Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0010394

Physical Location & Seq

Genomic Coordinates Forward (+)

15950743 .. 15953256

Gene Structure 2514 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG179000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 600 bp

ATGGAGATGAAGCATCATCAAGCCATGTTCTCCGAGACACCACAAGGATCGGTTCCTTCTTCCATGGAGAGGAACAGTCATCATGTCATGAGTTACGGCTGCAACAGTCAAGAGAAGAAGAAGCGATTGTCAACCGATCAGTTAGAGTCACTGGAGAGGAGTTTCCAAGAGGAGATAAAGCTGGACCCTGATAGGAAGATGAAGCTATCGAGAGATCTCGGCCTTCAGCCTCGGCAAATCGCTGTTTGGTTCCAAAACCGACGAGCTAGGTGGAAGGCCAAGCAGCTCGAACGCTTGTACGATGCGCTCAAACAAGATTATGACGCCGTCTCTAAGGAGAAGCAAAAGCTTCAAGACGAGGTCATGAAACTGAAGACTATTCTGAGAGAAGAAGTTGCTAGGAAGCAGGTTTCTCCGGGCTACACTGAAATCTCCGGCGAAGAGACAGTGGAAAGCACTTCGGTGGCTGCCATTCGAAGCTCGAACAAGGCAGGAGGGGTGAGCCAGCATCAGATTGCAGAGGGCAATTATCTTTTCAATGTTGAGGAGTATAACCCTGTATCACCACCTTACTGGGGTGCCCTGCCTTCTTATCCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0007275 GO:0008150 GO:0009653 GO:0009791 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0009965 GO:0010016 GO:0010022 GO:0010073 GO:0010432 GO:0010433 GO:0010434 GO:0010468 GO:0010556 GO:0010557 GO:0010582 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0040034 GO:0043565 GO:0045893 GO:0045935 GO:0048366 GO:0048367 GO:0048506 GO:0048507 GO:0048509 GO:0048510 GO:0048518 GO:0048522 GO:0048608 GO:0048646 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:1905393 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ Homeobox

Protein Analysis

199

Amino Acids

22.95

Weight (kDa)

8.52

Isoelectric Point (pI)

67.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	39 - 92	3.3e-17	Homeodomain
HALZ	PF02183	94 - 128	8.7e-09	Homeobox associated leucine zipper

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010394)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G03790 AT5G03790
fragaria_vesca	FvH4_6g17450 FvH4_6g17450 FvH4_6g17450
malus_domestica	MD12G1100600.v1.1 MD14G1094700.v1.1
prunus_persica	Prupe.7G121100_v2.0.a1
pyrus_communis	pycom12g09900 pycom14g09290
rosa_chinensis	RchiOBHm_Chr3g0471691
rosa_laevigata	RLG00000024142
rosa_multiflora	Rmu_sc0005631.1_g000017
rosa_roxburghii	Rroxscaffold_6G00409650
rosa_rugosa	Rorug03G0118900
rosa_samantha	Rh3AG170200 Rh3BG195900 Rh3CG186600 Rh3CG195100 Rh3DG179000
rosa_wichuraiana	Rw0G009010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	397
AccB1I	GGYRCC	1 cut(s)	578
AclWI	GGATC	1 cut(s)	55
AcuI	CTGAAG	2 cut(s)	209, 392
AcyI	GRCGYC	1 cut(s)	324
AfaI	GTAC	1 cut(s)	299
AfiI	CCNNNNNNNGG	2 cut(s)	69, 575
AgsI	TTSAA	2 cut(s)	353, 538
AleI	CACNNNNGTG	1 cut(s)	461
AluBI	AGCT	6 cut(s)	181, 205, 266, 286, 349, 480
AluI	AGCT	6 cut(s)	181, 205, 266, 286, 349, 480
Alw26I	GTCTC	3 cut(s)	29, 334, 437
AlwI	GGATC	1 cut(s)	55
AoxI	GGCC	2 cut(s)	220, 276
ApeKI	GCWGC	3 cut(s)	99, 283, 467
AspLEI	GCGC	1 cut(s)	307
AspS9I	GGNCC	1 cut(s)	184
AsuC2I	CCSGG	1 cut(s)	417
AsuHPI	GGTGA	2 cut(s)	511, 555
AsuII	TTCGAA	1 cut(s)	475
AvaII	GGWCC	1 cut(s)	184
BaeGI	GKGCMC	1 cut(s)	583
BanI	GGYRCC	1 cut(s)	578
BbsI	GAAGAC	1 cut(s)	380
BbvI	GCAGC	3 cut(s)	86, 295, 454
BceAI	ACGGC	2 cut(s)	112, 311
BcnI	CCSGG	1 cut(s)	417
BcoDI	GTCTC	3 cut(s)	29, 334, 437
BfaI	CTAG	2 cut(s)	267, 399
BfuAI	ACCTGC	1 cut(s)	397
BglII	AGATCT	1 cut(s)	214
BisI	GCNGC	3 cut(s)	100, 284, 468
BlsI	GCNGC	3 cut(s)	101, 285, 469
Bme1390I	CCNGG	1 cut(s)	417
Bme18I	GGWCC	1 cut(s)	184
BmgT120I	GGNCC	1 cut(s)	184
BmiI	GGNNCC	4 cut(s)	54, 186, 251, 580
BmrFI	CCNGG	1 cut(s)	417
BmrI	ACTGGG	1 cut(s)	583
BmsI	GCATC	3 cut(s)	22, 292, 517
BmuI	ACTGGG	1 cut(s)	583
BpiI	GAAGAC	1 cut(s)	380
BpmI	CTGGAG	1 cut(s)	173
Bpu14I	TTCGAA	1 cut(s)	475
BpuMI	CCSGG	1 cut(s)	417
BsaHI	GRCGYC	1 cut(s)	324
BsaJI	CCNNGG	2 cut(s)	63, 230
Bsc4I	CCNNNNNNNGG	2 cut(s)	69, 575
Bse1I	ACTGG	2 cut(s)	156, 578
BseDI	CCNNGG	2 cut(s)	63, 230
BseLI	CCNNNNNNNGG	2 cut(s)	69, 575
BseMII	CTCAG	1 cut(s)	374
BseNI	ACTGG	2 cut(s)	156, 578
BseRI	GAGGAG	3 cut(s)	172, 185, 560
BseSI	GKGCMC	1 cut(s)	583
BseXI	GCAGC	3 cut(s)	86, 295, 454
BshFI	GGCC	2 cut(s)	222, 278
BshNI	GGYRCC	1 cut(s)	578
BsiSI	CCGG	2 cut(s)	416, 435
BslI	CCNNNNNNNGG	2 cut(s)	69, 575
BsmAI	GTCTC	3 cut(s)	29, 334, 437
BsmBI	CGTCTC	1 cut(s)	334
BsnI	GGCC	2 cut(s)	222, 278
Bsp119I	TTCGAA	1 cut(s)	475
Bsp1286I	GDGCHC	1 cut(s)	583
Bsp143I	GATC	3 cut(s)	47, 136, 214
Bsp19I	CCATGG	1 cut(s)	63
BspANI	GGCC	2 cut(s)	222, 278
BspCNI	CTCAG	1 cut(s)	375
BspHI	TCATGA	2 cut(s)	87, 363
BspLI	GGNNCC	4 cut(s)	54, 186, 251, 580
BspMI	ACCTGC	1 cut(s)	397
BspPI	GGATC	1 cut(s)	55
BspT104I	TTCGAA	1 cut(s)	475
BspT107I	GGYRCC	1 cut(s)	578
BsrI	ACTGG	2 cut(s)	156, 578
BssECI	CCNNGG	2 cut(s)	63, 230
BssMI	GATC	3 cut(s)	47, 136, 214
BssNI	GRCGYC	1 cut(s)	324
BssT1I	CCWWGG	1 cut(s)	63
Bst4CI	ACNGT	3 cut(s)	77, 107, 448
Bst6I	CTCTTC	1 cut(s)	435
BstACI	GRCGYC	1 cut(s)	324
BstBI	TTCGAA	1 cut(s)	475
BstC8I	GCNNGC	1 cut(s)	506
BstDEI	CTNAG	2 cut(s)	333, 383
BstDSI	CCRYGG	1 cut(s)	63
BstHHI	GCGC	1 cut(s)	307
BstKTI	GATC	3 cut(s)	50, 139, 217
BstMAI	GTCTC	3 cut(s)	29, 334, 437
BstMBI	GATC	3 cut(s)	47, 136, 214
BstSCI	CCNGG	1 cut(s)	415
BstSLI	GKGCMC	1 cut(s)	583
BstV1I	GCAGC	3 cut(s)	86, 295, 454
BstV2I	GAAGAC	1 cut(s)	380
BstX2I	RGATCY	1 cut(s)	214
BstXI	CCANNNNNNTGG	1 cut(s)	573
BstYI	RGATCY	1 cut(s)	214
BsuRI	GGCC	2 cut(s)	222, 278
BtgI	CCRYGG	1 cut(s)	63
BtsIMutI	CAGTG	3 cut(s)	149, 423, 453
BveI	ACCTGC	1 cut(s)	397
Cac8I	GCNNGC	1 cut(s)	506
CciI	TCATGA	2 cut(s)	87, 363
CfoI	GCGC	1 cut(s)	307
Cfr13I	GGNCC	1 cut(s)	184
CseI	GACGC	1 cut(s)	332
Csp6I	GTAC	1 cut(s)	298
CviAII	CATG	5 cut(s)	25, 64, 83, 88, 364
CviQI	GTAC	1 cut(s)	298
DdeI	CTNAG	2 cut(s)	333, 383
DpnI	GATC	3 cut(s)	49, 138, 216
DpnII	GATC	3 cut(s)	47, 136, 214
Eam1104I	CTCTTC	1 cut(s)	435
EarI	CTCTTC	1 cut(s)	435
Eco130I	CCWWGG	1 cut(s)	63
Eco47I	GGWCC	1 cut(s)	184
Eco57I	CTGAAG	2 cut(s)	209, 392
EcoT14I	CCWWGG	1 cut(s)	63
ErhI	CCWWGG	1 cut(s)	63
Esp3I	CGTCTC	1 cut(s)	334
FaeI	CATG	5 cut(s)	28, 67, 86, 91, 367
FaiI	YATR	7 cut(s)	26, 65, 84, 89, 321, 365, 552
FatI	CATG	5 cut(s)	24, 63, 82, 87, 363
Fnu4HI	GCNGC	3 cut(s)	100, 284, 468
Fsp4HI	GCNGC	3 cut(s)	100, 284, 468
FspBI	CTAG	2 cut(s)	267, 399
GlaI	GCGC	1 cut(s)	306
GluI	GCNGC	3 cut(s)	100, 284, 468
GsuI	CTGGAG	1 cut(s)	173
HaeIII	GGCC	2 cut(s)	222, 278
HapII	CCGG	2 cut(s)	416, 435
HgaI	GACGC	1 cut(s)	332
HhaI	GCGC	1 cut(s)	307
Hin1I	GRCGYC	1 cut(s)	324
Hin1II	CATG	5 cut(s)	28, 67, 86, 91, 367
Hin6I	GCGC	1 cut(s)	305
HinP1I	GCGC	1 cut(s)	305
HincII	GTYRAC	1 cut(s)	132
HindII	GTYRAC	1 cut(s)	132
HindIII	AAGCTT	1 cut(s)	347
HinfI	GANTC	1 cut(s)	146
HpaII	CCGG	2 cut(s)	416, 435
HphI	GGTGA	2 cut(s)	511, 555
Hpy166II	GTNNAC	1 cut(s)	132
Hpy188I	TCNGA	3 cut(s)	34, 384, 513
Hpy188III	TCNNGA	5 cut(s)	88, 110, 210, 353, 364
Hpy8I	GTNNAC	1 cut(s)	132
Hpy99I	CGWCG	1 cut(s)	264
HpyAV	CCTTC	4 cut(s)	66, 233, 268, 597
HpyCH4III	ACNGT	3 cut(s)	77, 107, 448
HpyCH4V	TGCA	2 cut(s)	102, 518
HpyF3I	CTNAG	2 cut(s)	333, 383
Hsp92I	GRCGYC	1 cut(s)	324
Hsp92II	CATG	5 cut(s)	28, 67, 86, 91, 367
HspAI	GCGC	1 cut(s)	305
Kzo9I	GATC	3 cut(s)	47, 136, 214
Lsp1109I	GCAGC	3 cut(s)	86, 295, 454
LweI	GCATC	3 cut(s)	22, 292, 517
MaeI	CTAG	2 cut(s)	267, 399
MaeIII	GTNAC	2 cut(s)	92, 147
MalI	GATC	3 cut(s)	49, 138, 216
MboI	GATC	3 cut(s)	47, 136, 214
MboII	GAAGA	7 cut(s)	51, 127, 130, 208, 385, 401, 452
MflI	RGATCY	1 cut(s)	214
MhlI	GDGCHC	1 cut(s)	583
MluCI	AATT	1 cut(s)	526
MlyI	GAGTC	1 cut(s)	155
MnlI	CCTC	8 cut(s)	63, 150, 163, 240, 352, 488, 514, 538
MslI	CAYNNNNRTG	1 cut(s)	461
MspI	CCGG	2 cut(s)	416, 435
MspR9I	CCNGG	1 cut(s)	417
NciI	CCSGG	1 cut(s)	417
NcoI	CCATGG	1 cut(s)	63
NdeII	GATC	3 cut(s)	47, 136, 214
NlaIII	CATG	5 cut(s)	28, 67, 86, 91, 367
NlaIV	GGNNCC	4 cut(s)	54, 186, 251, 580
NmeAIII	GCCGAG	2 cut(s)	198, 211
NmuCI	GTSAC	1 cut(s)	147
NspV	TTCGAA	1 cut(s)	475
OliI	CACNNNNGTG	1 cut(s)	461
PagI	TCATGA	2 cut(s)	87, 363
PflFI	GACNNNGTC	2 cut(s)	326, 359
PkrI	GCNGC	3 cut(s)	101, 285, 469
PleI	GAGTC	1 cut(s)	154
PpsI	GAGTC	1 cut(s)	154
PspN4I	GGNNCC	4 cut(s)	54, 186, 251, 580
PspPI	GGNCC	1 cut(s)	184
PsuI	RGATCY	1 cut(s)	214
PsyI	GACNNNGTC	2 cut(s)	326, 359
RsaI	GTAC	1 cut(s)	299
RsaNI	GTAC	1 cut(s)	298
RseI	CAYNNNNRTG	1 cut(s)	461
SatI	GCNGC	3 cut(s)	100, 284, 468
Sau3AI	GATC	3 cut(s)	47, 136, 214
Sau96I	GGNCC	1 cut(s)	184
SchI	GAGTC	1 cut(s)	155
ScrFI	CCNGG	1 cut(s)	417
SduI	GDGCHC	1 cut(s)	583
SfaNI	GCATC	3 cut(s)	22, 292, 517
SfuI	TTCGAA	1 cut(s)	475
SinI	GGWCC	1 cut(s)	184
SmiMI	CAYNNNNRTG	1 cut(s)	461
Sse9I	AATT	1 cut(s)	526
SspMI	CTAG	2 cut(s)	267, 399
StyD4I	CCNGG	1 cut(s)	415
StyI	CCWWGG	1 cut(s)	63
TaaI	ACNGT	3 cut(s)	77, 107, 448
TaqI	TCGA	4 cut(s)	209, 288, 475, 482
TasI	AATT	1 cut(s)	526
TscAI	CASTG	3 cut(s)	156, 430, 453
TseFI	GTSAC	1 cut(s)	147
TseI	GCWGC	3 cut(s)	99, 283, 467
Tsp45I	GTSAC	1 cut(s)	147
TspDTI	ATGAA	3 cut(s)	23, 215, 380
TspRI	CASTG	3 cut(s)	156, 430, 453
Tth111I	GACNNNGTC	2 cut(s)	326, 359
VpaK11BI	GGWCC	1 cut(s)	184
XspI	CTAG	2 cut(s)	267, 399

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