Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0002347

Physical Location & Seq

Genomic Coordinates Forward (+)

45659375 .. 45660749

Gene Structure 1375 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG407400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1068 bp

ATGGAGCTCAATGAACATAGTTTCTTAGAGGAGCTGTTAGCTCTTAGAAGAGACAGTTCATGGGAAACCATTCCCCCCGAAATGAATGAGTTCTTGTCTAGTAGCACCTGGAGTAGTTTAGATTACTTCGATAATCAAAACCCACCACCATTTTTCCCCCAGTCTTCTTCCGGCCAAGAATTGTCACCTCCATTTGAACCAAACTTGAACAACTACCACAACAATACCACTTTCAATGAAGTGTACTATCCCTTAGGCTCTGGTACTGACGAACTGCTCTCAGCTCCACAGGTCACCACTGATTCGTCTTACAACACACTCGGTGATACGCCGCCGTTTCCTGTTCAGGAAGACAACAATCCATGGTCCATGCTCGAAGAAGAAGAGCTGAGTTTACTTGGAGATGAAATACACAACTTGGAGACTCAGGCTGCTGCTTGTAAAGTGGAGCCGACTCAGTCCTCCTCCTCCCCTGAAGCAGCTCCTGTCTTCAACATGGGTATGTGTGTAGAAAGAAACAGCAGAACTAGCAAGAAGTTGCAGGGGCAGCCATCAAAGAATCTAATGGCTGAGAGAAGAAGAAGAAAGCGGTTAAATGACCGCCTTTCGATGCTAAGATCAATTGTTCCCAAGATAAGTAAGATGGACAGAACATCTATACTTGGAGACACCATAGATTACATGAAAGAACTCCTGGACAGAATCAACAACTTGCAGCATGAAATTGAAGAAAGTGGTTCAGATCAGTTGAATGTGATGAGACTTTTCAAGGATATGAAACCAAATGAAATGCTAGTGAGGAACTCACCCAAGTTTGATGTTCAAAGGAGGAATGTGGACACAAGGATTGAGATTTGCTGTGCAGGAAAGCCAGGGTTATTACTATCCACAGTTACTACCTTGGAAGCATTAGGCCTTGAGATTCAACAGTGTGTTATTAGCTGCTTTAATGATTTTGCAATGCAAGCTTCTTGTTCAGAGGGTTTGGATCAGAGAACACTAGTAACTTCTGAGGACATGAAGCAAGCACTGTTTAGAAATGCAGGATATGGAGGAAGGTGTTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

355

Amino Acids

40.17

Weight (kDa)

4.74

Isoelectric Point (pI)

65.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	189 - 231	7.2e-10	Helix-loop-helix DNA-binding domain
bHLH-TF_ACT-like_plant	PF22754	280 - 346	2.1e-07	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: OG0002347)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10570 AT5G65640 AT5G65640
fragaria_vesca	FvH4_1g18930 FvH4_1g18930 FvH4_1g18930 FvH4_5g33810 FvH4_5g33810 FvH4_5g33810
malus_domestica	MD01G1045500.v1.1 MD08G1207700.v1.1 MD15G1306400.v1.1 MD15G1392100.v1.1
prunus_persica	Prupe.1G540400_v2.0.a1 Prupe.6G210200_v2.0.a1
pyrus_communis	pycom01g07160 pycom08g17980 pycom15g27080 pycom15g35280
rosa_chinensis	RchiOBHm_Chr2g0109941 RchiOBHm_Chr7g0233161
rosa_laevigata	RLG00000001291 RLG00000017771
rosa_multiflora	Rmu_sc0002061.1_g000003 Rmu_sc0005173.1_g000020
rosa_roxburghii	Rroxscaffold_2G00133860 Rroxscaffold_3G00227590
rosa_rugosa	Rorug02G0164000 Rorug02G0164100 Rorug07G0279100 Rorug07G0279100 Rorug07G0279200
rosa_samantha	Rh2AG216000 Rh2BG226000 Rh2CG218200 Rh2DG221500 Rh7AG435000 Rh7BG407400 Rh7CG454000 Rh7DG422700
rosa_wichuraiana	Rw2G016680 Rw7G035780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	332, 589, 601
AclWI	GGATC	1 cut(s)	996
AcoI	YGGCCR	1 cut(s)	172
AcuI	CTGAAG	1 cut(s)	495
AdeI	CACNNNGTG	1 cut(s)	323
AfaI	GTAC	2 cut(s)	245, 265
AgsI	TTSAA	9 cut(s)	197, 208, 235, 493, 728, 751, 769, 824, 926
AhlI	ACTAGT	1 cut(s)	1000
AjnI	CCWGG	3 cut(s)	107, 693, 871
AluBI	AGCT	8 cut(s)	7, 34, 41, 284, 388, 482, 942, 968
AluI	AGCT	8 cut(s)	7, 34, 41, 284, 388, 482, 942, 968
Alw21I	GWGCWC	1 cut(s)	9
Alw26I	GTCTC	4 cut(s)	45, 416, 660, 754
AlwI	GGATC	1 cut(s)	996
AlwNI	CAGNNNCTG	1 cut(s)	485
AoxI	GGCC	2 cut(s)	172, 913
ApeKI	GCWGC	6 cut(s)	431, 434, 479, 547, 715, 942
Asp700I	GAANNNNTTC	2 cut(s)	69, 89
AspS9I	GGNCC	1 cut(s)	366
AsuHPI	GGTGA	4 cut(s)	177, 286, 335, 798
AvaII	GGWCC	1 cut(s)	366
AxyI	CCTNAGG	1 cut(s)	253
BanII	GRGCYC	1 cut(s)	9
BbsI	GAAGAC	3 cut(s)	156, 357, 481
Bbv12I	GWGCWC	1 cut(s)	9
BbvI	GCAGC	6 cut(s)	418, 421, 491, 559, 727, 929
BccI	CCATC	2 cut(s)	559, 637
BceAI	ACGGC	1 cut(s)	319
BciT130I	CCWGG	3 cut(s)	109, 695, 873
BcoDI	GTCTC	4 cut(s)	45, 416, 660, 754
BcuI	ACTAGT	1 cut(s)	1000
BfaI	CTAG	4 cut(s)	99, 528, 794, 1001
BisI	GCNGC	7 cut(s)	332, 432, 435, 480, 548, 716, 943
BlsI	GCNGC	7 cut(s)	333, 433, 436, 481, 549, 717, 944
Bme1390I	CCNGG	3 cut(s)	109, 695, 873
Bme18I	GGWCC	1 cut(s)	366
BmgT120I	GGNCC	1 cut(s)	366
BmiI	GGNNCC	1 cut(s)	450
BmrFI	CCNGG	3 cut(s)	109, 695, 873
BmrI	ACTGGG	1 cut(s)	154
BmsI	GCATC	1 cut(s)	600
BmuI	ACTGGG	1 cut(s)	154
BpiI	GAAGAC	3 cut(s)	156, 357, 481
BpmI	CTGGAG	1 cut(s)	130
BpuEI	CTTGAG	1 cut(s)	938
BsaJI	CCNNGG	3 cut(s)	362, 872, 900
Bse1I	ACTGG	1 cut(s)	160
Bse21I	CCTNAGG	1 cut(s)	253
Bse3DI	GCAATG	1 cut(s)	966
BseBI	CCWGG	3 cut(s)	109, 695, 873
BseDI	CCNNGG	3 cut(s)	362, 872, 900
BseMI	GCAATG	1 cut(s)	966
BseMII	CTCAG	6 cut(s)	294, 380, 440, 470, 561, 1002
BseNI	ACTGG	1 cut(s)	160
BseRI	GAGGAG	3 cut(s)	44, 454, 457
BseXI	GCAGC	6 cut(s)	418, 421, 491, 559, 727, 929
BsgI	GTGCAG	1 cut(s)	882
BshFI	GGCC	2 cut(s)	174, 915
BsiHKAI	GWGCWC	1 cut(s)	9
BsiSI	CCGG	1 cut(s)	171
BsmAI	GTCTC	4 cut(s)	45, 416, 660, 754
BsnI	GGCC	2 cut(s)	174, 915
Bsp1286I	GDGCHC	1 cut(s)	9
Bsp143I	GATC	3 cut(s)	617, 742, 988
Bsp19I	CCATGG	1 cut(s)	362
BspACI	CCGC	3 cut(s)	332, 589, 601
BspANI	GGCC	2 cut(s)	174, 915
BspCNI	CTCAG	6 cut(s)	293, 381, 439, 469, 562, 1003
BspLI	GGNNCC	1 cut(s)	450
BspPI	GGATC	1 cut(s)	996
BspQI	GCTCTTC	1 cut(s)	378
BsrDI	GCAATG	1 cut(s)	966
BsrI	ACTGG	1 cut(s)	160
BssECI	CCNNGG	3 cut(s)	362, 872, 900
BssMI	GATC	3 cut(s)	617, 742, 988
BssT1I	CCWWGG	2 cut(s)	362, 900
Bst2UI	CCWGG	3 cut(s)	109, 695, 873
Bst4CI	ACNGT	4 cut(s)	56, 892, 930, 1032
Bst6I	CTCTTC	2 cut(s)	43, 378
BstC8I	GCNNGC	2 cut(s)	966, 1026
BstDSI	CCRYGG	1 cut(s)	362
BstEII	GGTNACC	1 cut(s)	292
BstKTI	GATC	3 cut(s)	620, 745, 991
BstMAI	GTCTC	4 cut(s)	45, 416, 660, 754
BstMBI	GATC	3 cut(s)	617, 742, 988
BstMWI	GCNNNNNNNGC	3 cut(s)	528, 547, 965
BstNI	CCWGG	3 cut(s)	109, 695, 873
BstPI	GGTNACC	1 cut(s)	292
BstSCI	CCNGG	3 cut(s)	107, 693, 871
BstV1I	GCAGC	6 cut(s)	418, 421, 491, 559, 727, 929
BstV2I	GAAGAC	3 cut(s)	156, 357, 481
Bsu36I	CCTNAGG	1 cut(s)	253
BsuRI	GGCC	2 cut(s)	174, 915
BtgI	CCRYGG	1 cut(s)	362
BtsIMutI	CAGTG	3 cut(s)	297, 935, 1028
Cac8I	GCNNGC	2 cut(s)	966, 1026
CaiI	CAGNNNCTG	1 cut(s)	485
Cfr13I	GGNCC	1 cut(s)	366
Csp6I	GTAC	2 cut(s)	244, 264
CviAII	CATG	7 cut(s)	60, 363, 370, 496, 682, 719, 1018
CviQI	GTAC	2 cut(s)	244, 264
DpnI	GATC	3 cut(s)	619, 744, 990
DpnII	GATC	3 cut(s)	617, 742, 988
DraIII	CACNNNGTG	1 cut(s)	323
EaeI	YGGCCR	1 cut(s)	172
Eam1104I	CTCTTC	2 cut(s)	43, 378
EarI	CTCTTC	2 cut(s)	43, 378
Ecl136II	GAGCTC	1 cut(s)	7
Eco130I	CCWWGG	2 cut(s)	362, 900
Eco147I	AGGCCT	1 cut(s)	915
Eco24I	GRGCYC	1 cut(s)	9
Eco47I	GGWCC	1 cut(s)	366
Eco53kI	GAGCTC	1 cut(s)	7
Eco57I	CTGAAG	1 cut(s)	495
Eco81I	CCTNAGG	1 cut(s)	253
Eco91I	GGTNACC	1 cut(s)	292
EcoICRI	GAGCTC	1 cut(s)	7
EcoO65I	GGTNACC	1 cut(s)	292
EcoRII	CCWGG	3 cut(s)	107, 693, 871
EcoT14I	CCWWGG	2 cut(s)	362, 900
EcoT38I	GRGCYC	1 cut(s)	9
ErhI	CCWWGG	2 cut(s)	362, 900
FaeI	CATG	7 cut(s)	63, 366, 373, 499, 685, 722, 1021
FatI	CATG	7 cut(s)	59, 362, 369, 495, 681, 718, 1017
Fnu4HI	GCNGC	7 cut(s)	332, 432, 435, 480, 548, 716, 943
FriOI	GRGCYC	1 cut(s)	9
Fsp4HI	GCNGC	7 cut(s)	332, 432, 435, 480, 548, 716, 943
FspBI	CTAG	4 cut(s)	99, 528, 794, 1001
GluI	GCNGC	7 cut(s)	332, 432, 435, 480, 548, 716, 943
GsuI	CTGGAG	1 cut(s)	130
HaeIII	GGCC	2 cut(s)	174, 915
HapII	CCGG	1 cut(s)	171
Hin1II	CATG	7 cut(s)	63, 366, 373, 499, 685, 722, 1021
HindIII	AAGCTT	1 cut(s)	966
HinfI	GANTC	6 cut(s)	302, 424, 454, 559, 702, 922
HpaII	CCGG	1 cut(s)	171
HphI	GGTGA	4 cut(s)	177, 286, 335, 798
Hpy166II	GTNNAC	3 cut(s)	244, 395, 838
Hpy188I	TCNGA	4 cut(s)	742, 979, 993, 1012
Hpy188III	TCNNGA	1 cut(s)	347
Hpy8I	GTNNAC	3 cut(s)	244, 395, 838
HpyAV	CCTTC	1 cut(s)	1050
HpyCH4III	ACNGT	4 cut(s)	56, 892, 930, 1032
HpyCH4V	TGCA	6 cut(s)	541, 715, 863, 959, 964, 1043
HpyF10VI	GCNNNNNNNGC	3 cut(s)	528, 547, 965
Hsp92II	CATG	7 cut(s)	63, 366, 373, 499, 685, 722, 1021
Kzo9I	GATC	3 cut(s)	617, 742, 988
LguI	GCTCTTC	1 cut(s)	378
LmnI	GCTCC	5 cut(s)	4, 31, 289, 448, 487
Lsp1109I	GCAGC	6 cut(s)	418, 421, 491, 559, 727, 929
LweI	GCATC	1 cut(s)	600
MaeI	CTAG	4 cut(s)	99, 528, 794, 1001
MaeIII	GTNAC	4 cut(s)	183, 292, 892, 1003
MalI	GATC	3 cut(s)	619, 744, 990
MboI	GATC	3 cut(s)	617, 742, 988
MfeI	CAATTG	1 cut(s)	621
MhlI	GDGCHC	1 cut(s)	9
MluCI	AATT	3 cut(s)	179, 621, 723
MlyI	GAGTC	2 cut(s)	418, 448
MroXI	GAANNNNTTC	2 cut(s)	69, 89
MseI	TTAA	2 cut(s)	593, 948
MslI	CAYNNNNRTG	1 cut(s)	500
MspI	CCGG	1 cut(s)	171
MspR9I	CCNGG	3 cut(s)	109, 695, 873
MunI	CAATTG	1 cut(s)	621
MvaI	CCWGG	3 cut(s)	109, 695, 873
MwoI	GCNNNNNNNGC	3 cut(s)	528, 547, 965
NcoI	CCATGG	1 cut(s)	362
NdeII	GATC	3 cut(s)	617, 742, 988
NlaIII	CATG	7 cut(s)	63, 366, 373, 499, 685, 722, 1021
NlaIV	GGNNCC	1 cut(s)	450
NmuCI	GTSAC	2 cut(s)	183, 292
PceI	AGGCCT	1 cut(s)	915
PciSI	GCTCTTC	1 cut(s)	378
PdmI	GAANNNNTTC	2 cut(s)	69, 89
PfeI	GAWTC	4 cut(s)	302, 559, 702, 922
PflFI	GACNNNGTC	1 cut(s)	457
PfoI	TCCNGGA	1 cut(s)	693
PkrI	GCNGC	7 cut(s)	333, 433, 436, 481, 549, 717, 944
PleI	GAGTC	2 cut(s)	418, 448
PpsI	GAGTC	2 cut(s)	418, 448
Psp124BI	GAGCTC	1 cut(s)	9
Psp6I	CCWGG	3 cut(s)	107, 693, 871
PspEI	GGTNACC	1 cut(s)	292
PspGI	CCWGG	3 cut(s)	107, 693, 871
PspN4I	GGNNCC	1 cut(s)	450
PspPI	GGNCC	1 cut(s)	366
PstNI	CAGNNNCTG	1 cut(s)	485
PsyI	GACNNNGTC	1 cut(s)	457
RsaI	GTAC	2 cut(s)	245, 265
RsaNI	GTAC	2 cut(s)	244, 264
RseI	CAYNNNNRTG	1 cut(s)	500
SacI	GAGCTC	1 cut(s)	9
SapI	GCTCTTC	1 cut(s)	378
SaqAI	TTAA	2 cut(s)	593, 948
SatI	GCNGC	7 cut(s)	332, 432, 435, 480, 548, 716, 943
Sau3AI	GATC	3 cut(s)	617, 742, 988
Sau96I	GGNCC	1 cut(s)	366
SchI	GAGTC	2 cut(s)	418, 448
ScrFI	CCNGG	3 cut(s)	109, 695, 873
SduI	GDGCHC	1 cut(s)	9
SfaNI	GCATC	1 cut(s)	600
SinI	GGWCC	1 cut(s)	366
SmiMI	CAYNNNNRTG	1 cut(s)	500
SmlI	CTYRAG	1 cut(s)	917
SmoI	CTYRAG	1 cut(s)	917
SpeI	ACTAGT	1 cut(s)	1000
Sse9I	AATT	3 cut(s)	179, 621, 723
SseBI	AGGCCT	1 cut(s)	915
SsiI	CCGC	3 cut(s)	332, 589, 601
SspMI	CTAG	4 cut(s)	99, 528, 794, 1001
SstI	GAGCTC	1 cut(s)	9
StuI	AGGCCT	1 cut(s)	915
StyD4I	CCNGG	3 cut(s)	107, 693, 871
StyI	CCWWGG	2 cut(s)	362, 900
TaaI	ACNGT	4 cut(s)	56, 892, 930, 1032
TaqI	TCGA	3 cut(s)	129, 375, 608
TasI	AATT	3 cut(s)	179, 621, 723
TatI	WGTACW	1 cut(s)	243
TauI	GCSGC	1 cut(s)	334
TfiI	GAWTC	4 cut(s)	302, 559, 702, 922
Tru1I	TTAA	2 cut(s)	593, 948
Tru9I	TTAA	2 cut(s)	593, 948
TscAI	CASTG	3 cut(s)	304, 935, 1035
TseFI	GTSAC	2 cut(s)	183, 292
TseI	GCWGC	6 cut(s)	431, 434, 479, 547, 715, 942
Tsp45I	GTSAC	2 cut(s)	183, 292
TspRI	CASTG	3 cut(s)	304, 935, 1035
Tth111I	GACNNNGTC	1 cut(s)	457
VpaK11BI	GGWCC	1 cut(s)	366
XmnI	GAANNNNTTC	2 cut(s)	69, 89
XspI	CTAG	4 cut(s)	99, 528, 794, 1001

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