Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0008346

Physical Location & Seq

Genomic Coordinates Forward (+)

65149450 .. 65153445

Gene Structure 3996 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG491700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGGGTAGTCATGACAATGAGGATATGGGTTTCCAACATAGGAATGAGGGTACTCTGAATTGTCCCTCTTCAGGGATGAGCACCAATCCACTGCCTGAAAAGGTTTCAAGAATGGCAATGAGTTCAGGCTCTATTTTTAAGCCTTCAAATGCACCTGACCCTTTCTTTGGTTCTGGTTGGGATCCACTTGTTTCATTGAGTCAAAGTGATAACTTTGGAGGTTCCTCAGTTGCTTCTCAGAGTGAATTTACCAATCCTCCTTACCCTATAGCGATGGAAACTCAGGGAATGAGTAGCACATCCCACCTTGTTCAATATCCATCTGATTCGAGTTATGTTGAGATGGTTCCAAAGCTTCCATGTTTTGGAAGTGGGAGCTTCTCAGAAATGGTGGGTTCTTTTGGCCTGCCTGAGTGTGCTGGGATTTCTAACCCTGGGTGTGTTGCAAACTATAACCCAAACAGGGATGGGGGCATTGATAGGACTTCAACAATGGGCACACAATCGCTTGATGATCGCCAAGTATCCGAAGAGGGTGCTTTAGGATCTTCACCTAATGGCAGGAGAAGGAAGCGAGTTCCTGAATCCAGTCCAAATAAGAATGCTGAAGGGGAGCTTAACAAGGATATGTCTGGGGAAAGCTCTGATTACCTGAAAGAACAAGATGAGAAAAAAACCAAACTGGAAGAAAACACAGCTGCAAATTTGCGTGGTAAGCAGGCAGGCAAACAGACTAAAGAGAATTCTCAAAGTGGAGATGCTGCAAAAGATAGTTACATTCATGTGAGAGCTAGAAGGGGCCAGGCTACAAATAGTCATAGCCTTGCAGAAAGGGTAAGAAGAGAAAAGATTAGTGAGAGGATGAGATTGCTTCAAGAACTTGTTCCAGGGTGCAATAAGATAACTGGCAAGGCTGTAATGCTTGATGAGATCATCAACTATGTGCAATCTCTGCAACAGCAAGTTGAGGTATGCTGTTCTTCAGTCTCTGATGGAATTGGTTCTATGTTTTGTAATGAAATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009637 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 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

341

Amino Acids

36.89

Weight (kDa)

5.33

Isoelectric Point (pI)

58.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	271 - 319	9e-07	Helix-loop-helix DNA-binding domain
bHLH_SAC51	PF23173	277 - 324	2e-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

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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: OG0008346)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10100 AT1G10120 AT1G10120
fragaria_vesca	FvH4_2g32580
malus_domestica	MD08G1077000.v1.1 MD15G1064500.v1.1
prunus_persica	Prupe.1G418500_v2.0.a1 Prupe.1G418500_v2.0.a1 Prupe.1G418500_v2.0.a1 Prupe.1G418500_v2.0.a1
pyrus_communis	pycom08g06400 pycom15g06130
rosa_chinensis	RchiOBHm_Chr6g0310101
rosa_laevigata	RLG00000010511
rosa_multiflora	Rmu_sc0000294.1_g000024
rosa_roxburghii	Rroxscaffold_7G00158870
rosa_rugosa	Rorug06G0377300 Rorug06G0377400
rosa_samantha	Rh6AG491400 Rh6BG500700 Rh6CG505800 Rh6DG491700
rosa_wichuraiana	Rw6G042750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	365
AclWI	GGATC	3 cut(s)	176, 189, 553
AcsI	RAATTY	4 cut(s)	245, 703, 742, 1020
AcuI	CTGAAG	3 cut(s)	54, 627, 966
AfaI	GTAC	1 cut(s)	52
AfiI	CCNNNNNNNGG	5 cut(s)	71, 72, 167, 365, 463
AgsI	TTSAA	5 cut(s)	108, 147, 314, 489, 875
AjnI	CCWGG	3 cut(s)	433, 801, 886
AluBI	AGCT	6 cut(s)	355, 378, 616, 642, 698, 791
AluI	AGCT	6 cut(s)	355, 378, 616, 642, 698, 791
Alw21I	GWGCWC	1 cut(s)	83
Alw26I	GTCTC	1 cut(s)	991
AlwI	GGATC	3 cut(s)	176, 189, 553
AlwNI	CAGNNNCTG	1 cut(s)	989
AoxI	GGCC	2 cut(s)	403, 799
ApeKI	GCWGC	2 cut(s)	698, 761
ApoI	RAATTY	4 cut(s)	245, 703, 742, 1020
ArsI	GACNNNNNNTTYG	2 cut(s)	149, 181
Asp700I	GAANNNNTTC	2 cut(s)	882, 1000
AspS9I	GGNCC	1 cut(s)	799
AsuHPI	GGTGA	1 cut(s)	543
BaeGI	GKGCMC	1 cut(s)	500
BamHI	GGATCC	1 cut(s)	181
Bbv12I	GWGCWC	1 cut(s)	83
BbvI	GCAGC	2 cut(s)	685, 748
BccI	CCATC	5 cut(s)	268, 328, 337, 461, 986
BcgI	CGANNNNNNTGC	2 cut(s)	518, 552
BciT130I	CCWGG	3 cut(s)	435, 803, 888
BciVI	GTATCC	1 cut(s)	535
BcoDI	GTCTC	1 cut(s)	991
BfaI	CTAG	1 cut(s)	792
BfmI	CTRYAG	1 cut(s)	267
BfuI	GTATCC	1 cut(s)	535
BisI	GCNGC	2 cut(s)	699, 762
BlsI	GCNGC	2 cut(s)	700, 763
Bme1390I	CCNGG	3 cut(s)	435, 803, 888
BmgT120I	GGNCC	1 cut(s)	799
BmiI	GGNNCC	4 cut(s)	183, 223, 348, 800
BmrFI	CCNGG	3 cut(s)	435, 803, 888
BmsI	GCATC	1 cut(s)	748
BsaJI	CCNNGG	3 cut(s)	433, 434, 887
BsaXI	ACNNNNNCTCC	2 cut(s)	241, 271
Bsc4I	CCNNNNNNNGG	5 cut(s)	71, 72, 167, 365, 463
Bse1I	ACTGG	3 cut(s)	588, 687, 910
Bse3DI	GCAATG	1 cut(s)	123
BseBI	CCWGG	3 cut(s)	435, 803, 888
BseDI	CCNNGG	3 cut(s)	433, 434, 887
BseGI	GGATG	4 cut(s)	81, 299, 472, 867
BseLI	CCNNNNNNNGG	5 cut(s)	71, 72, 167, 365, 463
BseMI	GCAATG	1 cut(s)	123
BseMII	CTCAG	5 cut(s)	240, 251, 296, 396, 402
BseNI	ACTGG	3 cut(s)	588, 687, 910
BseSI	GKGCMC	1 cut(s)	500
BseXI	GCAGC	2 cut(s)	685, 748
BseYI	CCCAGC	1 cut(s)	419
BshFI	GGCC	2 cut(s)	405, 801
BsiHKAI	GWGCWC	1 cut(s)	83
BslFI	GGGAC	1 cut(s)	48
BslI	CCNNNNNNNGG	5 cut(s)	71, 72, 167, 365, 463
BsmAI	GTCTC	1 cut(s)	991
BsmFI	GGGAC	1 cut(s)	48
BsmI	GAATGC	1 cut(s)	607
BsnI	GGCC	2 cut(s)	405, 801
Bsp1286I	GDGCHC	2 cut(s)	83, 500
Bsp143I	GATC	4 cut(s)	181, 514, 545, 930
BspANI	GGCC	2 cut(s)	405, 801
BspCNI	CTCAG	5 cut(s)	239, 250, 295, 395, 403
BspHI	TCATGA	1 cut(s)	10
BspLI	GGNNCC	4 cut(s)	183, 223, 348, 800
BspPI	GGATC	3 cut(s)	176, 189, 553
BsrDI	GCAATG	1 cut(s)	123
BsrI	ACTGG	3 cut(s)	588, 687, 910
BssECI	CCNNGG	3 cut(s)	433, 434, 887
BssMI	GATC	4 cut(s)	181, 514, 545, 930
Bst2UI	CCWGG	3 cut(s)	435, 803, 888
Bst6I	CTCTTC	3 cut(s)	73, 525, 835
BstAPI	GCANNNNNTGC	1 cut(s)	952
BstC8I	GCNNGC	3 cut(s)	407, 720, 724
BstDEI	CTNAG	5 cut(s)	226, 237, 282, 382, 411
BstF5I	GGATG	4 cut(s)	81, 299, 472, 867
BstKTI	GATC	4 cut(s)	184, 517, 548, 933
BstMAI	GTCTC	1 cut(s)	991
BstMBI	GATC	4 cut(s)	181, 514, 545, 930
BstMWI	GCNNNNNNNGC	2 cut(s)	715, 952
BstNI	CCWGG	3 cut(s)	435, 803, 888
BstSCI	CCNGG	3 cut(s)	433, 801, 886
BstSFI	CTRYAG	1 cut(s)	267
BstSLI	GKGCMC	1 cut(s)	500
BstV1I	GCAGC	2 cut(s)	685, 748
BstX2I	RGATCY	2 cut(s)	181, 545
BstYI	RGATCY	2 cut(s)	181, 545
BsuI	GTATCC	1 cut(s)	535
BsuRI	GGCC	2 cut(s)	405, 801
BtgZI	GCGATG	1 cut(s)	287
BtsCI	GGATG	4 cut(s)	81, 299, 472, 867
BtsI	GCAGTG	1 cut(s)	89
BtsIMutI	CAGTG	1 cut(s)	89
Cac8I	GCNNGC	3 cut(s)	407, 720, 724
CaiI	CAGNNNCTG	1 cut(s)	989
CciI	TCATGA	1 cut(s)	10
Cfr13I	GGNCC	1 cut(s)	799
Csp6I	GTAC	1 cut(s)	51
CviAII	CATG	3 cut(s)	11, 360, 782
CviQI	GTAC	1 cut(s)	51
DdeI	CTNAG	5 cut(s)	226, 237, 282, 382, 411
DpnI	GATC	4 cut(s)	183, 516, 547, 932
DpnII	GATC	4 cut(s)	181, 514, 545, 930
Eam1104I	CTCTTC	3 cut(s)	73, 525, 835
EarI	CTCTTC	3 cut(s)	73, 525, 835
Eco57I	CTGAAG	3 cut(s)	54, 627, 966
EcoRI	GAATTC	1 cut(s)	742
EcoRII	CCWGG	3 cut(s)	433, 801, 886
FaeI	CATG	3 cut(s)	14, 363, 785
FalI	AAGNNNNNCTT	2 cut(s)	600, 632
FaqI	GGGAC	1 cut(s)	48
FatI	CATG	3 cut(s)	10, 359, 781
Fnu4HI	GCNGC	2 cut(s)	699, 762
FokI	GGATG	4 cut(s)	88, 286, 479, 874
Fsp4HI	GCNGC	2 cut(s)	699, 762
FspBI	CTAG	1 cut(s)	792
GluI	GCNGC	2 cut(s)	699, 762
GsaI	CCCAGC	1 cut(s)	423
HaeIII	GGCC	2 cut(s)	405, 801
Hin1II	CATG	3 cut(s)	14, 363, 785
HindIII	AAGCTT	1 cut(s)	353
HinfI	GANTC	3 cut(s)	199, 326, 584
HphI	GGTGA	1 cut(s)	543
Hpy188I	TCNGA	7 cut(s)	57, 240, 325, 385, 529, 646, 991
Hpy188III	TCNNGA	4 cut(s)	11, 108, 581, 875
HpyAV	CCTTC	4 cut(s)	153, 561, 602, 789
HpyCH4V	TGCA	8 cut(s)	152, 446, 701, 764, 827, 894, 946, 955
HpyF10VI	GCNNNNNNNGC	2 cut(s)	715, 952
HpyF3I	CTNAG	5 cut(s)	226, 237, 282, 382, 411
Hsp92II	CATG	3 cut(s)	14, 363, 785
Kzo9I	GATC	4 cut(s)	181, 514, 545, 930
LmnI	GCTCC	2 cut(s)	375, 613
Lsp1109I	GCAGC	2 cut(s)	685, 748
LweI	GCATC	1 cut(s)	748
MaeI	CTAG	1 cut(s)	792
MaeIII	GTNAC	1 cut(s)	773
MalI	GATC	4 cut(s)	183, 516, 547, 932
MboI	GATC	4 cut(s)	181, 514, 545, 930
MboII	GAAGA	6 cut(s)	60, 540, 542, 698, 852, 972
MflI	RGATCY	2 cut(s)	181, 545
MhlI	GDGCHC	2 cut(s)	83, 500
MluCI	AATT	6 cut(s)	58, 245, 703, 742, 996, 1020
MlyI	GAGTC	1 cut(s)	208
MmeI	TCCRAC	1 cut(s)	58
MnlI	CCTC	9 cut(s)	13, 40, 76, 212, 235, 267, 526, 852, 961
MroXI	GAANNNNTTC	2 cut(s)	882, 1000
MseI	TTAA	3 cut(s)	138, 618, 1024
MslI	CAYNNNNRTG	3 cut(s)	15, 42, 782
MspA1I	CMGCKG	1 cut(s)	698
MspR9I	CCNGG	3 cut(s)	435, 803, 888
Mva1269I	GAATGC	1 cut(s)	607
MvaI	CCWGG	3 cut(s)	435, 803, 888
MwoI	GCNNNNNNNGC	2 cut(s)	715, 952
NdeII	GATC	4 cut(s)	181, 514, 545, 930
NlaIII	CATG	3 cut(s)	14, 363, 785
NlaIV	GGNNCC	4 cut(s)	183, 223, 348, 800
PagI	TCATGA	1 cut(s)	10
PasI	CCCWGGG	1 cut(s)	434
PctI	GAATGC	1 cut(s)	607
PdmI	GAANNNNTTC	2 cut(s)	882, 1000
PfeI	GAWTC	2 cut(s)	326, 584
PflMI	CCANNNNNTGG	1 cut(s)	365
PkrI	GCNGC	2 cut(s)	700, 763
PleI	GAGTC	1 cut(s)	207
PpsI	GAGTC	1 cut(s)	207
Psp6I	CCWGG	3 cut(s)	433, 801, 886
PspFI	CCCAGC	1 cut(s)	419
PspGI	CCWGG	3 cut(s)	433, 801, 886
PspN4I	GGNNCC	4 cut(s)	183, 223, 348, 800
PspPI	GGNCC	1 cut(s)	799
PstNI	CAGNNNCTG	1 cut(s)	989
PsuI	RGATCY	2 cut(s)	181, 545
PvuII	CAGCTG	1 cut(s)	698
RsaI	GTAC	1 cut(s)	52
RsaNI	GTAC	1 cut(s)	51
RseI	CAYNNNNRTG	3 cut(s)	15, 42, 782
SaqAI	TTAA	3 cut(s)	138, 618, 1024
SatI	GCNGC	2 cut(s)	699, 762
Sau3AI	GATC	4 cut(s)	181, 514, 545, 930
Sau96I	GGNCC	1 cut(s)	799
SchI	GAGTC	1 cut(s)	208
ScrFI	CCNGG	3 cut(s)	435, 803, 888
SduI	GDGCHC	2 cut(s)	83, 500
SfaNI	GCATC	1 cut(s)	748
SfcI	CTRYAG	1 cut(s)	267
SmiMI	CAYNNNNRTG	3 cut(s)	15, 42, 782
Sse9I	AATT	6 cut(s)	58, 245, 703, 742, 996, 1020
SspMI	CTAG	1 cut(s)	792
StyD4I	CCNGG	3 cut(s)	433, 801, 886
TaqI	TCGA	1 cut(s)	329
TasI	AATT	6 cut(s)	58, 245, 703, 742, 996, 1020
TfiI	GAWTC	2 cut(s)	326, 584
Tru1I	TTAA	3 cut(s)	138, 618, 1024
Tru9I	TTAA	3 cut(s)	138, 618, 1024
TscAI	CASTG	1 cut(s)	96
TseI	GCWGC	2 cut(s)	698, 761
TspDTI	ATGAA	2 cut(s)	183, 770
TspRI	CASTG	1 cut(s)	96
Van91I	CCANNNNNTGG	1 cut(s)	365
XapI	RAATTY	4 cut(s)	245, 703, 742, 1020
XmnI	GAANNNNTTC	2 cut(s)	882, 1000
XspI	CTAG	1 cut(s)	792

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