Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0002257

Physical Location & Seq

Genomic Coordinates Forward (+)

37424179 .. 37426343

Gene Structure 2165 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG303200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGGAACTTCGCCTGCTCCATGGAGTTGCTTATGGGCATCCTTGGTTTGGTAGATGGGGTTACAAATTTTGCCATGGAAGCTTTGGCGTCAAAGAGCACATTTATGAAAGAGCACTTGAGATACTCAGCTCATTAAAACTTGAAAAGATCATCCAAGATTTTAGTGACTTGGACCAGTATGAAGAGCTGAAGAAAATTGTTCGTTACTACAGATATTTGAGTGAAACACAGTTAGTTACTATCAAAGATCTTCTCAGATTTATGCTTACTATCAAGGCTTGCTTTCCTGCACAGAGAAACTCGCTACTTCCTACTGCAAAACCTGCAGATGTGATTGAGAAAGCAAAACCTGCAACCAGAGAATCCGTTAAGATCAAGCCTCTGATAAAGCAAAAGTCTTCAAAGTATAGGAAGTTTGCTACTGTTGTTTCTCACATGGATAGCAGATGGCCTGCCAGAAGACTAGAGTTTGCAGCAGATGTGATTGTGAATGCGCTGAAAGAAAAGAAAGAGAAGGACTTTAGAAATGGTGGGATGGCCCGGCAAGATGTGCGAGATGCAGCTAGGTTGCATATTGGAGATACAGGTTTGTTGGATTATGTGCTGAAATCACTGAACAATGTGGTTGTTGGGAATCAGAAACAACTTAACAAAAACCAGAAATCAACAAGAGTAGCTAACCAACAGGAACAAGCTTCAGGGGAACAACAACTCAGAAAAGGAGGAAGGTGGATTGGAATCTGTCCGTATACCTACATTGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000212 GO:0000226 GO:0000228 GO:0000280 GO:0000785 GO:0000790 GO:0000791 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005719 GO:0006323 GO:0006355 GO:0006996 GO:0007010 GO:0007017 GO:0007049 GO:0007051 GO:0007059 GO:0007060 GO:0007140 GO:0007275 GO:0007276 GO:0008134 GO:0008150 GO:0009555 GO:0009889 GO:0009987 GO:0010032 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0030154 GO:0030261 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0033613 GO:0042393 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044703 GO:0045132 GO:0048229 GO:0048232 GO:0048235 GO:0048285 GO:0048609 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0051321 GO:0051704 GO:0055046 GO:0060255 GO:0065007 GO:0070013 GO:0070192 GO:0071103 GO:0071840 GO:0080090 GO:0097159 GO:0098813 GO:0140013 GO:1901363 GO:1903046 GO:1903506 GO:1990188 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PHD

Protein Analysis

254

Amino Acids

29.34

Weight (kDa)

9.8

Isoelectric Point (pI)

36.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_plant_repro	PF25874	149 - 225	2.1e-26	Winged helix-turn-helix domain in plant reproductive proteins

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002257)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G66170
fragaria_vesca	FvH4_1g29990 FvH4_1g29990 FvH4_1g29990 FvH4_6g02390
malus_domestica	MD09G1267100.v1.1 MD17G1254900.v1.1 MD17G1255100.v1.1 MD17G1260200.v1.1
prunus_persica	Prupe.3G164800_v2.0.a1
pyrus_communis	pycom12401g00150 pycom461g00270
rosa_chinensis	RchiOBHm_Chr3g0450161 RchiOBHm_Chr3g0492331
rosa_laevigata	RLG00000022781 RLG00000022872 RLG00000022874 RLG00000022875 RLG00000025750
rosa_multiflora	Rmu_co8200976.1_g000001 Rmu_sc0003156.1_g000026 Rmu_sc0010184.1_g000005 Rmu_sc0010184.1_g000015 Rmu_sc0020297.1_g000001
rosa_roxburghii	Rroxscaffold_3G00226630 Rroxscaffold_6G00392410 Rroxscaffold_6G00427920
rosa_rugosa	Rorug02G0625900 Rorug03G0253300
rosa_samantha	Rh2AG397300 Rh2CG383900 Rh3AG025300 Rh3AG303200 Rh3BG025900 Rh3BG339200 Rh3BG339300 Rh3CG024800 Rh3CG336400 Rh3DG025900 Rh3DG327500 Rh3DG338500
rosa_wichuraiana	Rw3G002030 Rw3G026750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	331, 358
AccI	GTMKAC	1 cut(s)	749
AcsI	RAATTY	1 cut(s)	65
AcuI	CTGAAG	2 cut(s)	209, 681
AcyI	GRCGYC	1 cut(s)	87
AfiI	CCNNNNNNNGG	1 cut(s)	47
AgsI	TTSAA	2 cut(s)	143, 402
AluBI	AGCT	6 cut(s)	81, 129, 187, 563, 677, 695
AluI	AGCT	6 cut(s)	81, 129, 187, 563, 677, 695
Alw21I	GWGCWC	2 cut(s)	99, 115
AoxI	GGCC	2 cut(s)	449, 537
ApeKI	GCWGC	2 cut(s)	473, 560
ApoI	RAATTY	1 cut(s)	65
AspLEI	GCGC	1 cut(s)	496
AspS9I	GGNCC	2 cut(s)	172, 538
AsuC2I	CCSGG	1 cut(s)	541
AvaII	GGWCC	1 cut(s)	172
BbsI	GAAGAC	2 cut(s)	390, 466
Bbv12I	GWGCWC	2 cut(s)	99, 115
BbvI	GCAGC	2 cut(s)	485, 572
BccI	CCATC	3 cut(s)	48, 441, 529
BcnI	CCSGG	1 cut(s)	541
BfaI	CTAG	2 cut(s)	464, 564
BfmI	CTRYAG	2 cut(s)	208, 324
BfuAI	ACCTGC	2 cut(s)	331, 358
BglII	AGATCT	1 cut(s)	247
BisI	GCNGC	2 cut(s)	474, 561
BlsI	GCNGC	2 cut(s)	475, 562
Bme1390I	CCNGG	1 cut(s)	541
Bme18I	GGWCC	1 cut(s)	172
BmgT120I	GGNCC	2 cut(s)	172, 538
BmrFI	CCNGG	1 cut(s)	541
BmsI	GCATC	2 cut(s)	46, 547
BpiI	GAAGAC	2 cut(s)	390, 466
BpuEI	CTTGAG	1 cut(s)	137
BpuMI	CCSGG	1 cut(s)	541
BsaBI	GATNNNNATC	1 cut(s)	737
BsaHI	GRCGYC	1 cut(s)	87
BsaJI	CCNNGG	3 cut(s)	19, 41, 73
Bsc4I	CCNNNNNNNGG	1 cut(s)	47
Bse1I	ACTGG	1 cut(s)	175
Bse8I	GATNNNNATC	1 cut(s)	737
BseDI	CCNNGG	3 cut(s)	19, 41, 73
BseGI	GGATG	3 cut(s)	37, 150, 540
BseJI	GATNNNNATC	1 cut(s)	737
BseLI	CCNNNNNNNGG	1 cut(s)	47
BseMII	CTCAG	3 cut(s)	139, 268, 727
BseNI	ACTGG	1 cut(s)	175
BseXI	GCAGC	2 cut(s)	485, 572
BsgI	GTGCAG	1 cut(s)	273
BshFI	GGCC	2 cut(s)	451, 539
BsiHKAI	GWGCWC	2 cut(s)	99, 115
BsiSI	CCGG	1 cut(s)	541
BslI	CCNNNNNNNGG	1 cut(s)	47
BsmI	GAATGC	1 cut(s)	496
BsnI	GGCC	2 cut(s)	451, 539
Bsp1286I	GDGCHC	2 cut(s)	99, 115
Bsp143I	GATC	3 cut(s)	147, 247, 372
Bsp19I	CCATGG	2 cut(s)	19, 73
BspANI	GGCC	2 cut(s)	451, 539
BspCNI	CTCAG	3 cut(s)	138, 267, 726
BspMAI	CTGCAG	1 cut(s)	328
BspMI	ACCTGC	2 cut(s)	331, 358
BspQI	GCTCTTC	1 cut(s)	177
BsrI	ACTGG	1 cut(s)	175
BssECI	CCNNGG	3 cut(s)	19, 41, 73
BssMI	GATC	3 cut(s)	147, 247, 372
BssNAI	GTATAC	1 cut(s)	750
BssNI	GRCGYC	1 cut(s)	87
BssT1I	CCWWGG	3 cut(s)	19, 41, 73
Bst1107I	GTATAC	1 cut(s)	750
Bst4CI	ACNGT	2 cut(s)	231, 424
Bst6I	CTCTTC	1 cut(s)	177
BstACI	GRCGYC	1 cut(s)	87
BstAPI	GCANNNNNTGC	3 cut(s)	323, 350, 550
BstC8I	GCNNGC	3 cut(s)	14, 280, 453
BstDEI	CTNAG	3 cut(s)	125, 254, 713
BstDSI	CCRYGG	2 cut(s)	19, 73
BstF5I	GGATG	3 cut(s)	37, 150, 540
BstHHI	GCGC	1 cut(s)	496
BstKTI	GATC	3 cut(s)	150, 250, 375
BstMBI	GATC	3 cut(s)	147, 247, 372
BstMWI	GCNNNNNNNGC	4 cut(s)	78, 323, 350, 550
BstSCI	CCNGG	1 cut(s)	539
BstSFI	CTRYAG	2 cut(s)	208, 324
BstV1I	GCAGC	2 cut(s)	485, 572
BstV2I	GAAGAC	2 cut(s)	390, 466
BstX2I	RGATCY	1 cut(s)	247
BstYI	RGATCY	1 cut(s)	247
BstZ17I	GTATAC	1 cut(s)	750
BsuRI	GGCC	2 cut(s)	451, 539
BtgI	CCRYGG	2 cut(s)	19, 73
BtsCI	GGATG	3 cut(s)	37, 150, 540
BtsIMutI	CAGTG	1 cut(s)	611
BveI	ACCTGC	2 cut(s)	331, 358
Cac8I	GCNNGC	3 cut(s)	14, 280, 453
CfoI	GCGC	1 cut(s)	496
Cfr13I	GGNCC	2 cut(s)	172, 538
CseI	GACGC	1 cut(s)	76
CviAII	CATG	3 cut(s)	20, 74, 436
DdeI	CTNAG	3 cut(s)	125, 254, 713
DpnI	GATC	3 cut(s)	149, 249, 374
DpnII	GATC	3 cut(s)	147, 247, 372
Eam1104I	CTCTTC	1 cut(s)	177
EarI	CTCTTC	1 cut(s)	177
Eco130I	CCWWGG	3 cut(s)	19, 41, 73
Eco47I	GGWCC	1 cut(s)	172
Eco57I	CTGAAG	2 cut(s)	209, 681
EcoT14I	CCWWGG	3 cut(s)	19, 41, 73
ErhI	CCWWGG	3 cut(s)	19, 41, 73
FaeI	CATG	3 cut(s)	23, 77, 439
FalI	AAGNNNNNCTT	2 cut(s)	266, 298
FatI	CATG	3 cut(s)	19, 73, 435
FblI	GTMKAC	1 cut(s)	749
Fnu4HI	GCNGC	2 cut(s)	474, 561
FokI	GGATG	3 cut(s)	24, 137, 547
Fsp4HI	GCNGC	2 cut(s)	474, 561
FspBI	CTAG	2 cut(s)	464, 564
GlaI	GCGC	1 cut(s)	495
GluI	GCNGC	2 cut(s)	474, 561
HaeIII	GGCC	2 cut(s)	451, 539
HapII	CCGG	1 cut(s)	541
HgaI	GACGC	1 cut(s)	76
HhaI	GCGC	1 cut(s)	496
Hin1I	GRCGYC	1 cut(s)	87
Hin1II	CATG	3 cut(s)	23, 77, 439
Hin6I	GCGC	1 cut(s)	494
HinP1I	GCGC	1 cut(s)	494
HindIII	AAGCTT	2 cut(s)	79, 693
HinfI	GANTC	3 cut(s)	362, 634, 738
HpaII	CCGG	1 cut(s)	541
Hpy166II	GTNNAC	1 cut(s)	750
Hpy188I	TCNGA	4 cut(s)	257, 384, 639, 716
Hpy8I	GTNNAC	1 cut(s)	750
HpyAV	CCTTC	2 cut(s)	508, 720
HpyCH4III	ACNGT	2 cut(s)	231, 424
HpyCH4V	TGCA	7 cut(s)	290, 317, 326, 353, 473, 560, 571
HpyF10VI	GCNNNNNNNGC	4 cut(s)	78, 323, 350, 550
HpyF3I	CTNAG	3 cut(s)	125, 254, 713
Hsp92I	GRCGYC	1 cut(s)	87
Hsp92II	CATG	3 cut(s)	23, 77, 439
HspAI	GCGC	1 cut(s)	494
Kzo9I	GATC	3 cut(s)	147, 247, 372
LguI	GCTCTTC	1 cut(s)	177
LmnI	GCTCC	1 cut(s)	21
Lsp1109I	GCAGC	2 cut(s)	485, 572
LweI	GCATC	2 cut(s)	46, 547
MaeI	CTAG	2 cut(s)	464, 564
MaeIII	GTNAC	4 cut(s)	59, 164, 203, 235
MalI	GATC	3 cut(s)	149, 249, 374
MboI	GATC	3 cut(s)	147, 247, 372
MboII	GAAGA	5 cut(s)	194, 202, 242, 390, 471
MflI	RGATCY	1 cut(s)	247
MhlI	GDGCHC	2 cut(s)	99, 115
MluCI	AATT	2 cut(s)	65, 195
MmeI	TCCRAC	1 cut(s)	573
MnlI	CCTC	2 cut(s)	390, 716
MseI	TTAA	4 cut(s)	134, 369, 648, 763
MslI	CAYNNNNRTG	1 cut(s)	102
MspI	CCGG	1 cut(s)	541
MspR9I	CCNGG	1 cut(s)	541
Mva1269I	GAATGC	1 cut(s)	496
MwoI	GCNNNNNNNGC	4 cut(s)	78, 323, 350, 550
NciI	CCSGG	1 cut(s)	541
NcoI	CCATGG	2 cut(s)	19, 73
NdeII	GATC	3 cut(s)	147, 247, 372
NlaIII	CATG	3 cut(s)	23, 77, 439
NmuCI	GTSAC	1 cut(s)	164
PciSI	GCTCTTC	1 cut(s)	177
PctI	GAATGC	1 cut(s)	496
PfeI	GAWTC	3 cut(s)	362, 634, 738
PkrI	GCNGC	2 cut(s)	475, 562
PspPI	GGNCC	2 cut(s)	172, 538
PstI	CTGCAG	1 cut(s)	328
PsuI	RGATCY	1 cut(s)	247
RseI	CAYNNNNRTG	1 cut(s)	102
SapI	GCTCTTC	1 cut(s)	177
SaqAI	TTAA	4 cut(s)	134, 369, 648, 763
SatI	GCNGC	2 cut(s)	474, 561
Sau3AI	GATC	3 cut(s)	147, 247, 372
Sau96I	GGNCC	2 cut(s)	172, 538
ScrFI	CCNGG	1 cut(s)	541
SduI	GDGCHC	2 cut(s)	99, 115
SfaNI	GCATC	2 cut(s)	46, 547
SfcI	CTRYAG	2 cut(s)	208, 324
SinI	GGWCC	1 cut(s)	172
SmiMI	CAYNNNNRTG	1 cut(s)	102
SmlI	CTYRAG	1 cut(s)	116
SmoI	CTYRAG	1 cut(s)	116
Sse9I	AATT	2 cut(s)	65, 195
SspMI	CTAG	2 cut(s)	464, 564
StyD4I	CCNGG	1 cut(s)	539
StyI	CCWWGG	3 cut(s)	19, 41, 73
TaaI	ACNGT	2 cut(s)	231, 424
TasI	AATT	2 cut(s)	65, 195
TfiI	GAWTC	3 cut(s)	362, 634, 738
Tru1I	TTAA	4 cut(s)	134, 369, 648, 763
Tru9I	TTAA	4 cut(s)	134, 369, 648, 763
TscAI	CASTG	1 cut(s)	618
TseFI	GTSAC	1 cut(s)	164
TseI	GCWGC	2 cut(s)	473, 560
Tsp45I	GTSAC	1 cut(s)	164
TspDTI	ATGAA	2 cut(s)	120, 195
TspGWI	ACGGA	2 cut(s)	355, 735
TspRI	CASTG	1 cut(s)	618
VpaK11BI	GGWCC	1 cut(s)	172
XapI	RAATTY	1 cut(s)	65
XcmI	CCANNNNNNNNNTGG	1 cut(s)	80
XmiI	GTMKAC	1 cut(s)	749
XspI	CTAG	2 cut(s)	464, 564

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