Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0003385

Physical Location & Seq

Genomic Coordinates Forward (+)

55033687 .. 55037271

Gene Structure 3585 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG279600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1101 bp

ATGCCATTTCTTCAGATGCTACAAAGCATTGATTTCCCCCCGTGTGATTTCACTCAAAAAGAGCCAAGCTTTCAAGCACTGTTGAGATTACAGCACAAGACCGGTACAACTTGGCCTGAAATGGAAAATACCCAGAGTTCCCAAATTCACACACTTGAGGCACTTGAGAGCTGTGTAACTCAAGACAATCAACAACAGTTGTATTCACCAGCAAAATCTGAAGGAAGAGACCCTCACCAAAACCCTCTTTCAGTTTCTGGTACTCTTGAGGGTGGTGGTGGTGTGAGCTCAGATTGCAACCGAGAAATGCAGCAACTCAACTCAGCGAAAATGGGTCCTAACCAGACCCTGCAGACCCAGTTCACCAAGTCGGCTTCTTCTCCGGCCACCCGAGAGAGACGAAAGCGCAAGAGAACAAGACCAACCAAGAACAAAGAGGAAGTAGAGAGCCAGAGAATGACCCACATTGCTGTTGAACGCAACCGCAGACGACAAATGAATGACCATCTCAATGGTCTCAGATCCCTCATGCCCCCTTCCTACATTCAAAGGGGTGACCAAGCATCCATAGTTGGGGGTGCAATAGATTTTGTGAAGGAATTGGAGCAGCACCTTCAGTCCCTTGAAGCCCAAAAGAGAATGAAAAGAGCTGAAGGCTTCACCACCAATGTTGACCCTAACAATAACAACTCCTTGAACTCATCTTCACCATCTTCATCATCGGCCATGGCAATGCCTTCAAATGGGATGTTCATGTCTCTCTCCCAATGCAGAATCGCGTCTACTGAGGAAGGAAACACTTGTGGGGATGATGGAGTCACAGCACAAAACAAGTCTGAGGCTGCAGAAGTAGATGTCACAGTCATCCAAACCCATGTGAACTTGAAGGTCCAGTGTCAAAAGAGGCCTGGCCAGTTGGTGAGAGCCCTTATTGCCTTGGAAGATCTCAGGCTAACAGTTTTGCACCTCAACATTACTTCTTCAGAAGACAAGGTTCTTTACTCTTTCAATCTCAAGATTGAGGAGGGATGTAAGTTAGGATCAGCAGATAACATTGCCAGAGCAGTACATCAAATATTCAGCTTCATCAATGGCAGCTGA

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

366

Amino Acids

40.65

Weight (kDa)

7.65

Isoelectric Point (pI)

61.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	151 - 202	2.4e-12	Helix-loop-helix DNA-binding domain
bHLH-TF_ACT-like_plant	PF22754	283 - 360	2.5e-10	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

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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)	782
AccII	CGCG	1 cut(s)	779
AciI	CCGC	1 cut(s)	484
AclWI	GGATC	2 cut(s)	516, 1048
AcoI	YGGCCR	3 cut(s)	384, 723, 910
AcsI	RAATTY	1 cut(s)	144
AcuI	CTGAAG	4 cut(s)	240, 599, 672, 966
AfaI	GTAC	3 cut(s)	106, 262, 1068
AfiI	CCNNNNNNNGG	2 cut(s)	573, 743
AgeI	ACCGGT	1 cut(s)	101
AgsI	TTSAA	8 cut(s)	74, 476, 548, 626, 697, 741, 886, 1009
AjnI	CCWGG	1 cut(s)	907
AluBI	AGCT	6 cut(s)	69, 171, 288, 650, 1083, 1098
AluI	AGCT	6 cut(s)	69, 171, 288, 650, 1083, 1098
Alw21I	GWGCWC	1 cut(s)	290
Alw26I	GTCTC	4 cut(s)	222, 391, 521, 762
AlwI	GGATC	2 cut(s)	516, 1048
AlwNI	CAGNNNCTG	2 cut(s)	257, 349
Ama87I	CYCGRG	1 cut(s)	390
AoxI	GGCC	5 cut(s)	113, 384, 723, 905, 910
ApeKI	GCWGC	4 cut(s)	310, 607, 842, 1095
ApoI	RAATTY	1 cut(s)	144
AsiGI	ACCGGT	1 cut(s)	101
AspLEI	GCGC	1 cut(s)	408
AspS9I	GGNCC	2 cut(s)	335, 889
AsuHPI	GGTGA	7 cut(s)	198, 227, 355, 566, 652, 699, 931
AvaI	CYCGRG	1 cut(s)	390
AvaII	GGWCC	2 cut(s)	335, 889
BalI	TGGCCA	1 cut(s)	912
BanII	GRGCYC	2 cut(s)	290, 928
BbsI	GAAGAC	1 cut(s)	993
Bbv12I	GWGCWC	1 cut(s)	290
BbvI	GCAGC	3 cut(s)	322, 619, 829
BccI	CCATC	3 cut(s)	513, 718, 806
BciT130I	CCWGG	1 cut(s)	909
BcoDI	GTCTC	4 cut(s)	222, 391, 521, 762
BfmI	CTRYAG	2 cut(s)	350, 843
BglII	AGATCT	1 cut(s)	943
BisI	GCNGC	4 cut(s)	311, 608, 843, 1096
BlsI	GCNGC	4 cut(s)	312, 609, 844, 1097
Bme1390I	CCNGG	1 cut(s)	909
Bme18I	GGWCC	2 cut(s)	335, 889
BmeT110I	CYCGRG	1 cut(s)	390
BmgT120I	GGNCC	2 cut(s)	335, 889
BmiI	GGNNCC	1 cut(s)	336
BmrFI	CCNGG	1 cut(s)	909
BmrI	ACTGGG	1 cut(s)	352
BmsI	GCATC	2 cut(s)	6, 572
BmuI	ACTGGG	1 cut(s)	352
BpiI	GAAGAC	1 cut(s)	993
BpuEI	CTTGAG	5 cut(s)	165, 176, 185, 287, 998
BsaI	GGTCTC	2 cut(s)	222, 521
BsaJI	CCNNGG	2 cut(s)	726, 936
BsaWI	WCCGGW	1 cut(s)	101
Bsc4I	CCNNNNNNNGG	2 cut(s)	573, 743
Bse118I	RCCGGY	1 cut(s)	101
Bse1I	ACTGG	3 cut(s)	358, 892, 913
Bse3DI	GCAATG	3 cut(s)	465, 738, 1053
BseBI	CCWGG	1 cut(s)	909
BseDI	CCNNGG	2 cut(s)	726, 936
BseGI	GGATG	5 cut(s)	563, 753, 814, 864, 1034
BseLI	CCNNNNNNNGG	2 cut(s)	573, 743
BseMI	GCAATG	3 cut(s)	465, 738, 1053
BseMII	CTCAG	6 cut(s)	303, 336, 532, 777, 828, 961
BseNI	ACTGG	3 cut(s)	358, 892, 913
BseRI	GAGGAG	1 cut(s)	1037
BseXI	GCAGC	3 cut(s)	322, 619, 829
Bsh1236I	CGCG	1 cut(s)	779
BshFI	GGCC	5 cut(s)	115, 386, 725, 907, 912
BshTI	ACCGGT	1 cut(s)	101
BsiHKAI	GWGCWC	1 cut(s)	290
BsiHKCI	CYCGRG	1 cut(s)	390
BsiSI	CCGG	2 cut(s)	102, 383
BslFI	GGGAC	1 cut(s)	604
BslI	CCNNNNNNNGG	2 cut(s)	573, 743
BsmAI	GTCTC	4 cut(s)	222, 391, 521, 762
BsmBI	CGTCTC	1 cut(s)	391
BsmFI	GGGAC	1 cut(s)	604
BsnI	GGCC	5 cut(s)	115, 386, 725, 907, 912
Bso31I	GGTCTC	2 cut(s)	222, 521
BsoBI	CYCGRG	1 cut(s)	390
Bsp1286I	GDGCHC	2 cut(s)	290, 928
Bsp143I	GATC	3 cut(s)	521, 943, 1040
Bsp19I	CCATGG	1 cut(s)	726
BspACI	CCGC	1 cut(s)	484
BspANI	GGCC	5 cut(s)	115, 386, 725, 907, 912
BspCNI	CTCAG	6 cut(s)	302, 335, 531, 778, 829, 960
BspFNI	CGCG	1 cut(s)	779
BspLI	GGNNCC	1 cut(s)	336
BspMAI	CTGCAG	2 cut(s)	354, 847
BspPI	GGATC	2 cut(s)	516, 1048
BspTNI	GGTCTC	2 cut(s)	222, 521
BsrDI	GCAATG	3 cut(s)	465, 738, 1053
BsrFI	RCCGGY	1 cut(s)	101
BsrI	ACTGG	3 cut(s)	358, 892, 913
BssAI	RCCGGY	1 cut(s)	101
BssECI	CCNNGG	2 cut(s)	726, 936
BssMI	GATC	3 cut(s)	521, 943, 1040
BssT1I	CCWWGG	2 cut(s)	726, 936
Bst2UI	CCWGG	1 cut(s)	909
Bst4CI	ACNGT	4 cut(s)	81, 198, 862, 958
Bst6I	CTCTTC	1 cut(s)	220
BstDEI	CTNAG	6 cut(s)	289, 322, 518, 786, 837, 947
BstDSI	CCRYGG	1 cut(s)	726
BstEII	GGTNACC	1 cut(s)	554
BstF5I	GGATG	5 cut(s)	563, 753, 814, 864, 1034
BstFNI	CGCG	1 cut(s)	779
BstHHI	GCGC	1 cut(s)	408
BstKTI	GATC	3 cut(s)	524, 946, 1043
BstMAI	GTCTC	4 cut(s)	222, 391, 521, 762
BstMBI	GATC	3 cut(s)	521, 943, 1040
BstMWI	GCNNNNNNNGC	2 cut(s)	294, 932
BstNI	CCWGG	1 cut(s)	909
BstPI	GGTNACC	1 cut(s)	554
BstSCI	CCNGG	1 cut(s)	907
BstSFI	CTRYAG	2 cut(s)	350, 843
BstUI	CGCG	1 cut(s)	779
BstV1I	GCAGC	3 cut(s)	322, 619, 829
BstV2I	GAAGAC	1 cut(s)	993
BstX2I	RGATCY	2 cut(s)	521, 943
BstXI	CCANNNNNNTGG	1 cut(s)	512
BstYI	RGATCY	2 cut(s)	521, 943
BsuRI	GGCC	5 cut(s)	115, 386, 725, 907, 912
BtgI	CCRYGG	1 cut(s)	726
BtsCI	GGATG	5 cut(s)	563, 753, 814, 864, 1034
BtsIMutI	CAGTG	2 cut(s)	77, 899
CaiI	CAGNNNCTG	2 cut(s)	257, 349
CfoI	GCGC	1 cut(s)	408
Cfr10I	RCCGGY	1 cut(s)	101
Cfr13I	GGNCC	2 cut(s)	335, 889
CseI	GACGC	1 cut(s)	768
Csp6I	GTAC	3 cut(s)	105, 261, 1067
CspAI	ACCGGT	1 cut(s)	101
CspCI	CAANNNNNGTGG	2 cut(s)	652, 687
CviAII	CATG	4 cut(s)	529, 727, 754, 875
CviQI	GTAC	3 cut(s)	105, 261, 1067
DdeI	CTNAG	6 cut(s)	289, 322, 518, 786, 837, 947
DpnI	GATC	3 cut(s)	523, 945, 1042
DpnII	GATC	3 cut(s)	521, 943, 1040
EaeI	YGGCCR	3 cut(s)	384, 723, 910
Eam1104I	CTCTTC	1 cut(s)	220
EarI	CTCTTC	1 cut(s)	220
Ecl136II	GAGCTC	1 cut(s)	288
Eco130I	CCWWGG	2 cut(s)	726, 936
Eco147I	AGGCCT	1 cut(s)	907
Eco24I	GRGCYC	2 cut(s)	290, 928
Eco31I	GGTCTC	2 cut(s)	222, 521
Eco47I	GGWCC	2 cut(s)	335, 889
Eco53kI	GAGCTC	1 cut(s)	288
Eco57I	CTGAAG	4 cut(s)	240, 599, 672, 966
Eco88I	CYCGRG	1 cut(s)	390
Eco91I	GGTNACC	1 cut(s)	554
EcoICRI	GAGCTC	1 cut(s)	288
EcoO109I	RGGNCCY	1 cut(s)	335
EcoO65I	GGTNACC	1 cut(s)	554
EcoRII	CCWGG	1 cut(s)	907
EcoT14I	CCWWGG	2 cut(s)	726, 936
EcoT38I	GRGCYC	2 cut(s)	290, 928
ErhI	CCWWGG	2 cut(s)	726, 936
Esp3I	CGTCTC	1 cut(s)	391
FaeI	CATG	4 cut(s)	532, 730, 757, 878
FaiI	YATR	5 cut(s)	530, 569, 728, 755, 876
FaqI	GGGAC	1 cut(s)	604
FatI	CATG	4 cut(s)	528, 726, 753, 874
FblI	GTMKAC	1 cut(s)	782
Fnu4HI	GCNGC	4 cut(s)	311, 608, 843, 1096
FokI	GGATG	5 cut(s)	550, 760, 821, 851, 1041
FriOI	GRGCYC	2 cut(s)	290, 928
Fsp4HI	GCNGC	4 cut(s)	311, 608, 843, 1096
GlaI	GCGC	1 cut(s)	407
GluI	GCNGC	4 cut(s)	311, 608, 843, 1096
HaeIII	GGCC	5 cut(s)	115, 386, 725, 907, 912
HapII	CCGG	2 cut(s)	102, 383
HgaI	GACGC	1 cut(s)	768
HhaI	GCGC	1 cut(s)	408
Hin1II	CATG	4 cut(s)	532, 730, 757, 878
Hin6I	GCGC	1 cut(s)	406
HinP1I	GCGC	1 cut(s)	406
HincII	GTYRAC	1 cut(s)	673
HindII	GTYRAC	1 cut(s)	673
HindIII	AAGCTT	1 cut(s)	67
HinfI	GANTC	2 cut(s)	774, 816
HpaII	CCGG	2 cut(s)	102, 383
HphI	GGTGA	7 cut(s)	198, 227, 355, 566, 652, 699, 931
Hpy166II	GTNNAC	4 cut(s)	363, 673, 783, 880
Hpy188I	TCNGA	6 cut(s)	15, 220, 292, 521, 838, 985
Hpy188III	TCNNGA	3 cut(s)	182, 266, 1015
Hpy8I	GTNNAC	4 cut(s)	363, 673, 783, 880
HpyAV	CCTTC	8 cut(s)	215, 546, 589, 623, 647, 747, 785, 880
HpyCH4III	ACNGT	4 cut(s)	81, 198, 862, 958
HpyCH4V	TGCA	7 cut(s)	297, 310, 352, 581, 771, 845, 964
HpyF10VI	GCNNNNNNNGC	2 cut(s)	294, 932
HpyF3I	CTNAG	6 cut(s)	289, 322, 518, 786, 837, 947
Hsp92II	CATG	4 cut(s)	532, 730, 757, 878
HspAI	GCGC	1 cut(s)	406
Kzo9I	GATC	3 cut(s)	521, 943, 1040
LmnI	GCTCC	1 cut(s)	604
Lsp1109I	GCAGC	3 cut(s)	322, 619, 829
LweI	GCATC	2 cut(s)	6, 572
MaeIII	GTNAC	4 cut(s)	175, 554, 817, 856
MalI	GATC	3 cut(s)	523, 945, 1042
MboI	GATC	3 cut(s)	521, 943, 1040
MboII	GAAGA	7 cut(s)	237, 369, 696, 705, 953, 972, 998
MflI	RGATCY	2 cut(s)	521, 943
MhlI	GDGCHC	2 cut(s)	290, 928
MlsI	TGGCCA	1 cut(s)	912
MluCI	AATT	2 cut(s)	144, 599
MluNI	TGGCCA	1 cut(s)	912
MlyI	GAGTC	1 cut(s)	825
Mox20I	TGGCCA	1 cut(s)	912
MscI	TGGCCA	1 cut(s)	912
MslI	CAYNNNNRTG	2 cut(s)	510, 731
Msp20I	TGGCCA	1 cut(s)	912
MspA1I	CMGCKG	1 cut(s)	1098
MspI	CCGG	2 cut(s)	102, 383
MspR9I	CCNGG	1 cut(s)	909
MvaI	CCWGG	1 cut(s)	909
MvnI	CGCG	1 cut(s)	779
MwoI	GCNNNNNNNGC	2 cut(s)	294, 932
NcoI	CCATGG	1 cut(s)	726
NdeII	GATC	3 cut(s)	521, 943, 1040
NlaIII	CATG	4 cut(s)	532, 730, 757, 878
NlaIV	GGNNCC	1 cut(s)	336
NmuCI	GTSAC	3 cut(s)	554, 817, 856
PceI	AGGCCT	1 cut(s)	907
PfeI	GAWTC	1 cut(s)	774
PinAI	ACCGGT	1 cut(s)	101
PkrI	GCNGC	4 cut(s)	312, 609, 844, 1097
PleI	GAGTC	1 cut(s)	824
PpsI	GAGTC	1 cut(s)	824
PpuMI	RGGWCCY	1 cut(s)	335
Psp124BI	GAGCTC	1 cut(s)	290
Psp5II	RGGWCCY	1 cut(s)	335
Psp6I	CCWGG	1 cut(s)	907
PspEI	GGTNACC	1 cut(s)	554
PspGI	CCWGG	1 cut(s)	907
PspN4I	GGNNCC	1 cut(s)	336
PspPI	GGNCC	2 cut(s)	335, 889
PspPPI	RGGWCCY	1 cut(s)	335
PstI	CTGCAG	2 cut(s)	354, 847
PstNI	CAGNNNCTG	2 cut(s)	257, 349
PsuI	RGATCY	2 cut(s)	521, 943
PvuII	CAGCTG	1 cut(s)	1098
RsaI	GTAC	3 cut(s)	106, 262, 1068
RsaNI	GTAC	3 cut(s)	105, 261, 1067
RseI	CAYNNNNRTG	2 cut(s)	510, 731
SacI	GAGCTC	1 cut(s)	290
SatI	GCNGC	4 cut(s)	311, 608, 843, 1096
Sau3AI	GATC	3 cut(s)	521, 943, 1040
Sau96I	GGNCC	2 cut(s)	335, 889
SchI	GAGTC	1 cut(s)	825
ScrFI	CCNGG	1 cut(s)	909
SduI	GDGCHC	2 cut(s)	290, 928
SfaNI	GCATC	2 cut(s)	6, 572
SfcI	CTRYAG	2 cut(s)	350, 843
SinI	GGWCC	2 cut(s)	335, 889
SmiMI	CAYNNNNRTG	2 cut(s)	510, 731
SmlI	CTYRAG	5 cut(s)	155, 164, 180, 266, 1013
SmoI	CTYRAG	5 cut(s)	155, 164, 180, 266, 1013
Sse9I	AATT	2 cut(s)	144, 599
SseBI	AGGCCT	1 cut(s)	907
SsiI	CCGC	1 cut(s)	484
SspI	AATATT	1 cut(s)	1077
SstI	GAGCTC	1 cut(s)	290
StuI	AGGCCT	1 cut(s)	907
StyD4I	CCNGG	1 cut(s)	907
StyI	CCWWGG	2 cut(s)	726, 936
TaaI	ACNGT	4 cut(s)	81, 198, 862, 958
TasI	AATT	2 cut(s)	144, 599
TatI	WGTACW	1 cut(s)	1066
TfiI	GAWTC	1 cut(s)	774
TscAI	CASTG	2 cut(s)	84, 899
TseFI	GTSAC	3 cut(s)	554, 817, 856
TseI	GCWGC	4 cut(s)	310, 607, 842, 1095
Tsp45I	GTSAC	3 cut(s)	554, 817, 856
TspDTI	ATGAA	5 cut(s)	512, 656, 705, 742, 1075
TspRI	CASTG	2 cut(s)	84, 899
VpaK11BI	GGWCC	2 cut(s)	335, 889
XapI	RAATTY	1 cut(s)	144
XmiI	GTMKAC	1 cut(s)	782

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