAA	1 cut(s)	194
BspT107I	GGYRCC	1 cut(s)	391
BspTNI	GGTCTC	2 cut(s)	140, 179
BsrDI	GCAATG	2 cut(s)	325, 413
BsrI	ACTGG	1 cut(s)	277
BssECI	CCNNGG	3 cut(s)	379, 380, 386
BssMI	GATC	2 cut(s)	372, 538
Bst2UI	CCWGG	2 cut(s)	381, 387
Bst4CI	ACNGT	2 cut(s)	334, 424
BstBI	TTCGAA	1 cut(s)	194
BstDEI	CTNAG	2 cut(s)	21, 510
BstF5I	GGATG	2 cut(s)	302, 343
BstKTI	GATC	2 cut(s)	375, 541
BstMAI	GTCTC	2 cut(s)	140, 179
BstMBI	GATC	2 cut(s)	372, 538
BstNI	CCWGG	2 cut(s)	381, 387
BstSCI	CCNGG	2 cut(s)	379, 385
BstSFI	CTRYAG	1 cut(s)	473
BstSLI	GKGCMC	2 cut(s)	105, 394
BstV1I	GCAGC	1 cut(s)	33
BstV2I	GAAGAC	1 cut(s)	498
BstXI	CCANNNNNNTGG	1 cut(s)	404
BsuRI	GGCC	3 cut(s)	26, 221, 385
BtsCI	GGATG	2 cut(s)	302, 343
BtsI	GCAGTG	2 cut(s)	18, 482
BtsIMutI	CAGTG	3 cut(s)	18, 339, 482
Cfr13I	GGNCC	3 cut(s)	219, 383, 437
CviAII	CATG	1 cut(s)	542
DdeI	CTNAG	2 cut(s)	21, 510
DpnI	GATC	2 cut(s)	374, 540
DpnII	GATC	2 cut(s)	372, 538
DriI	GACNNNNNGTC	1 cut(s)	443
Eam1105I	GACNNNNNGTC	1 cut(s)	443
Ecl136II	GAGCTC	1 cut(s)	292
Eco147I	AGGCCT	1 cut(s)	26
Eco24I	GRGCYC	1 cut(s)	294
Eco31I	GGTCTC	2 cut(s)	140, 179
Eco47I	GGWCC	1 cut(s)	437
Eco53kI	GAGCTC	1 cut(s)	292
EcoICRI	GAGCTC	1 cut(s)	292
EcoO109I	RGGNCCY	1 cut(s)	437
EcoRII	CCWGG	2 cut(s)	379, 385
EcoT38I	GRGCYC	1 cut(s)	294
FaeI	CATG	1 cut(s)	545
FaiI	YATR	7 cut(s)	99, 252, 282, 284, 467, 531, 543
FaqI	GGGAC	1 cut(s)	431
FatI	CATG	1 cut(s)	541
FbaI	TGATCA	1 cut(s)	538
Fnu4HI	GCNGC	3 cut(s)	6, 9, 47
FokI	GGATG	2 cut(s)	309, 350
FriOI	GRGCYC	1 cut(s)	294
Fsp4HI	GCNGC	3 cut(s)	6, 9, 47
FspBI	CTAG	1 cut(s)	553
GluI	GCNGC	3 cut(s)	6, 9, 47
HaeIII	GGCC	3 cut(s)	26, 221, 385
Hin1II	CATG	1 cut(s)	545
HindIII	AAGCTT	1 cut(s)	165
HinfI	GANTC	2 cut(s)	366, 401
HphI	GGTGA	2 cut(s)	51, 253
Hpy188I	TCNGA	3 cut(s)	33, 211, 296
Hpy188III	TCNNGA	2 cut(s)	370, 405
HpyCH4III	ACNGT	2 cut(s)	334, 424
HpyCH4V	TGCA	4 cut(s)	161, 418, 475, 480
HpyF3I	CTNAG	2 cut(s)	21, 510
Hsp92II	CATG	1 cut(s)	545
Ksp22I	TGATCA	1 cut(s)	538
Kzo9I	GATC	2 cut(s)	372, 538
LmnI	GCTCC	1 cut(s)	54
LpnPI	CCDG	9 cut(s)	8, 117, 290, 366, 372, 373, 390, 393, 399
Lsp1109I	GCAGC	1 cut(s)	33
MaeI	CTAG	1 cut(s)	553
MaeIII	GTNAC	2 cut(s)	13, 299
MalI	GATC	2 cut(s)	374, 540
MboI	GATC	2 cut(s)	372, 538
MboII	GAAGA	1 cut(s)	498
MhlI	GDGCHC	3 cut(s)	105, 294, 394
MluCI	AATT	5 cut(s)	140, 190, 247, 326, 533
MlyI	GAGTC	1 cut(s)	375
MmeI	TCCRAC	1 cut(s)	408
MnlI	CCTC	7 cut(s)	81, 90, 115, 210, 356, 481, 491
MseI	TTAA	2 cut(s)	92, 329
MspR9I	CCNGG	2 cut(s)	381, 387
MvaI	CCWGG	2 cut(s)	381, 387
NdeII	GATC	2 cut(s)	372, 538
NlaIII	CATG	1 cut(s)	545
NlaIV	GGNNCC	2 cut(s)	393, 439
NmuCI	GTSAC	2 cut(s)	13, 299
NspV	TTCGAA	1 cut(s)	194
PasI	CCCWGGG	1 cut(s)	380
PceI	AGGCCT	1 cut(s)	26
PfeI	GAWTC	1 cut(s)	401
PflMI	CCANNNNNTGG	1 cut(s)	283
PkrI	GCNGC	3 cut(s)	7, 10, 48
PleI	GAGTC	1 cut(s)	374
PpsI	GAGTC	1 cut(s)	374
PpuMI	RGGWCCY	1 cut(s)	437
PsiI	TTATAA	1 cut(s)	531
Psp124BI	GAGCTC	1 cut(s)	294
Psp5II	RGGWCCY	1 cut(s)	437
Psp6I	CCWGG	2 cut(s)	379, 385
PspGI	CCWGG	2 cut(s)	379, 385
PspN4I	GGNNCC	2 cut(s)	393, 439
PspPI	GGNCC	3 cut(s)	219, 383, 437
PspPPI	RGGWCCY	1 cut(s)	437
PstI	CTGCAG	1 cut(s)	477
SacI	GAGCTC	1 cut(s)	294
SaqAI	TTAA	2 cut(s)	92, 329
SatI	GCNGC	3 cut(s)	6, 9, 47
Sau3AI	GATC	2 cut(s)	372, 538
Sau96I	GGNCC	3 cut(s)	219, 383, 437
SchI	GAGTC	1 cut(s)	375
ScrFI	CCNGG	2 cut(s)	381, 387
SduI	GDGCHC	3 cut(s)	105, 294, 394
SetI	ASST	6 cut(s)	48, 169, 260, 266, 294, 554
SfcI	CTRYAG	1 cut(s)	473
SfuI	TTCGAA	1 cut(s)	194
SinI	GGWCC	1 cut(s)	437
Sse9I	AATT	5 cut(s)	140, 190, 247, 326, 533
SseBI	AGGCCT	1 cut(s)	26
SsiI	CCGC	1 cut(s)	9
SspI	AATATT	1 cut(s)	521
SspMI	CTAG	1 cut(s)	553
SstI	GAGCTC	1 cut(s)	294
StuI	AGGCCT	1 cut(s)	26
StyD4I	CCNGG	2 cut(s)	379, 385
TaaI	ACNGT	2 cut(s)	334, 424
TaqI	TCGA	1 cut(s)	194
TasI	AATT	5 cut(s)	140, 190, 247, 326, 533
TauI	GCSGC	1 cut(s)	11
TfiI	GAWTC	1 cut(s)	401
Tru1I	TTAA	2 cut(s)	92, 329
Tru9I	TTAA	2 cut(s)	92, 329
TscAI	CASTG	3 cut(s)	18, 339, 482
TseFI	GTSAC	2 cut(s)	13, 299
TseI	GCWGC	2 cut(s)	5, 46
Tsp45I	GTSAC	2 cut(s)	13, 299
TspDTI	ATGAA	2 cut(s)	339, 354
TspRI	CASTG	3 cut(s)	18, 339, 482
Van91I	CCANNNNNTGG	1 cut(s)	283
VpaK11BI	GGWCC	1 cut(s)	437
XapI	RAATTY	1 cut(s)	533
XspI	CTAG	1 cut(s)	553

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