Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0004976

Physical Location & Seq

Genomic Coordinates Forward (+)

26239244 .. 26243214

Gene Structure 3971 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG267100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 615 bp

ATGCTTCCAAATCTCAATCAACCCCAAATTCGTAAATTTCAGGTCAAGGTATCAATGAAAAAGAGCAAAATTGAAGCTAAGGAAGATGCTGACAAGATTCCCTATGTTCACGTTCGAGCTCGCCGGGGTCAAGCTACAGATAGCCATAGCTTAGCAGAGCGAGCGAGGAGAGAGAAAATTAATGCGAGGATGAAGTTGCTACAGGAGCTGGTCCCAGGATGCAATAAGATTTCAGGTACCGCCTTAGTTCTAGATGAAATCATCAATCATGTGCAGTCCCTACAACGTCAAGTTGAGTTCTTATCGATGAGACTTGCGACAGTCGACCCAAGAATTGATAGCAACCTTGATCATTTATTGGCCACTGAAAGTATAGCTCTAATGCAAAGTAACTTCTCCAATATGGCTCCACCCATTATGTGGCCAGAACTTCCCATCAATGGGAACAGACAACAGTATCAACAGCAATGGCATTTTGATGCTCTTCATCAGCCAGGTTGGGGGAGGGAAGAAGATAATCATATTTTCATTACTCCAGAGGCCTCACTCATCAGTTGCAACCCTTCGGCAAATTCAGCATCTCTGCACACAGGTCACGTGAAGACGGAGCTGTGA

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

204

Amino Acids

23.2

Weight (kDa)

8.59

Isoelectric Point (pI)

46.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	48 - 95	1.2e-06	Helix-loop-helix DNA-binding domain
bHLH_SAC51	PF23173	53 - 98	1.4e-07	Transcription factor SAC51 bHLH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0004976)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42300 AT2G42300 AT2G42300 AT2G42300 AT2G42300 AT3G57800 AT3G57800
fragaria_vesca	FvH4_6g22930 FvH4_6g22930 FvH4_6g22930 FvH4_6g22930 FvH4_6g22930
malus_domestica	MD12G1063900.v1.1 MD12G1064000.v1.1 MD14G1064200.v1.1
prunus_persica	Prupe.7G070200_v2.0.a1
pyrus_communis	pycom12g05580 pycom14g05190
rosa_chinensis	RchiOBHm_Chr3g0480751
rosa_laevigata	RLG00000023457
rosa_multiflora	Rmu_sc0003902.1_g000017
rosa_roxburghii	Rroxscaffold_6G00401100
rosa_rugosa	Rorug03G0185300 Rorug03G0185300
rosa_samantha	Rh3AG237400 Rh3BG270900 Rh3CG267000 Rh3CG267100 Rh3DG263000
rosa_wichuraiana	Rw3G021270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	236
AccB1I	GGYRCC	1 cut(s)	236
AccB7I	CCANNNNNTGG	1 cut(s)	420
AccI	GTMKAC	1 cut(s)	324
AciI	CCGC	1 cut(s)	240
AcoI	YGGCCR	2 cut(s)	360, 422
AcsI	RAATTY	3 cut(s)	27, 35, 571
AcvI	CACGTG	1 cut(s)	598
AfaI	GTAC	1 cut(s)	238
AfiI	CCNNNNNNNGG	4 cut(s)	420, 440, 441, 500
AgsI	TTSAA	1 cut(s)	74
AjnI	CCWGG	2 cut(s)	214, 493
AluBI	AGCT	7 cut(s)	77, 119, 134, 150, 208, 377, 610
AluI	AGCT	7 cut(s)	77, 119, 134, 150, 208, 377, 610
Alw21I	GWGCWC	1 cut(s)	121
Alw26I	GTCTC	1 cut(s)	304
AlwNI	CAGNNNCTG	1 cut(s)	208
AoxI	GGCC	3 cut(s)	360, 422, 540
ApoI	RAATTY	3 cut(s)	27, 35, 571
AseI	ATTAAT	1 cut(s)	180
Asp718I	GGTACC	1 cut(s)	236
AspS9I	GGNCC	1 cut(s)	211
AsuC2I	CCSGG	1 cut(s)	125
AvaII	GGWCC	1 cut(s)	211
BaeI	ACNNNNGTAYC	2 cut(s)	440, 473
BalI	TGGCCA	2 cut(s)	362, 424
BanI	GGYRCC	1 cut(s)	236
BanII	GRGCYC	1 cut(s)	121
BbrPI	CACGTG	1 cut(s)	598
BbsI	GAAGAC	1 cut(s)	608
Bbv12I	GWGCWC	1 cut(s)	121
BccI	CCATC	1 cut(s)	443
BciT130I	CCWGG	2 cut(s)	216, 495
BclI	TGATCA	1 cut(s)	349
BcnI	CCSGG	1 cut(s)	125
BcoDI	GTCTC	1 cut(s)	304
BfaI	CTAG	1 cut(s)	251
BfmI	CTRYAG	2 cut(s)	135, 200
BlpI	GCTNAGC	1 cut(s)	151
Bme1390I	CCNGG	3 cut(s)	125, 216, 495
Bme18I	GGWCC	1 cut(s)	211
BmgT120I	GGNCC	1 cut(s)	211
BmiI	GGNNCC	3 cut(s)	213, 238, 408
BmrFI	CCNGG	3 cut(s)	125, 216, 495
BmsI	GCATC	4 cut(s)	76, 209, 469, 587
BpiI	GAAGAC	1 cut(s)	608
BpmI	CTGGAG	1 cut(s)	519
Bpu10I	CCTNAGC	1 cut(s)	78
Bpu1102I	GCTNAGC	1 cut(s)	151
BpuMI	CCSGG	1 cut(s)	125
Bsa29I	ATCGAT	1 cut(s)	305
BsaAI	YACGTR	1 cut(s)	598
BsaJI	CCNNGG	2 cut(s)	124, 214
Bsc4I	CCNNNNNNNGG	4 cut(s)	420, 440, 441, 500
Bse3DI	GCAATG	1 cut(s)	473
BseBI	CCWGG	2 cut(s)	216, 495
BseCI	ATCGAT	1 cut(s)	305
BseDI	CCNNGG	2 cut(s)	124, 214
BseGI	GGATG	2 cut(s)	195, 224
BseLI	CCNNNNNNNGG	4 cut(s)	420, 440, 441, 500
BseMI	GCAATG	1 cut(s)	473
BseRI	GAGGAG	1 cut(s)	181
BsgI	GTGCAG	2 cut(s)	293, 569
BshFI	GGCC	3 cut(s)	362, 424, 542
BshNI	GGYRCC	1 cut(s)	236
BshVI	ATCGAT	1 cut(s)	305
BsiHKAI	GWGCWC	1 cut(s)	121
BsiSI	CCGG	1 cut(s)	124
BslFI	GGGAC	2 cut(s)	197, 262
BslI	CCNNNNNNNGG	4 cut(s)	420, 440, 441, 500
BsmAI	GTCTC	1 cut(s)	304
BsmFI	GGGAC	2 cut(s)	197, 262
BsnI	GGCC	3 cut(s)	362, 424, 542
Bsp1286I	GDGCHC	1 cut(s)	121
Bsp143I	GATC	1 cut(s)	349
Bsp1720I	GCTNAGC	1 cut(s)	151
BspACI	CCGC	1 cut(s)	240
BspANI	GGCC	3 cut(s)	362, 424, 542
BspDI	ATCGAT	1 cut(s)	305
BspLI	GGNNCC	3 cut(s)	213, 238, 408
BspQI	GCTCTTC	1 cut(s)	489
BspT107I	GGYRCC	1 cut(s)	236
BsrDI	GCAATG	1 cut(s)	473
BssECI	CCNNGG	2 cut(s)	124, 214
BssMI	GATC	1 cut(s)	349
Bst2UI	CCWGG	2 cut(s)	216, 495
Bst4CI	ACNGT	2 cut(s)	322, 456
Bst6I	CTCTTC	1 cut(s)	489
BstBAI	YACGTR	1 cut(s)	598
BstC8I	GCNNGC	2 cut(s)	121, 162
BstDEI	CTNAG	3 cut(s)	78, 151, 244
BstF5I	GGATG	2 cut(s)	195, 224
BstKTI	GATC	1 cut(s)	352
BstMAI	GTCTC	1 cut(s)	304
BstMBI	GATC	1 cut(s)	349
BstMWI	GCNNNNNNNGC	3 cut(s)	161, 205, 575
BstNI	CCWGG	2 cut(s)	216, 495
BstSCI	CCNGG	3 cut(s)	123, 214, 493
BstSFI	CTRYAG	2 cut(s)	135, 200
BstV2I	GAAGAC	1 cut(s)	608
Bsu15I	ATCGAT	1 cut(s)	305
BsuRI	GGCC	3 cut(s)	362, 424, 542
BsuTUI	ATCGAT	1 cut(s)	305
BtsCI	GGATG	2 cut(s)	195, 224
BtsIMutI	CAGTG	1 cut(s)	363
Cac8I	GCNNGC	2 cut(s)	121, 162
CaiI	CAGNNNCTG	1 cut(s)	208
Cfr13I	GGNCC	1 cut(s)	211
ClaI	ATCGAT	1 cut(s)	305
Csp6I	GTAC	1 cut(s)	237
CviAII	CATG	1 cut(s)	269
CviQI	GTAC	1 cut(s)	237
DdeI	CTNAG	3 cut(s)	78, 151, 244
DpnI	GATC	1 cut(s)	351
DpnII	GATC	1 cut(s)	349
EaeI	YGGCCR	2 cut(s)	360, 422
Eam1104I	CTCTTC	1 cut(s)	489
EarI	CTCTTC	1 cut(s)	489
Ecl136II	GAGCTC	1 cut(s)	119
Eco147I	AGGCCT	1 cut(s)	542
Eco24I	GRGCYC	1 cut(s)	121
Eco47I	GGWCC	1 cut(s)	211
Eco53kI	GAGCTC	1 cut(s)	119
Eco72I	CACGTG	1 cut(s)	598
EcoICRI	GAGCTC	1 cut(s)	119
EcoRII	CCWGG	2 cut(s)	214, 493
EcoT38I	GRGCYC	1 cut(s)	121
FaeI	CATG	1 cut(s)	272
FaiI	YATR	7 cut(s)	105, 147, 270, 374, 404, 419, 522
FaqI	GGGAC	2 cut(s)	197, 262
FatI	CATG	1 cut(s)	268
FbaI	TGATCA	1 cut(s)	349
FblI	GTMKAC	1 cut(s)	324
FokI	GGATG	2 cut(s)	202, 231
FriOI	GRGCYC	1 cut(s)	121
FspBI	CTAG	1 cut(s)	251
GsuI	CTGGAG	1 cut(s)	519
HaeIII	GGCC	3 cut(s)	362, 424, 542
HapII	CCGG	1 cut(s)	124
Hin1II	CATG	1 cut(s)	272
HincII	GTYRAC	1 cut(s)	325
HindII	GTYRAC	1 cut(s)	325
HinfI	GANTC	1 cut(s)	97
HpaII	CCGG	1 cut(s)	124
Hpy166II	GTNNAC	2 cut(s)	109, 325
Hpy188III	TCNNGA	2 cut(s)	251, 536
Hpy8I	GTNNAC	2 cut(s)	109, 325
HpyAV	CCTTC	1 cut(s)	573
HpyCH4III	ACNGT	2 cut(s)	322, 456
HpyCH4IV	ACGT	3 cut(s)	111, 286, 597
HpyCH4V	TGCA	5 cut(s)	222, 274, 385, 558, 586
HpyF10VI	GCNNNNNNNGC	3 cut(s)	161, 205, 575
HpyF3I	CTNAG	3 cut(s)	78, 151, 244
HpySE526I	ACGT	3 cut(s)	111, 286, 597
Hsp92II	CATG	1 cut(s)	272
KpnI	GGTACC	1 cut(s)	240
Ksp22I	TGATCA	1 cut(s)	349
Kzo9I	GATC	1 cut(s)	349
LguI	GCTCTTC	1 cut(s)	489
LmnI	GCTCC	3 cut(s)	205, 412, 607
LweI	GCATC	4 cut(s)	76, 209, 469, 587
MaeI	CTAG	1 cut(s)	251
MaeII	ACGT	3 cut(s)	111, 286, 597
MaeIII	GTNAC	2 cut(s)	389, 593
MalI	GATC	1 cut(s)	351
MboI	GATC	1 cut(s)	349
MboII	GAAGA	5 cut(s)	95, 476, 521, 524, 613
MhlI	GDGCHC	1 cut(s)	121
MlsI	TGGCCA	2 cut(s)	362, 424
MluCI	AATT	6 cut(s)	27, 35, 69, 177, 333, 571
MluNI	TGGCCA	2 cut(s)	362, 424
MnlI	CCTC	5 cut(s)	159, 180, 498, 532, 553
Mox20I	TGGCCA	2 cut(s)	362, 424
MscI	TGGCCA	2 cut(s)	362, 424
MseI	TTAA	1 cut(s)	180
MslI	CAYNNNNRTG	1 cut(s)	477
Msp20I	TGGCCA	2 cut(s)	362, 424
MspI	CCGG	1 cut(s)	124
MspR9I	CCNGG	3 cut(s)	125, 216, 495
MvaI	CCWGG	2 cut(s)	216, 495
MwoI	GCNNNNNNNGC	3 cut(s)	161, 205, 575
NciI	CCSGG	1 cut(s)	125
NdeII	GATC	1 cut(s)	349
NlaIII	CATG	1 cut(s)	272
NlaIV	GGNNCC	3 cut(s)	213, 238, 408
NmuCI	GTSAC	1 cut(s)	593
PceI	AGGCCT	1 cut(s)	542
PciSI	GCTCTTC	1 cut(s)	489
PfeI	GAWTC	1 cut(s)	97
PflMI	CCANNNNNTGG	1 cut(s)	420
PmaCI	CACGTG	1 cut(s)	598
PmlI	CACGTG	1 cut(s)	598
Ppu21I	YACGTR	1 cut(s)	598
PshBI	ATTAAT	1 cut(s)	180
Psp124BI	GAGCTC	1 cut(s)	121
Psp6I	CCWGG	2 cut(s)	214, 493
PspCI	CACGTG	1 cut(s)	598
PspGI	CCWGG	2 cut(s)	214, 493
PspN4I	GGNNCC	3 cut(s)	213, 238, 408
PspPI	GGNCC	1 cut(s)	211
PstNI	CAGNNNCTG	1 cut(s)	208
RsaI	GTAC	1 cut(s)	238
RsaNI	GTAC	1 cut(s)	237
RseI	CAYNNNNRTG	1 cut(s)	477
SacI	GAGCTC	1 cut(s)	121
SalI	GTCGAC	1 cut(s)	323
SapI	GCTCTTC	1 cut(s)	489
SaqAI	TTAA	1 cut(s)	180
Sau3AI	GATC	1 cut(s)	349
Sau96I	GGNCC	1 cut(s)	211
ScrFI	CCNGG	3 cut(s)	125, 216, 495
SduI	GDGCHC	1 cut(s)	121
SfaNI	GCATC	4 cut(s)	76, 209, 469, 587
SfcI	CTRYAG	2 cut(s)	135, 200
SinI	GGWCC	1 cut(s)	211
SmiMI	CAYNNNNRTG	1 cut(s)	477
Sse9I	AATT	6 cut(s)	27, 35, 69, 177, 333, 571
SseBI	AGGCCT	1 cut(s)	542
SsiI	CCGC	1 cut(s)	240
SspMI	CTAG	1 cut(s)	251
SstI	GAGCTC	1 cut(s)	121
StuI	AGGCCT	1 cut(s)	542
StyD4I	CCNGG	3 cut(s)	123, 214, 493
TaaI	ACNGT	2 cut(s)	322, 456
TaiI	ACGT	3 cut(s)	114, 289, 600
TaqI	TCGA	3 cut(s)	115, 305, 324
TasI	AATT	6 cut(s)	27, 35, 69, 177, 333, 571
TfiI	GAWTC	1 cut(s)	97
Tru1I	TTAA	1 cut(s)	180
Tru9I	TTAA	1 cut(s)	180
TscAI	CASTG	1 cut(s)	370
TseFI	GTSAC	1 cut(s)	593
Tsp45I	GTSAC	1 cut(s)	593
TspDTI	ATGAA	5 cut(s)	71, 206, 270, 476, 517
TspRI	CASTG	1 cut(s)	370
Van91I	CCANNNNNTGG	1 cut(s)	420
VpaK11BI	GGWCC	1 cut(s)	211
VspI	ATTAAT	1 cut(s)	180
XapI	RAATTY	3 cut(s)	27, 35, 571
XbaI	TCTAGA	1 cut(s)	250
XcmI	CCANNNNNNNNNTGG	1 cut(s)	417
XmiI	GTMKAC	1 cut(s)	324
XspI	CTAG	1 cut(s)	251

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