Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0003385

Physical Location & Seq

Genomic Coordinates Forward (+)

39504996 .. 39508592

Gene Structure 3597 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG262200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGCCATTTCTTCAGATGCTACAAAGCATTGATTTCCCCCCGTGTGATTTCACTCAAAAAGAGCCAAGCTTTCAAGCACTGTTGAGATTACAGCACAAGACCGGTACAACTTGGGCTGAAATGGAAAATACCCAAATTCACACACTTGAGGCACTTGAGAGCTGTGTAACTCAAGACAATCAACAACAGTTGTATTCACCAGCAAAATCTGAAGGAAGAGACCCTCACCAAAACCCTCTTTCAGTTTCTGGTACTCTTGAGGGTGGTGGTGGTGTGAGCTCAGATTGCAACCAAGAAATGCAGCAACTCAACTCAGCGAAAATGGGTCCTAACCAGACCCTGCAGACCCAGTTCACCAAGTCGGCTTCTTCTCCGGCCACCCGAGAGAGACGAAAGCGCAAGAGAACAAGACCAACCAAGAACAAAGAGGAAGTAGAGAGCCAGAGAATGACCCACATTGCTGTTGAGCGCAACCGCAGACGCCAAATGAATGACCATCTCAATGGTCTCAGATCCCTCATGCCCCCTTCCTACATTCAAAGGGGTGACCAAGCATCCATAGTTGGGGGTGCAATAGATTTTGTGAAGGAATTGGAGCAGCACCTTCAGTCCCTTGAAGCCCAAAAGAGAATGAAAAGAGCTGAAGGCTTCACCACTAGCACCAATGTTGACCCTAACAATAACAACTCCTTGAACTCATCTTCACCATCTTCATCATCGGCCATGGCAATGCCTTCAAATGGGATGTTCATGTCTCTCTCCCAATGCAGAATCGCGTCTACTGAGGAAGGAAACACTTGTGGGGATGATGGAGTCACAGCACAAAACAAGTCTGAGGCTGCAGAAGTAGATGTCACAGTGATCCAAACCCATGTGAACTTGAAGGTCCAGTGTCAAAAGAGGCCTGGCCAGTTGGTGAGAGCCCTTATTGCCTTGGAAGATCTCAGGCTAACAGTTTTGCACCTCAACATTACTTCTTCAGAAGACAAGGTTCTTTACTCTTTCAATCTCAAGGTATTACACCAAATTCTTTAA

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

344

Amino Acids

38.33

Weight (kDa)

7.68

Isoelectric Point (pI)

60.27

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	282 - 334	9.8e-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)	779
AccII	CGCG	1 cut(s)	776
AciI	CCGC	1 cut(s)	475
AclWI	GGATC	2 cut(s)	507, 856
AcoI	YGGCCR	3 cut(s)	375, 720, 907
AcsI	RAATTY	2 cut(s)	135, 1026
AcuI	CTGAAG	4 cut(s)	231, 590, 663, 963
AcyI	GRCGYC	1 cut(s)	481
AfaI	GTAC	2 cut(s)	106, 253
AfiI	CCNNNNNNNGG	2 cut(s)	564, 740
AgeI	ACCGGT	1 cut(s)	101
AgsI	TTSAA	7 cut(s)	74, 539, 617, 694, 738, 883, 1006
AjnI	CCWGG	1 cut(s)	904
AluBI	AGCT	4 cut(s)	69, 162, 279, 641
AluI	AGCT	4 cut(s)	69, 162, 279, 641
Alw21I	GWGCWC	1 cut(s)	281
Alw26I	GTCTC	4 cut(s)	213, 382, 512, 759
AlwI	GGATC	2 cut(s)	507, 856
AlwNI	CAGNNNCTG	2 cut(s)	248, 340
Ama87I	CYCGRG	1 cut(s)	381
AoxI	GGCC	4 cut(s)	375, 720, 902, 907
ApeKI	GCWGC	3 cut(s)	301, 598, 839
ApoI	RAATTY	2 cut(s)	135, 1026
AsiGI	ACCGGT	1 cut(s)	101
AspLEI	GCGC	2 cut(s)	399, 471
AspS9I	GGNCC	2 cut(s)	326, 886
AsuHPI	GGTGA	7 cut(s)	189, 218, 346, 557, 643, 696, 928
AvaI	CYCGRG	1 cut(s)	381
AvaII	GGWCC	2 cut(s)	326, 886
BalI	TGGCCA	1 cut(s)	909
BanII	GRGCYC	2 cut(s)	281, 925
BbsI	GAAGAC	1 cut(s)	990
Bbv12I	GWGCWC	1 cut(s)	281
BbvI	GCAGC	3 cut(s)	313, 610, 826
BccI	CCATC	3 cut(s)	504, 715, 803
BciT130I	CCWGG	1 cut(s)	906
BcoDI	GTCTC	4 cut(s)	213, 382, 512, 759
BfaI	CTAG	1 cut(s)	657
BfmI	CTRYAG	2 cut(s)	341, 840
BglII	AGATCT	1 cut(s)	940
BisI	GCNGC	3 cut(s)	302, 599, 840
BlsI	GCNGC	3 cut(s)	303, 600, 841
Bme1390I	CCNGG	1 cut(s)	906
Bme18I	GGWCC	2 cut(s)	326, 886
BmeT110I	CYCGRG	1 cut(s)	381
BmgT120I	GGNCC	2 cut(s)	326, 886
BmiI	GGNNCC	1 cut(s)	327
BmrFI	CCNGG	1 cut(s)	906
BmrI	ACTGGG	1 cut(s)	343
BmsI	GCATC	2 cut(s)	6, 563
BmuI	ACTGGG	1 cut(s)	343
BpiI	GAAGAC	1 cut(s)	990
BpuEI	CTTGAG	5 cut(s)	156, 167, 176, 278, 995
BsaHI	GRCGYC	1 cut(s)	481
BsaI	GGTCTC	2 cut(s)	213, 512
BsaJI	CCNNGG	2 cut(s)	723, 933
BsaWI	WCCGGW	1 cut(s)	101
Bsc4I	CCNNNNNNNGG	2 cut(s)	564, 740
Bse118I	RCCGGY	1 cut(s)	101
Bse1I	ACTGG	3 cut(s)	349, 889, 910
Bse3DI	GCAATG	2 cut(s)	456, 735
BseBI	CCWGG	1 cut(s)	906
BseDI	CCNNGG	2 cut(s)	723, 933
BseGI	GGATG	3 cut(s)	554, 750, 811
BseLI	CCNNNNNNNGG	2 cut(s)	564, 740
BseMI	GCAATG	2 cut(s)	456, 735
BseMII	CTCAG	6 cut(s)	294, 327, 523, 774, 825, 958
BseNI	ACTGG	3 cut(s)	349, 889, 910
BseXI	GCAGC	3 cut(s)	313, 610, 826
Bsh1236I	CGCG	1 cut(s)	776
BshFI	GGCC	4 cut(s)	377, 722, 904, 909
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, 740
BsmAI	GTCTC	4 cut(s)	213, 382, 512, 759
BsmBI	CGTCTC	1 cut(s)	382
BsmFI	GGGAC	1 cut(s)	595
BsnI	GGCC	4 cut(s)	377, 722, 904, 909
Bso31I	GGTCTC	2 cut(s)	213, 512
BsoBI	CYCGRG	1 cut(s)	381
Bsp1286I	GDGCHC	2 cut(s)	281, 925
Bsp143I	GATC	3 cut(s)	512, 861, 940
Bsp19I	CCATGG	1 cut(s)	723
BspACI	CCGC	1 cut(s)	475
BspANI	GGCC	4 cut(s)	377, 722, 904, 909
BspCNI	CTCAG	6 cut(s)	293, 326, 522, 775, 826, 957
BspFNI	CGCG	1 cut(s)	776
BspLI	GGNNCC	1 cut(s)	327
BspMAI	CTGCAG	2 cut(s)	345, 844
BspPI	GGATC	2 cut(s)	507, 856
BspTNI	GGTCTC	2 cut(s)	213, 512
BsrDI	GCAATG	2 cut(s)	456, 735
BsrFI	RCCGGY	1 cut(s)	101
BsrI	ACTGG	3 cut(s)	349, 889, 910
BssAI	RCCGGY	1 cut(s)	101
BssECI	CCNNGG	2 cut(s)	723, 933
BssMI	GATC	3 cut(s)	512, 861, 940
BssNI	GRCGYC	1 cut(s)	481
BssT1I	CCWWGG	2 cut(s)	723, 933
Bst2UI	CCWGG	1 cut(s)	906
Bst4CI	ACNGT	4 cut(s)	81, 189, 859, 955
Bst6I	CTCTTC	1 cut(s)	211
BstACI	GRCGYC	1 cut(s)	481
BstDEI	CTNAG	6 cut(s)	280, 313, 509, 783, 834, 944
BstDSI	CCRYGG	1 cut(s)	723
BstEII	GGTNACC	1 cut(s)	545
BstF5I	GGATG	3 cut(s)	554, 750, 811
BstFNI	CGCG	1 cut(s)	776
BstHHI	GCGC	2 cut(s)	399, 471
BstKTI	GATC	3 cut(s)	515, 864, 943
BstMAI	GTCTC	4 cut(s)	213, 382, 512, 759
BstMBI	GATC	3 cut(s)	512, 861, 940
BstMWI	GCNNNNNNNGC	2 cut(s)	285, 929
BstNI	CCWGG	1 cut(s)	906
BstPI	GGTNACC	1 cut(s)	545
BstSCI	CCNGG	1 cut(s)	904
BstSFI	CTRYAG	2 cut(s)	341, 840
BstUI	CGCG	1 cut(s)	776
BstV1I	GCAGC	3 cut(s)	313, 610, 826
BstV2I	GAAGAC	1 cut(s)	990
BstX2I	RGATCY	2 cut(s)	512, 940
BstXI	CCANNNNNNTGG	1 cut(s)	503
BstYI	RGATCY	2 cut(s)	512, 940
BsuRI	GGCC	4 cut(s)	377, 722, 904, 909
BtgI	CCRYGG	1 cut(s)	723
BtsCI	GGATG	3 cut(s)	554, 750, 811
BtsIMutI	CAGTG	3 cut(s)	77, 864, 896
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, 886
CseI	GACGC	2 cut(s)	489, 765
Csp6I	GTAC	2 cut(s)	105, 252
CspAI	ACCGGT	1 cut(s)	101
CviAII	CATG	4 cut(s)	520, 724, 751, 872
CviQI	GTAC	2 cut(s)	105, 252
DdeI	CTNAG	6 cut(s)	280, 313, 509, 783, 834, 944
DpnI	GATC	3 cut(s)	514, 863, 942
DpnII	GATC	3 cut(s)	512, 861, 940
EaeI	YGGCCR	3 cut(s)	375, 720, 907
Eam1104I	CTCTTC	1 cut(s)	211
EarI	CTCTTC	1 cut(s)	211
Ecl136II	GAGCTC	1 cut(s)	279
Eco130I	CCWWGG	2 cut(s)	723, 933
Eco147I	AGGCCT	1 cut(s)	904
Eco24I	GRGCYC	2 cut(s)	281, 925
Eco31I	GGTCTC	2 cut(s)	213, 512
Eco47I	GGWCC	2 cut(s)	326, 886
Eco53kI	GAGCTC	1 cut(s)	279
Eco57I	CTGAAG	4 cut(s)	231, 590, 663, 963
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)	904
EcoT14I	CCWWGG	2 cut(s)	723, 933
EcoT38I	GRGCYC	2 cut(s)	281, 925
ErhI	CCWWGG	2 cut(s)	723, 933
Esp3I	CGTCTC	1 cut(s)	382
FaeI	CATG	4 cut(s)	523, 727, 754, 875
FaiI	YATR	5 cut(s)	521, 560, 725, 752, 873
FaqI	GGGAC	1 cut(s)	595
FatI	CATG	4 cut(s)	519, 723, 750, 871
FblI	GTMKAC	1 cut(s)	779
Fnu4HI	GCNGC	3 cut(s)	302, 599, 840
FokI	GGATG	3 cut(s)	541, 757, 818
FriOI	GRGCYC	2 cut(s)	281, 925
Fsp4HI	GCNGC	3 cut(s)	302, 599, 840
FspBI	CTAG	1 cut(s)	657
GlaI	GCGC	2 cut(s)	398, 470
GluI	GCNGC	3 cut(s)	302, 599, 840
HaeIII	GGCC	4 cut(s)	377, 722, 904, 909
HapII	CCGG	2 cut(s)	102, 374
HgaI	GACGC	2 cut(s)	489, 765
HhaI	GCGC	2 cut(s)	399, 471
Hin1I	GRCGYC	1 cut(s)	481
Hin1II	CATG	4 cut(s)	523, 727, 754, 875
Hin6I	GCGC	2 cut(s)	397, 469
HinP1I	GCGC	2 cut(s)	397, 469
HincII	GTYRAC	1 cut(s)	670
HindII	GTYRAC	1 cut(s)	670
HindIII	AAGCTT	1 cut(s)	67
HinfI	GANTC	2 cut(s)	771, 813
HpaII	CCGG	2 cut(s)	102, 374
HphI	GGTGA	7 cut(s)	189, 218, 346, 557, 643, 696, 928
Hpy166II	GTNNAC	4 cut(s)	354, 670, 780, 877
Hpy188I	TCNGA	6 cut(s)	15, 211, 283, 512, 835, 982
Hpy188III	TCNNGA	2 cut(s)	173, 257
Hpy8I	GTNNAC	4 cut(s)	354, 670, 780, 877
HpyAV	CCTTC	8 cut(s)	206, 537, 580, 614, 638, 744, 782, 877
HpyCH4III	ACNGT	4 cut(s)	81, 189, 859, 955
HpyCH4V	TGCA	7 cut(s)	288, 301, 343, 572, 768, 842, 961
HpyF10VI	GCNNNNNNNGC	2 cut(s)	285, 929
HpyF3I	CTNAG	6 cut(s)	280, 313, 509, 783, 834, 944
Hsp92I	GRCGYC	1 cut(s)	481
Hsp92II	CATG	4 cut(s)	523, 727, 754, 875
HspAI	GCGC	2 cut(s)	397, 469
Kzo9I	GATC	3 cut(s)	512, 861, 940
LmnI	GCTCC	1 cut(s)	595
Lsp1109I	GCAGC	3 cut(s)	313, 610, 826
LweI	GCATC	2 cut(s)	6, 563
MaeI	CTAG	1 cut(s)	657
MaeIII	GTNAC	4 cut(s)	166, 545, 814, 853
MalI	GATC	3 cut(s)	514, 863, 942
MboI	GATC	3 cut(s)	512, 861, 940
MboII	GAAGA	7 cut(s)	228, 360, 693, 702, 950, 969, 995
MflI	RGATCY	2 cut(s)	512, 940
MhlI	GDGCHC	2 cut(s)	281, 925
MlsI	TGGCCA	1 cut(s)	909
MluCI	AATT	3 cut(s)	135, 590, 1026
MluNI	TGGCCA	1 cut(s)	909
MlyI	GAGTC	1 cut(s)	822
Mox20I	TGGCCA	1 cut(s)	909
MscI	TGGCCA	1 cut(s)	909
MseI	TTAA	1 cut(s)	1033
MslI	CAYNNNNRTG	2 cut(s)	501, 728
Msp20I	TGGCCA	1 cut(s)	909
MspI	CCGG	2 cut(s)	102, 374
MspR9I	CCNGG	1 cut(s)	906
MvaI	CCWGG	1 cut(s)	906
MvnI	CGCG	1 cut(s)	776
MwoI	GCNNNNNNNGC	2 cut(s)	285, 929
NcoI	CCATGG	1 cut(s)	723
NdeII	GATC	3 cut(s)	512, 861, 940
NlaIII	CATG	4 cut(s)	523, 727, 754, 875
NlaIV	GGNNCC	1 cut(s)	327
NmuCI	GTSAC	3 cut(s)	545, 814, 853
PceI	AGGCCT	1 cut(s)	904
PfeI	GAWTC	1 cut(s)	771
PinAI	ACCGGT	1 cut(s)	101
PkrI	GCNGC	3 cut(s)	303, 600, 841
PleI	GAGTC	1 cut(s)	821
PpsI	GAGTC	1 cut(s)	821
PpuMI	RGGWCCY	1 cut(s)	326
Psp124BI	GAGCTC	1 cut(s)	281
Psp5II	RGGWCCY	1 cut(s)	326
Psp6I	CCWGG	1 cut(s)	904
PspEI	GGTNACC	1 cut(s)	545
PspGI	CCWGG	1 cut(s)	904
PspN4I	GGNNCC	1 cut(s)	327
PspPI	GGNCC	2 cut(s)	326, 886
PspPPI	RGGWCCY	1 cut(s)	326
PstI	CTGCAG	2 cut(s)	345, 844
PstNI	CAGNNNCTG	2 cut(s)	248, 340
PsuI	RGATCY	2 cut(s)	512, 940
RsaI	GTAC	2 cut(s)	106, 253
RsaNI	GTAC	2 cut(s)	105, 252
RseI	CAYNNNNRTG	2 cut(s)	501, 728
SacI	GAGCTC	1 cut(s)	281
SaqAI	TTAA	1 cut(s)	1033
SatI	GCNGC	3 cut(s)	302, 599, 840
Sau3AI	GATC	3 cut(s)	512, 861, 940
Sau96I	GGNCC	2 cut(s)	326, 886
SchI	GAGTC	1 cut(s)	822
ScrFI	CCNGG	1 cut(s)	906
SduI	GDGCHC	2 cut(s)	281, 925
SetI	ASST	9 cut(s)	71, 164, 281, 606, 643, 888, 966, 993, 1017
SfaNI	GCATC	2 cut(s)	6, 563
SfcI	CTRYAG	2 cut(s)	341, 840
SinI	GGWCC	2 cut(s)	326, 886
SmiMI	CAYNNNNRTG	2 cut(s)	501, 728
SmlI	CTYRAG	5 cut(s)	146, 155, 171, 257, 1010
SmoI	CTYRAG	5 cut(s)	146, 155, 171, 257, 1010
Sse9I	AATT	3 cut(s)	135, 590, 1026
SseBI	AGGCCT	1 cut(s)	904
SsiI	CCGC	1 cut(s)	475
SspMI	CTAG	1 cut(s)	657
SstI	GAGCTC	1 cut(s)	281
StuI	AGGCCT	1 cut(s)	904
StyD4I	CCNGG	1 cut(s)	904
StyI	CCWWGG	2 cut(s)	723, 933
TaaI	ACNGT	4 cut(s)	81, 189, 859, 955
TasI	AATT	3 cut(s)	135, 590, 1026
TfiI	GAWTC	1 cut(s)	771
Tru1I	TTAA	1 cut(s)	1033
Tru9I	TTAA	1 cut(s)	1033
TscAI	CASTG	3 cut(s)	84, 864, 896
TseFI	GTSAC	3 cut(s)	545, 814, 853
TseI	GCWGC	3 cut(s)	301, 598, 839
Tsp45I	GTSAC	3 cut(s)	545, 814, 853
TspDTI	ATGAA	4 cut(s)	503, 647, 702, 739
TspRI	CASTG	3 cut(s)	84, 864, 896
VpaK11BI	GGWCC	2 cut(s)	326, 886
XapI	RAATTY	2 cut(s)	135, 1026
XmiI	GTMKAC	1 cut(s)	779
XspI	CTAG	1 cut(s)	657

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