Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002571

Physical Location & Seq

Genomic Coordinates Forward (+)

5688969 .. 5692277

Gene Structure 3309 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG073100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 909 bp

ATGGGACAGCTTTCGCATAAGAGGAAGGTGACAGTTCAGGAGTTCAAGGGGAAACCATTGGTGTCGTTGAGGGAGTTTTTTACTAAAGAAGGCAAGGGGCTCCCTACTTCTAAAGAATGTATGCAGGGTTTGACTCCTATAATGTGTTTGAGAAAATCTAAAAATGGAATACTGTTTTTGGTGGTGGAGTATTATTTCAGTGATCTGAACTTAGCTACTACTGATCATCTTATGAGGTTCATAAACAAAGACCCTGAAGGATTTGTGCCAATATCTGTTGTTGCATCTTTCAAGAAGATTAAGGCCCTCGGAAATGCTTCCTCTGGCATGGGTGTTGCTGAGGACTGCTGCAATACATTCTTGGAACTGCAGAGAAAGAAGGCCTTTCGCTATGTGATTTTTAAGATTGATGAGAAGAAGAAAGAGGTTGTGGTAGAAAAGACTGGAGGCCCAGCTGAAAGTTATGATGATTTCACTGGTTCATTGCCTGAAAATGATTGCCGATATGCAATCTATGACTTTGATTTTGTCACTTCAGAGAATTGCCAGAAGAGCAAGATCTTCTTCATTGCATGGTTTGTTTCTTTTGAAAAGATCAGCCAGAGGATGAAAATTCTTCAGGACTTGGTTCCTGTATGTAATAAGGTTATTGGGAAATCACTTGTTGTTGATGAGATTATTAATTACATCCAGTCACTGCAGCGCCAAGTCGAGTTCCTTTCGTTGAACCTTGAAGCAGTCAATTCAAGGGTGAACATGAATCCCGCCATTGAAGTGTTTCCTTCAAAAGATCAATTTGATGCAGCTGCGTTGTTATTTGGACCACACACACCAAGGGAGTATGTGCAGGGCTCGCAAGCCGAATGGCTGCATATGCAGGTTGGTGGTAGCTTTGAAAGAACAACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043565 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

302

Amino Acids

34.28

Weight (kDa)

8.35

Isoelectric Point (pI)

31.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PC4	PF02229	3 - 38	9.6e-11	Transcriptional Coactivator p15 (PC4)
La	PF05383	62 - 105	2.1e-16	La domain
Cofilin_ADF	PF00241	109 - 205	5.3e-22	Cofilin/tropomyosin-type actin-binding protein

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: OG0002571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G62610 AT5G62610
fragaria_vesca	FvH4_5g15930 FvH4_5g15930 FvH4_5g15930
malus_domestica	MD06G1184400.v1.1 MD14G1190300.v1.1
prunus_persica	Prupe.5G183200_v2.0.a1 Prupe.5G183200_v2.0.a1 Prupe.5G183200_v2.0.a1 Prupe.5G183200_v2.0.a1 Prupe.5G183200_v2.0.a1
pyrus_communis	pycom02g03530 pycom06g16360 pycom14g15800 pycom15g07880
rosa_chinensis	RchiOBHm_Chr3g0480001 RchiOBHm_Chr4g0403251 RchiOBHm_Chr4g0405511 RchiOBHm_Chr5g0004951 RchiOBHm_Chr7g0180121
rosa_laevigata	RLG00000005291 RLG00000033379
rosa_multiflora	Rmu_co8134850.1_g000001 Rmu_ssc0000119.1_g000035
rosa_roxburghii	Rroxscaffold_3G00273110 Rroxscaffold_5G00374410
rosa_rugosa	Rorug03G0058400 Rorug03G0171100 Rorug06G0430700
rosa_samantha	Rh1CG130200 Rh3AG295000 Rh3CG073100 Rh7AG031200 Rh7BG031100 Rh7DG031700 Rh7DG200500
rosa_wichuraiana	Rw0G012070 Rw4G009590 Rw7G002590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	868
AciI	CCGC	1 cut(s)	765
AcsI	RAATTY	1 cut(s)	612
AcuI	CTGAAG	3 cut(s)	276, 519, 602
AgsI	TTSAA	9 cut(s)	46, 292, 590, 727, 734, 747, 773, 786, 896
AluBI	AGCT	5 cut(s)	10, 215, 455, 806, 891
AluI	AGCT	5 cut(s)	10, 215, 455, 806, 891
AlwNI	CAGNNNCTG	1 cut(s)	697
AoxI	GGCC	3 cut(s)	303, 381, 448
ApeKI	GCWGC	5 cut(s)	348, 700, 803, 806, 868
ApoI	RAATTY	1 cut(s)	612
ArsI	GACNNNNNNTTYG	2 cut(s)	509, 541
AseI	ATTAAT	1 cut(s)	681
Asp700I	GAANNNNTTC	2 cut(s)	316, 777
AspLEI	GCGC	1 cut(s)	705
AspS9I	GGNCC	3 cut(s)	304, 449, 821
AsuHPI	GGTGA	2 cut(s)	40, 763
AvaII	GGWCC	1 cut(s)	821
BanII	GRGCYC	2 cut(s)	102, 854
BbvCI	CCTCAGC	1 cut(s)	339
BbvI	GCAGC	5 cut(s)	335, 712, 793, 815, 855
BclI	TGATCA	1 cut(s)	223
BfmI	CTRYAG	2 cut(s)	368, 698
BfoI	RGCGCY	1 cut(s)	706
BfuAI	ACCTGC	1 cut(s)	868
BglII	AGATCT	1 cut(s)	558
BisI	GCNGC	5 cut(s)	349, 701, 804, 807, 869
BlsI	GCNGC	5 cut(s)	350, 702, 805, 808, 870
Bme18I	GGWCC	1 cut(s)	821
BmgT120I	GGNCC	3 cut(s)	304, 449, 821
BmiI	GGNNCC	2 cut(s)	101, 630
BmsI	GCATC	2 cut(s)	293, 790
BpmI	CTGGAG	1 cut(s)	465
Bpu10I	CCTNAGC	1 cut(s)	339
BsaJI	CCNNGG	2 cut(s)	307, 833
Bse1I	ACTGG	3 cut(s)	448, 481, 691
Bse3DI	GCAATG	2 cut(s)	482, 567
BseDI	CCNNGG	2 cut(s)	307, 833
BseGI	GGATG	2 cut(s)	612, 687
BseMI	GCAATG	2 cut(s)	482, 567
BseMII	CTCAG	1 cut(s)	330
BseNI	ACTGG	3 cut(s)	448, 481, 691
BseXI	GCAGC	5 cut(s)	335, 712, 793, 815, 855
BseYI	CCCAGC	1 cut(s)	451
BsgI	GTGCAG	1 cut(s)	866
BshFI	GGCC	3 cut(s)	305, 383, 450
BslFI	GGGAC	1 cut(s)	18
BsmFI	GGGAC	1 cut(s)	18
BsnI	GGCC	3 cut(s)	305, 383, 450
Bsp1286I	GDGCHC	2 cut(s)	102, 854
Bsp143I	GATC	5 cut(s)	202, 223, 558, 594, 790
BspACI	CCGC	1 cut(s)	765
BspANI	GGCC	3 cut(s)	305, 383, 450
BspCNI	CTCAG	1 cut(s)	331
BspLI	GGNNCC	2 cut(s)	101, 630
BspMAI	CTGCAG	2 cut(s)	372, 702
BspMI	ACCTGC	1 cut(s)	868
BspQI	GCTCTTC	1 cut(s)	545
BsrDI	GCAATG	2 cut(s)	482, 567
BsrI	ACTGG	3 cut(s)	448, 481, 691
BssECI	CCNNGG	2 cut(s)	307, 833
BssMI	GATC	5 cut(s)	202, 223, 558, 594, 790
BssT1I	CCWWGG	1 cut(s)	833
Bst4CI	ACNGT	2 cut(s)	34, 174
Bst6I	CTCTTC	1 cut(s)	545
BstC8I	GCNNGC	2 cut(s)	854, 858
BstDEI	CTNAG	2 cut(s)	211, 339
BstF5I	GGATG	2 cut(s)	612, 687
BstH2I	RGCGCY	1 cut(s)	706
BstHHI	GCGC	1 cut(s)	705
BstKTI	GATC	5 cut(s)	205, 226, 561, 597, 793
BstMBI	GATC	5 cut(s)	202, 223, 558, 594, 790
BstMWI	GCNNNNNNNGC	3 cut(s)	552, 853, 874
BstSFI	CTRYAG	2 cut(s)	368, 698
BstV1I	GCAGC	5 cut(s)	335, 712, 793, 815, 855
BstX2I	RGATCY	1 cut(s)	558
BstYI	RGATCY	1 cut(s)	558
BsuRI	GGCC	3 cut(s)	305, 383, 450
BtsCI	GGATG	2 cut(s)	612, 687
BtsI	GCAGTG	1 cut(s)	695
BtsIMutI	CAGTG	3 cut(s)	205, 474, 695
BveI	ACCTGC	1 cut(s)	868
Cac8I	GCNNGC	2 cut(s)	854, 858
CaiI	CAGNNNCTG	1 cut(s)	697
CfoI	GCGC	1 cut(s)	705
Cfr13I	GGNCC	3 cut(s)	304, 449, 821
CviAII	CATG	3 cut(s)	328, 573, 757
DdeI	CTNAG	2 cut(s)	211, 339
DpnI	GATC	5 cut(s)	204, 225, 560, 596, 792
DpnII	GATC	5 cut(s)	202, 223, 558, 594, 790
Eam1104I	CTCTTC	1 cut(s)	545
EarI	CTCTTC	1 cut(s)	545
Eco130I	CCWWGG	1 cut(s)	833
Eco147I	AGGCCT	1 cut(s)	383
Eco24I	GRGCYC	2 cut(s)	102, 854
Eco47I	GGWCC	1 cut(s)	821
Eco57I	CTGAAG	3 cut(s)	276, 519, 602
EcoO109I	RGGNCCY	1 cut(s)	304
EcoT14I	CCWWGG	1 cut(s)	833
EcoT38I	GRGCYC	2 cut(s)	102, 854
ErhI	CCWWGG	1 cut(s)	833
FaeI	CATG	3 cut(s)	331, 576, 760
FalI	AAGNNNNNCTT	4 cut(s)	368, 400, 548, 580
FaqI	GGGAC	1 cut(s)	18
FatI	CATG	3 cut(s)	327, 572, 756
FauI	CCCGC	1 cut(s)	772
FauNDI	CATATG	1 cut(s)	873
FbaI	TGATCA	1 cut(s)	223
Fnu4HI	GCNGC	5 cut(s)	349, 701, 804, 807, 869
FokI	GGATG	2 cut(s)	619, 674
FriOI	GRGCYC	2 cut(s)	102, 854
Fsp4HI	GCNGC	5 cut(s)	349, 701, 804, 807, 869
GlaI	GCGC	1 cut(s)	704
GluI	GCNGC	5 cut(s)	349, 701, 804, 807, 869
GsaI	CCCAGC	1 cut(s)	455
GsuI	CTGGAG	1 cut(s)	465
HaeII	RGCGCY	1 cut(s)	706
HaeIII	GGCC	3 cut(s)	305, 383, 450
HhaI	GCGC	1 cut(s)	705
Hin1II	CATG	3 cut(s)	331, 576, 760
Hin6I	GCGC	1 cut(s)	703
HinP1I	GCGC	1 cut(s)	703
HinfI	GANTC	2 cut(s)	133, 760
HphI	GGTGA	2 cut(s)	40, 763
Hpy166II	GTNNAC	1 cut(s)	754
Hpy188I	TCNGA	3 cut(s)	207, 311, 538
Hpy188III	TCNNGA	3 cut(s)	38, 292, 620
Hpy8I	GTNNAC	1 cut(s)	754
HpyAV	CCTTC	5 cut(s)	19, 83, 251, 373, 792
HpyCH4III	ACNGT	2 cut(s)	34, 174
HpyF10VI	GCNNNNNNNGC	3 cut(s)	552, 853, 874
HpyF3I	CTNAG	2 cut(s)	211, 339
Hsp92II	CATG	3 cut(s)	331, 576, 760
HspAI	GCGC	1 cut(s)	703
Ksp22I	TGATCA	1 cut(s)	223
Kzo9I	GATC	5 cut(s)	202, 223, 558, 594, 790
LguI	GCTCTTC	1 cut(s)	545
LmnI	GCTCC	1 cut(s)	105
Lsp1109I	GCAGC	5 cut(s)	335, 712, 793, 815, 855
LweI	GCATC	2 cut(s)	293, 790
MaeIII	GTNAC	3 cut(s)	28, 529, 693
MalI	GATC	5 cut(s)	204, 225, 560, 596, 792
MboI	GATC	5 cut(s)	202, 223, 558, 594, 790
MboII	GAAGA	7 cut(s)	307, 427, 430, 553, 556, 562, 608
MflI	RGATCY	1 cut(s)	558
MhlI	GDGCHC	2 cut(s)	102, 854
MluCI	AATT	5 cut(s)	541, 612, 682, 742, 794
MlyI	GAGTC	1 cut(s)	127
MnlI	CCTC	9 cut(s)	15, 63, 228, 317, 331, 334, 418, 440, 597
MroXI	GAANNNNTTC	2 cut(s)	316, 777
MseI	TTAA	3 cut(s)	300, 402, 681
MslI	CAYNNNNRTG	1 cut(s)	773
MspA1I	CMGCKG	2 cut(s)	455, 806
MwoI	GCNNNNNNNGC	3 cut(s)	552, 853, 874
NdeI	CATATG	1 cut(s)	873
NdeII	GATC	5 cut(s)	202, 223, 558, 594, 790
NlaIII	CATG	3 cut(s)	331, 576, 760
NlaIV	GGNNCC	2 cut(s)	101, 630
NmuCI	GTSAC	3 cut(s)	28, 529, 693
PceI	AGGCCT	1 cut(s)	383
PciSI	GCTCTTC	1 cut(s)	545
PdmI	GAANNNNTTC	2 cut(s)	316, 777
PfeI	GAWTC	1 cut(s)	760
PkrI	GCNGC	5 cut(s)	350, 702, 805, 808, 870
PleI	GAGTC	1 cut(s)	127
PpsI	GAGTC	1 cut(s)	127
PshBI	ATTAAT	1 cut(s)	681
PspFI	CCCAGC	1 cut(s)	451
PspN4I	GGNNCC	2 cut(s)	101, 630
PspPI	GGNCC	3 cut(s)	304, 449, 821
PstI	CTGCAG	2 cut(s)	372, 702
PstNI	CAGNNNCTG	1 cut(s)	697
PsuI	RGATCY	1 cut(s)	558
PvuII	CAGCTG	2 cut(s)	455, 806
RseI	CAYNNNNRTG	1 cut(s)	773
SapI	GCTCTTC	1 cut(s)	545
SaqAI	TTAA	3 cut(s)	300, 402, 681
SatI	GCNGC	5 cut(s)	349, 701, 804, 807, 869
Sau3AI	GATC	5 cut(s)	202, 223, 558, 594, 790
Sau96I	GGNCC	3 cut(s)	304, 449, 821
SchI	GAGTC	1 cut(s)	127
SduI	GDGCHC	2 cut(s)	102, 854
SfaNI	GCATC	2 cut(s)	293, 790
SfcI	CTRYAG	2 cut(s)	368, 698
SinI	GGWCC	1 cut(s)	821
SmiMI	CAYNNNNRTG	1 cut(s)	773
Sse9I	AATT	5 cut(s)	541, 612, 682, 742, 794
SseBI	AGGCCT	1 cut(s)	383
SsiI	CCGC	1 cut(s)	765
StuI	AGGCCT	1 cut(s)	383
StyI	CCWWGG	1 cut(s)	833
TaaI	ACNGT	2 cut(s)	34, 174
TaqI	TCGA	1 cut(s)	711
TasI	AATT	5 cut(s)	541, 612, 682, 742, 794
TfiI	GAWTC	1 cut(s)	760
Tru1I	TTAA	3 cut(s)	300, 402, 681
Tru9I	TTAA	3 cut(s)	300, 402, 681
TscAI	CASTG	3 cut(s)	205, 481, 702
TseFI	GTSAC	3 cut(s)	28, 529, 693
TseI	GCWGC	5 cut(s)	348, 700, 803, 806, 868
Tsp45I	GTSAC	3 cut(s)	28, 529, 693
TspDTI	ATGAA	5 cut(s)	229, 471, 556, 623, 773
TspRI	CASTG	3 cut(s)	205, 481, 702
VpaK11BI	GGWCC	1 cut(s)	821
VspI	ATTAAT	1 cut(s)	681
XapI	RAATTY	1 cut(s)	612
XmnI	GAANNNNTTC	2 cut(s)	316, 777

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