Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0003385

Physical Location & Seq

Genomic Coordinates Forward (+)

52994168 .. 52997800

Gene Structure 3633 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG298300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGCCATTTCTTCAGATGCTACAAAGCATTGATTTCCCCCCGTGTGATTTCACTCAAAAAGAGCCAAGCTTTCAAGCACTGTTGAGATTACAGCACAAGACCGGTACAACTTGGCCTGAAATGGAAAATACCCAAATTCACACACTTGAGGCACTTGAGAGCTGTGTAACTCAAGACAATCAACAACAGTTGTATTCACCAGCAAAATCTGAAGGAAGAGACCCTCACCAAAACCCTCTTTCAGTGTCTGGTACTCTTGAGGGTGGTGGTGGTGTGAGCTCAGATTGCAACCGAGAAATGCAGCTACTCAACTCAGCGAAAATGGGTCCTAACCAGACCCTGCAGACCCAGTTCACCAAGTCGGCTTCTTCTCCGGCCACCCGAGAGAGACGAAAGCGCAAGAGAACAAGACCAACCAAGAACAAAGAGGAAGTAGAGAGCCAGAGAATGACCCACATTGCTGTTGAGCGCAACCGCAGACGCCAAATGAATGACCATCTCAATGGTCTCAGATCCCTCATGCCCCCTTCCTACATTCAAAGGGGTGACCAAGCATCCATAGTTGGGGGTGCAATAGATTTTGTGAAGGAATTGGAGCAGCACCTTCAGTCCCTTGAAGCCCAAAAGAGAATGAAAAGAGCTGAAGGCTTCACCACCAATGTTGACCCTAACAATAACAACTCCTTGAACTCATCTTCACCATCTTCATCATCGGCCATGGCAATGCCTTCAAATGGGATGTTCATGTCTCTCTCCCAATGCAGAATCGCGTCTACTGAGGAAGGAAACACTTGTGGGGATGATGGAGTCACAGCACAAAACAAGTCTGAGGCTGCAGAAGTAGATGTCACAGTGATCCAAACCCATGTGAACTTGAAGGTCCAGTGTCAAAAGAGGCCTGGCCAGTTGGTGAGAGCCCTTATTGCCTTGGAAGATCTCAGGCTAACAGTTTTGCACCTCAACATTACTTCTTCAGAAGACACGGTTCTTTACTCTTTCAATCTCAAGGTATTACACCAAATTCTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

342

Amino Acids

38.15

Weight (kDa)

7.68

Isoelectric Point (pI)

60.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	148 - 199	2.2e-12	Helix-loop-helix DNA-binding domain
bHLH-TF_ACT-like_plant	PF22754	280 - 333	5.5e-08	Plant bHLH transcription factor, ACT-like domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003385)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G46810 AT2G46810 AT2G46810 AT2G46810 AT3G61950 AT3G61950 AT3G61950 AT3G61950 AT3G61950 AT3G61950 AT4G01460 AT4G01460
fragaria_vesca	FvH4_7g13190 FvH4_7g13190 FvH4_7g13190 FvH4_7g13190 FvH4_7g13190 FvH4_7g17790 FvH4_7g17790 FvH4_7g17790
malus_domestica	MD01G1089300.v1.1 MD07G1160700.v1.1
prunus_persica	Prupe.2G198800_v2.0.a1 Prupe.2G198800_v2.0.a1
pyrus_communis	pycom01g11350 pycom07g15680
rosa_chinensis	RchiOBHm_Chr1g0361191
rosa_laevigata	RLG00000027740
rosa_multiflora	Rmu_sc0007111.1_g000017
rosa_roxburghii	Rroxscaffold_4G00295280
rosa_rugosa	Rorug01G0287400.1
rosa_samantha	Rh1AG298300 Rh1BG262200 Rh1CG279600 Rh1DG292400
rosa_wichuraiana	Rw1G026370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	773
AccII	CGCG	1 cut(s)	770
AciI	CCGC	1 cut(s)	475
AclWI	GGATC	2 cut(s)	507, 850
AcoI	YGGCCR	3 cut(s)	375, 714, 901
AcsI	RAATTY	2 cut(s)	135, 1020
AcuI	CTGAAG	4 cut(s)	231, 590, 663, 957
AcyI	GRCGYC	1 cut(s)	481
AfaI	GTAC	2 cut(s)	106, 253
AfiI	CCNNNNNNNGG	2 cut(s)	564, 734
AgeI	ACCGGT	1 cut(s)	101
AgsI	TTSAA	7 cut(s)	74, 539, 617, 688, 732, 877, 1000
AjnI	CCWGG	1 cut(s)	898
AluBI	AGCT	5 cut(s)	69, 162, 279, 304, 641
AluI	AGCT	5 cut(s)	69, 162, 279, 304, 641
Alw21I	GWGCWC	1 cut(s)	281
Alw26I	GTCTC	4 cut(s)	213, 382, 512, 753
AlwI	GGATC	2 cut(s)	507, 850
AlwNI	CAGNNNCTG	2 cut(s)	248, 340
Ama87I	CYCGRG	1 cut(s)	381
AoxI	GGCC	5 cut(s)	113, 375, 714, 896, 901
ApeKI	GCWGC	3 cut(s)	301, 598, 833
ApoI	RAATTY	2 cut(s)	135, 1020
AsiGI	ACCGGT	1 cut(s)	101
AspLEI	GCGC	2 cut(s)	399, 471
AspS9I	GGNCC	2 cut(s)	326, 880
AsuHPI	GGTGA	7 cut(s)	189, 218, 346, 557, 643, 690, 922
AvaI	CYCGRG	1 cut(s)	381
AvaII	GGWCC	2 cut(s)	326, 880
BalI	TGGCCA	1 cut(s)	903
BanII	GRGCYC	2 cut(s)	281, 919
BbsI	GAAGAC	1 cut(s)	984
Bbv12I	GWGCWC	1 cut(s)	281
BbvI	GCAGC	3 cut(s)	313, 610, 820
BccI	CCATC	3 cut(s)	504, 709, 797
BciT130I	CCWGG	1 cut(s)	900
BcoDI	GTCTC	4 cut(s)	213, 382, 512, 753
BfmI	CTRYAG	2 cut(s)	341, 834
BglII	AGATCT	1 cut(s)	934
BisI	GCNGC	3 cut(s)	302, 599, 834
BlsI	GCNGC	3 cut(s)	303, 600, 835
Bme1390I	CCNGG	1 cut(s)	900
Bme18I	GGWCC	2 cut(s)	326, 880
BmeT110I	CYCGRG	1 cut(s)	381
BmgT120I	GGNCC	2 cut(s)	326, 880
BmiI	GGNNCC	1 cut(s)	327
BmrFI	CCNGG	1 cut(s)	900
BmrI	ACTGGG	1 cut(s)	343
BmsI	GCATC	2 cut(s)	6, 563
BmuI	ACTGGG	1 cut(s)	343
BpiI	GAAGAC	1 cut(s)	984
BpuEI	CTTGAG	5 cut(s)	156, 167, 176, 278, 989
BsaHI	GRCGYC	1 cut(s)	481
BsaI	GGTCTC	2 cut(s)	213, 512
BsaJI	CCNNGG	2 cut(s)	717, 927
BsaWI	WCCGGW	1 cut(s)	101
Bsc4I	CCNNNNNNNGG	2 cut(s)	564, 734
Bse118I	RCCGGY	1 cut(s)	101
Bse1I	ACTGG	3 cut(s)	349, 883, 904
Bse3DI	GCAATG	2 cut(s)	456, 729
BseBI	CCWGG	1 cut(s)	900
BseDI	CCNNGG	2 cut(s)	717, 927
BseGI	GGATG	3 cut(s)	554, 744, 805
BseLI	CCNNNNNNNGG	2 cut(s)	564, 734
BseMI	GCAATG	2 cut(s)	456, 729
BseMII	CTCAG	6 cut(s)	294, 327, 523, 768, 819, 952
BseNI	ACTGG	3 cut(s)	349, 883, 904
BseXI	GCAGC	3 cut(s)	313, 610, 820
Bsh1236I	CGCG	1 cut(s)	770
BshFI	GGCC	5 cut(s)	115, 377, 716, 898, 903
BshTI	ACCGGT	1 cut(s)	101
BsiHKAI	GWGCWC	1 cut(s)	281
BsiHKCI	CYCGRG	1 cut(s)	381
BsiSI	CCGG	2 cut(s)	102, 374
BslFI	GGGAC	1 cut(s)	595
BslI	CCNNNNNNNGG	2 cut(s)	564, 734
BsmAI	GTCTC	4 cut(s)	213, 382, 512, 753
BsmBI	CGTCTC	1 cut(s)	382
BsmFI	GGGAC	1 cut(s)	595
BsnI	GGCC	5 cut(s)	115, 377, 716, 898, 903
Bso31I	GGTCTC	2 cut(s)	213, 512
BsoBI	CYCGRG	1 cut(s)	381
Bsp1286I	GDGCHC	2 cut(s)	281, 919
Bsp143I	GATC	3 cut(s)	512, 855, 934
Bsp19I	CCATGG	1 cut(s)	717
BspACI	CCGC	1 cut(s)	475
BspANI	GGCC	5 cut(s)	115, 377, 716, 898, 903
BspCNI	CTCAG	6 cut(s)	293, 326, 522, 769, 820, 951
BspFNI	CGCG	1 cut(s)	770
BspLI	GGNNCC	1 cut(s)	327
BspMAI	CTGCAG	2 cut(s)	345, 838
BspPI	GGATC	2 cut(s)	507, 850
BspTNI	GGTCTC	2 cut(s)	213, 512
BsrDI	GCAATG	2 cut(s)	456, 729
BsrFI	RCCGGY	1 cut(s)	101
BsrI	ACTGG	3 cut(s)	349, 883, 904
BssAI	RCCGGY	1 cut(s)	101
BssECI	CCNNGG	2 cut(s)	717, 927
BssMI	GATC	3 cut(s)	512, 855, 934
BssNI	GRCGYC	1 cut(s)	481
BssT1I	CCWWGG	2 cut(s)	717, 927
Bst2UI	CCWGG	1 cut(s)	900
Bst4CI	ACNGT	5 cut(s)	81, 189, 853, 949, 985
Bst6I	CTCTTC	1 cut(s)	211
BstACI	GRCGYC	1 cut(s)	481
BstDEI	CTNAG	6 cut(s)	280, 313, 509, 777, 828, 938
BstDSI	CCRYGG	1 cut(s)	717
BstEII	GGTNACC	1 cut(s)	545
BstF5I	GGATG	3 cut(s)	554, 744, 805
BstFNI	CGCG	1 cut(s)	770
BstHHI	GCGC	2 cut(s)	399, 471
BstKTI	GATC	3 cut(s)	515, 858, 937
BstMAI	GTCTC	4 cut(s)	213, 382, 512, 753
BstMBI	GATC	3 cut(s)	512, 855, 934
BstMWI	GCNNNNNNNGC	2 cut(s)	285, 923
BstNI	CCWGG	1 cut(s)	900
BstPI	GGTNACC	1 cut(s)	545
BstSCI	CCNGG	1 cut(s)	898
BstSFI	CTRYAG	2 cut(s)	341, 834
BstUI	CGCG	1 cut(s)	770
BstV1I	GCAGC	3 cut(s)	313, 610, 820
BstV2I	GAAGAC	1 cut(s)	984
BstX2I	RGATCY	2 cut(s)	512, 934
BstXI	CCANNNNNNTGG	1 cut(s)	503
BstYI	RGATCY	2 cut(s)	512, 934
BsuRI	GGCC	5 cut(s)	115, 377, 716, 898, 903
BtgI	CCRYGG	1 cut(s)	717
BtsCI	GGATG	3 cut(s)	554, 744, 805
BtsIMutI	CAGTG	4 cut(s)	77, 249, 858, 890
CaiI	CAGNNNCTG	2 cut(s)	248, 340
CfoI	GCGC	2 cut(s)	399, 471
Cfr10I	RCCGGY	1 cut(s)	101
Cfr13I	GGNCC	2 cut(s)	326, 880
CseI	GACGC	2 cut(s)	489, 759
Csp6I	GTAC	2 cut(s)	105, 252
CspAI	ACCGGT	1 cut(s)	101
CspCI	CAANNNNNGTGG	2 cut(s)	643, 678
CviAII	CATG	4 cut(s)	520, 718, 745, 866
CviQI	GTAC	2 cut(s)	105, 252
DdeI	CTNAG	6 cut(s)	280, 313, 509, 777, 828, 938
DpnI	GATC	3 cut(s)	514, 857, 936
DpnII	GATC	3 cut(s)	512, 855, 934
EaeI	YGGCCR	3 cut(s)	375, 714, 901
Eam1104I	CTCTTC	1 cut(s)	211
EarI	CTCTTC	1 cut(s)	211
Ecl136II	GAGCTC	1 cut(s)	279
Eco130I	CCWWGG	2 cut(s)	717, 927
Eco147I	AGGCCT	1 cut(s)	898
Eco24I	GRGCYC	2 cut(s)	281, 919
Eco31I	GGTCTC	2 cut(s)	213, 512
Eco47I	GGWCC	2 cut(s)	326, 880
Eco53kI	GAGCTC	1 cut(s)	279
Eco57I	CTGAAG	4 cut(s)	231, 590, 663, 957
Eco88I	CYCGRG	1 cut(s)	381
Eco91I	GGTNACC	1 cut(s)	545
EcoICRI	GAGCTC	1 cut(s)	279
EcoO109I	RGGNCCY	1 cut(s)	326
EcoO65I	GGTNACC	1 cut(s)	545
EcoRII	CCWGG	1 cut(s)	898
EcoT14I	CCWWGG	2 cut(s)	717, 927
EcoT38I	GRGCYC	2 cut(s)	281, 919
ErhI	CCWWGG	2 cut(s)	717, 927
Esp3I	CGTCTC	1 cut(s)	382
FaeI	CATG	4 cut(s)	523, 721, 748, 869
FaiI	YATR	5 cut(s)	521, 560, 719, 746, 867
FaqI	GGGAC	1 cut(s)	595
FatI	CATG	4 cut(s)	519, 717, 744, 865
FblI	GTMKAC	1 cut(s)	773
Fnu4HI	GCNGC	3 cut(s)	302, 599, 834
FokI	GGATG	3 cut(s)	541, 751, 812
FriOI	GRGCYC	2 cut(s)	281, 919
Fsp4HI	GCNGC	3 cut(s)	302, 599, 834
GlaI	GCGC	2 cut(s)	398, 470
GluI	GCNGC	3 cut(s)	302, 599, 834
HaeIII	GGCC	5 cut(s)	115, 377, 716, 898, 903
HapII	CCGG	2 cut(s)	102, 374
HgaI	GACGC	2 cut(s)	489, 759
HhaI	GCGC	2 cut(s)	399, 471
Hin1I	GRCGYC	1 cut(s)	481
Hin1II	CATG	4 cut(s)	523, 721, 748, 869
Hin6I	GCGC	2 cut(s)	397, 469
HinP1I	GCGC	2 cut(s)	397, 469
HincII	GTYRAC	1 cut(s)	664
HindII	GTYRAC	1 cut(s)	664
HindIII	AAGCTT	1 cut(s)	67
HinfI	GANTC	2 cut(s)	765, 807
HpaII	CCGG	2 cut(s)	102, 374
HphI	GGTGA	7 cut(s)	189, 218, 346, 557, 643, 690, 922
Hpy166II	GTNNAC	4 cut(s)	354, 664, 774, 871
Hpy188I	TCNGA	6 cut(s)	15, 211, 283, 512, 829, 976
Hpy188III	TCNNGA	2 cut(s)	173, 257
Hpy8I	GTNNAC	4 cut(s)	354, 664, 774, 871
HpyAV	CCTTC	8 cut(s)	206, 537, 580, 614, 638, 738, 776, 871
HpyCH4III	ACNGT	5 cut(s)	81, 189, 853, 949, 985
HpyCH4V	TGCA	7 cut(s)	288, 301, 343, 572, 762, 836, 955
HpyF10VI	GCNNNNNNNGC	2 cut(s)	285, 923
HpyF3I	CTNAG	6 cut(s)	280, 313, 509, 777, 828, 938
Hsp92I	GRCGYC	1 cut(s)	481
Hsp92II	CATG	4 cut(s)	523, 721, 748, 869
HspAI	GCGC	2 cut(s)	397, 469
Kzo9I	GATC	3 cut(s)	512, 855, 934
LmnI	GCTCC	1 cut(s)	595
Lsp1109I	GCAGC	3 cut(s)	313, 610, 820
LweI	GCATC	2 cut(s)	6, 563
MaeIII	GTNAC	4 cut(s)	166, 545, 808, 847
MalI	GATC	3 cut(s)	514, 857, 936
MboI	GATC	3 cut(s)	512, 855, 934
MboII	GAAGA	7 cut(s)	228, 360, 687, 696, 944, 963, 989
MflI	RGATCY	2 cut(s)	512, 934
MhlI	GDGCHC	2 cut(s)	281, 919
MlsI	TGGCCA	1 cut(s)	903
MluCI	AATT	3 cut(s)	135, 590, 1020
MluNI	TGGCCA	1 cut(s)	903
MlyI	GAGTC	1 cut(s)	816
Mox20I	TGGCCA	1 cut(s)	903
MscI	TGGCCA	1 cut(s)	903
MseI	TTAA	1 cut(s)	1027
MslI	CAYNNNNRTG	2 cut(s)	501, 722
Msp20I	TGGCCA	1 cut(s)	903
MspI	CCGG	2 cut(s)	102, 374
MspR9I	CCNGG	1 cut(s)	900
MvaI	CCWGG	1 cut(s)	900
MvnI	CGCG	1 cut(s)	770
MwoI	GCNNNNNNNGC	2 cut(s)	285, 923
NcoI	CCATGG	1 cut(s)	717
NdeII	GATC	3 cut(s)	512, 855, 934
NlaIII	CATG	4 cut(s)	523, 721, 748, 869
NlaIV	GGNNCC	1 cut(s)	327
NmuCI	GTSAC	3 cut(s)	545, 808, 847
PceI	AGGCCT	1 cut(s)	898
PfeI	GAWTC	1 cut(s)	765
PinAI	ACCGGT	1 cut(s)	101
PkrI	GCNGC	3 cut(s)	303, 600, 835
PleI	GAGTC	1 cut(s)	815
PpsI	GAGTC	1 cut(s)	815
PpuMI	RGGWCCY	1 cut(s)	326
Psp124BI	GAGCTC	1 cut(s)	281
Psp5II	RGGWCCY	1 cut(s)	326
Psp6I	CCWGG	1 cut(s)	898
PspEI	GGTNACC	1 cut(s)	545
PspGI	CCWGG	1 cut(s)	898
PspN4I	GGNNCC	1 cut(s)	327
PspPI	GGNCC	2 cut(s)	326, 880
PspPPI	RGGWCCY	1 cut(s)	326
PstI	CTGCAG	2 cut(s)	345, 838
PstNI	CAGNNNCTG	2 cut(s)	248, 340
PsuI	RGATCY	2 cut(s)	512, 934
RsaI	GTAC	2 cut(s)	106, 253
RsaNI	GTAC	2 cut(s)	105, 252
RseI	CAYNNNNRTG	2 cut(s)	501, 722
SacI	GAGCTC	1 cut(s)	281
SaqAI	TTAA	1 cut(s)	1027
SatI	GCNGC	3 cut(s)	302, 599, 834
Sau3AI	GATC	3 cut(s)	512, 855, 934
Sau96I	GGNCC	2 cut(s)	326, 880
SchI	GAGTC	1 cut(s)	816
ScrFI	CCNGG	1 cut(s)	900
SduI	GDGCHC	2 cut(s)	281, 919
SetI	ASST	9 cut(s)	71, 164, 281, 306, 606, 643, 882, 960, 1011
SfaNI	GCATC	2 cut(s)	6, 563
SfcI	CTRYAG	2 cut(s)	341, 834
SinI	GGWCC	2 cut(s)	326, 880
SmiMI	CAYNNNNRTG	2 cut(s)	501, 722
SmlI	CTYRAG	5 cut(s)	146, 155, 171, 257, 1004
SmoI	CTYRAG	5 cut(s)	146, 155, 171, 257, 1004
Sse9I	AATT	3 cut(s)	135, 590, 1020
SseBI	AGGCCT	1 cut(s)	898
SsiI	CCGC	1 cut(s)	475
SstI	GAGCTC	1 cut(s)	281
StuI	AGGCCT	1 cut(s)	898
StyD4I	CCNGG	1 cut(s)	898
StyI	CCWWGG	2 cut(s)	717, 927
TaaI	ACNGT	5 cut(s)	81, 189, 853, 949, 985
TasI	AATT	3 cut(s)	135, 590, 1020
TfiI	GAWTC	1 cut(s)	765
Tru1I	TTAA	1 cut(s)	1027
Tru9I	TTAA	1 cut(s)	1027
TscAI	CASTG	4 cut(s)	84, 249, 858, 890
TseFI	GTSAC	3 cut(s)	545, 808, 847
TseI	GCWGC	3 cut(s)	301, 598, 833
Tsp45I	GTSAC	3 cut(s)	545, 808, 847
TspDTI	ATGAA	4 cut(s)	503, 647, 696, 733
TspRI	CASTG	4 cut(s)	84, 249, 858, 890
VpaK11BI	GGWCC	2 cut(s)	326, 880
XapI	RAATTY	2 cut(s)	135, 1020
XmiI	GTMKAC	1 cut(s)	773

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