Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000883

Physical Location & Seq

Genomic Coordinates Forward (+)

51422657 .. 51425480

Gene Structure 2824 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00256990.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGATGATTTCCAATTCAACTACAAAACAAAGAGGAAGGGGCCAGAATAAGCGTTTCTGGACAACCAAGGAGGATTCTGTATTAGTAGAATCTTTGCAAGAATTGTATAATGACACCAAATGGCGATCTGAAAATGGATTCAAAAATGGTTACTTGACCCAGGTAGAGGCTATGATGGAAGCCAAAATGCTGGGTTGTGGAATACAGGCCTCTCCCCATATCGAATCACGAGTTAAAACTTTGAAGAAAAAGTATTATGCCTTGGCGGAGATGTTATCTCAAAGTAAGTTTGGTTGGAATGACAATGAAATGATGTTGGTTTGTGAAAGAAGGGTATATGATGAATGGGTCCAGAAAAGAAAGTATGCAAGTGGATTGTATAGTAAGCCATTTCCATACTACTATATGTTGGGGGAGATATATGGAAAAGCTCGTGAAGTTGGTGCATATATTGATAATGCTGATGATGACCGAGAGGAATTTGGACAGGAGGATGGGGATGCAAACATTGATCAAATTCTAGGTGTGAACGATGATGATGCTGCTGGAAATCTGAATCTGAATGTTGATATGAATGTGGAATCACAATCTGAGGGGTCAGAAGAGTTTGATGTATCATACACACTTGGTACCCCAAGTGCCCAACAAAGAAGACCTACAGAAAGTGCCCCAAGTGTTTCAGATCATGGTCGTAGGGTGAAAGCAAAGGTTATGGAGGAGATGAGTAAGAATGTAAGCACAATGTCATCTAAGATTGATGCTCTTGTTAATATTTTTTCAAGTGATAAGGAAGTGGCTGAATTGCAAGCGAAACTTGATAGTGAGTTGAACAAGATTGACGGCCTTACAGAATTTCAAGTCTTTCGAGCCACGAACATTTTAGCTCGTCAACATGACCTGCTGAGAGTGTTCTTCGGCATGTCCAAGGAAAGGAAACAGACATATGTTACATATCTGTTGGAACATGGCGTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001666 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0006950 GO:0006974 GO:0006979 GO:0007275 GO:0008150 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009624 GO:0009628 GO:0009636 GO:0009719 GO:0009725 GO:0009733 GO:0009790 GO:0009791 GO:0009793 GO:0009908 GO:0009909 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010154 GO:0010243 GO:0010272 GO:0014070 GO:0022414 GO:0032501 GO:0032502 GO:0033554 GO:0035670 GO:0036293 GO:0042221 GO:0042493 GO:0043207 GO:0046677 GO:0046898 GO:0046982 GO:0046983 GO:0048316 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048580 GO:0048608 GO:0048731 GO:0048827 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050896 GO:0051239 GO:0051704 GO:0051707 GO:0051716 GO:0060090 GO:0060992 GO:0061458 GO:0065007 GO:0070482 GO:0071216 GO:0071217 GO:0071496 GO:0090567 GO:0097159 GO:0097305 GO:0099402 GO:1901363 GO:1901654 GO:1901698 GO:1901700 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LIM_bind

Protein Analysis

324

Amino Acids

37.01

Weight (kDa)

5.22

Isoelectric Point (pI)

56.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-bind_3	PF12776	20 - 115	2.2e-09	Myb/SANT-like DNA-binding 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: OG0000883)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g08720 FvH4_3g22621 FvH4_4g11702 FvH4_5g01520 FvH4_5g01520 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g01530 FvH4_5g36380 FvH4_6g01730 FvH4_6g09170 FvH4_6g20010 FvH4_6g28113
malus_domestica	MD06G1073100.v1.1
prunus_persica	Prupe.2G067700_v2.0.a1 Prupe.5G091500_v2.0.a1 Prupe.5G091500_v2.0.a1 Prupe.5G091500_v2.0.a1 Prupe.7G013000_v2.0.a1
pyrus_communis	pycom01g10330 pycom06g07250
rosa_chinensis	RchiOBHm_Chr7g0199161 RchiOBHm_Chr7g0199171
rosa_laevigata	RLG00000003809 RLG00000014802
rosa_multiflora	Rmu_sc0004791.1_g000001 Rmu_sc0006115.1_g000003 Rmu_sc0037059.1_g000001
rosa_roxburghii	Rroxscaffold_1G00015450 Rroxscaffold_1G00015460 Rroxscaffold_3G00256990 Rroxscaffold_3G00257000 Rroxscaffold_4G00326050 Rroxscaffold_7G00182010
rosa_rugosa	Rorug03G0005500 Rorug03G0273000 Rorug05G0372800 Rorug05G0372900 Rorug07G0053100
rosa_samantha	Rh1BG202800 Rh1DG102500 Rh3AG101900 Rh3AG320900 Rh3CG107700 Rh3DG355100 Rh7AG176700 Rh7AG176800 Rh7AG365300 Rh7BG180300 Rh7CG185900 Rh7CG186000 Rh7CG384200 Rh7DG179700 Rh7DG179800
rosa_wichuraiana	Rw1G014270 Rw3G028010 Rw7G015540 Rw7G015550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	906
Acc65I	GGTACC	1 cut(s)	629
AccB1I	GGYRCC	1 cut(s)	629
AciI	CCGC	1 cut(s)	266
AcsI	RAATTY	3 cut(s)	479, 516, 851
AfaI	GTAC	1 cut(s)	631
AfiI	CCNNNNNNNGG	2 cut(s)	166, 930
AgsI	TTSAA	6 cut(s)	18, 142, 244, 780, 829, 857
AjnI	CCWGG	1 cut(s)	159
AluBI	AGCT	2 cut(s)	431, 884
AluI	AGCT	2 cut(s)	431, 884
AoxI	GGCC	3 cut(s)	40, 207, 841
ApeKI	GCWGC	1 cut(s)	542
ApoI	RAATTY	3 cut(s)	479, 516, 851
Asp718I	GGTACC	1 cut(s)	629
AspS9I	GGNCC	2 cut(s)	40, 349
AsuHPI	GGTGA	1 cut(s)	709
AvaII	GGWCC	1 cut(s)	349
BaeGI	GKGCMC	2 cut(s)	643, 670
BanI	GGYRCC	1 cut(s)	629
BauI	CACGAG	2 cut(s)	228, 432
BbsI	GAAGAC	1 cut(s)	658
BbvI	GCAGC	1 cut(s)	529
BccI	CCATC	2 cut(s)	169, 488
BceAI	ACGGC	1 cut(s)	856
BcgI	CGANNNNNNTGC	2 cut(s)	521, 555
BciT130I	CCWGG	1 cut(s)	161
BclI	TGATCA	1 cut(s)	511
BfaI	CTAG	1 cut(s)	521
BfmI	CTRYAG	1 cut(s)	657
BfuAI	ACCTGC	1 cut(s)	906
BisI	GCNGC	1 cut(s)	543
BlsI	GCNGC	1 cut(s)	544
Bme1390I	CCNGG	1 cut(s)	161
Bme18I	GGWCC	1 cut(s)	349
BmgT120I	GGNCC	2 cut(s)	40, 349
BmiI	GGNNCC	3 cut(s)	41, 350, 631
BmrFI	CCNGG	1 cut(s)	161
BmsI	GCATC	3 cut(s)	490, 529, 748
BpiI	GAAGAC	1 cut(s)	658
BsaJI	CCNNGG	4 cut(s)	66, 159, 261, 924
Bsc4I	CCNNNNNNNGG	2 cut(s)	166, 930
BseBI	CCWGG	1 cut(s)	161
BseDI	CCNNGG	4 cut(s)	66, 159, 261, 924
BseGI	GGATG	2 cut(s)	499, 505
BseLI	CCNNNNNNNGG	2 cut(s)	166, 930
BseMII	CTCAG	2 cut(s)	582, 893
BseRI	GAGGAG	1 cut(s)	731
BseSI	GKGCMC	2 cut(s)	643, 670
BseXI	GCAGC	1 cut(s)	529
BseYI	CCCAGC	1 cut(s)	190
BshFI	GGCC	3 cut(s)	42, 209, 843
BshNI	GGYRCC	1 cut(s)	629
BslI	CCNNNNNNNGG	2 cut(s)	166, 930
BsnI	GGCC	3 cut(s)	42, 209, 843
Bsp1286I	GDGCHC	2 cut(s)	643, 670
Bsp143I	GATC	3 cut(s)	125, 511, 682
BspACI	CCGC	1 cut(s)	266
BspANI	GGCC	3 cut(s)	42, 209, 843
BspCNI	CTCAG	2 cut(s)	583, 894
BspLI	GGNNCC	3 cut(s)	41, 350, 631
BspMI	ACCTGC	1 cut(s)	906
BspT107I	GGYRCC	1 cut(s)	629
BssECI	CCNNGG	4 cut(s)	66, 159, 261, 924
BssMI	GATC	3 cut(s)	125, 511, 682
BssSI	CACGAG	2 cut(s)	228, 432
BssT1I	CCWWGG	3 cut(s)	66, 261, 924
Bst2BI	CACGAG	2 cut(s)	228, 432
Bst2UI	CCWGG	1 cut(s)	161
Bst6I	CTCTTC	1 cut(s)	597
BstC8I	GCNNGC	1 cut(s)	807
BstDEI	CTNAG	3 cut(s)	591, 750, 902
BstF5I	GGATG	2 cut(s)	499, 505
BstKTI	GATC	3 cut(s)	128, 514, 685
BstMBI	GATC	3 cut(s)	125, 511, 682
BstNI	CCWGG	1 cut(s)	161
BstNSI	RCATGY	1 cut(s)	922
BstSCI	CCNGG	1 cut(s)	159
BstSFI	CTRYAG	1 cut(s)	657
BstSLI	GKGCMC	2 cut(s)	643, 670
BstV1I	GCAGC	1 cut(s)	529
BstV2I	GAAGAC	1 cut(s)	658
BstXI	CCANNNNNNTGG	1 cut(s)	190
BsuRI	GGCC	3 cut(s)	42, 209, 843
BtsCI	GGATG	2 cut(s)	499, 505
BveI	ACCTGC	1 cut(s)	906
Cac8I	GCNNGC	1 cut(s)	807
Cfr13I	GGNCC	2 cut(s)	40, 349
Csp6I	GTAC	1 cut(s)	630
CviAII	CATG	4 cut(s)	686, 893, 919, 965
CviQI	GTAC	1 cut(s)	630
DdeI	CTNAG	3 cut(s)	591, 750, 902
DpnI	GATC	3 cut(s)	127, 513, 684
DpnII	GATC	3 cut(s)	125, 511, 682
Eam1104I	CTCTTC	1 cut(s)	597
EarI	CTCTTC	1 cut(s)	597
EciI	GGCGGA	1 cut(s)	281
Eco130I	CCWWGG	3 cut(s)	66, 261, 924
Eco147I	AGGCCT	1 cut(s)	209
Eco47I	GGWCC	1 cut(s)	349
EcoRII	CCWGG	1 cut(s)	159
EcoT14I	CCWWGG	3 cut(s)	66, 261, 924
ErhI	CCWWGG	3 cut(s)	66, 261, 924
FaeI	CATG	4 cut(s)	689, 896, 922, 968
FalI	AAGNNNNNCTT	2 cut(s)	798, 830
FatI	CATG	4 cut(s)	685, 892, 918, 964
FauNDI	CATATG	1 cut(s)	943
FbaI	TGATCA	1 cut(s)	511
Fnu4HI	GCNGC	1 cut(s)	543
FokI	GGATG	2 cut(s)	506, 512
Fsp4HI	GCNGC	1 cut(s)	543
FspBI	CTAG	1 cut(s)	521
GluI	GCNGC	1 cut(s)	543
GsaI	CCCAGC	1 cut(s)	194
HaeIII	GGCC	3 cut(s)	42, 209, 843
Hin1II	CATG	4 cut(s)	689, 896, 922, 968
HincII	GTYRAC	1 cut(s)	890
HindII	GTYRAC	1 cut(s)	890
HinfI	GANTC	6 cut(s)	74, 89, 138, 224, 556, 581
HphI	GGTGA	1 cut(s)	709
Hpy166II	GTNNAC	2 cut(s)	529, 890
Hpy188I	TCNGA	6 cut(s)	130, 555, 561, 592, 601, 682
Hpy188III	TCNNGA	4 cut(s)	58, 228, 352, 434
Hpy8I	GTNNAC	2 cut(s)	529, 890
HpyAV	CCTTC	2 cut(s)	30, 324
HpyCH4V	TGCA	5 cut(s)	97, 368, 446, 503, 805
HpyF3I	CTNAG	3 cut(s)	591, 750, 902
Hsp92II	CATG	4 cut(s)	689, 896, 922, 968
KpnI	GGTACC	1 cut(s)	633
Ksp22I	TGATCA	1 cut(s)	511
Kzo9I	GATC	3 cut(s)	125, 511, 682
Lsp1109I	GCAGC	1 cut(s)	529
LweI	GCATC	3 cut(s)	490, 529, 748
MaeI	CTAG	1 cut(s)	521
MaeIII	GTNAC	2 cut(s)	149, 946
MalI	GATC	3 cut(s)	127, 513, 684
MboI	GATC	3 cut(s)	125, 511, 682
MboII	GAAGA	4 cut(s)	256, 614, 663, 904
MhlI	GDGCHC	2 cut(s)	643, 670
MluCI	AATT	6 cut(s)	13, 101, 479, 516, 800, 851
MmeI	TCCRAC	2 cut(s)	275, 939
MnlI	CCTC	8 cut(s)	26, 64, 160, 220, 469, 484, 586, 709
MseI	TTAA	2 cut(s)	234, 768
MspR9I	CCNGG	1 cut(s)	161
MvaI	CCWGG	1 cut(s)	161
NdeI	CATATG	1 cut(s)	943
NdeII	GATC	3 cut(s)	125, 511, 682
NlaIII	CATG	4 cut(s)	689, 896, 922, 968
NlaIV	GGNNCC	3 cut(s)	41, 350, 631
NspI	RCATGY	1 cut(s)	922
PceI	AGGCCT	1 cut(s)	209
PfeI	GAWTC	6 cut(s)	74, 89, 138, 224, 556, 581
PkrI	GCNGC	1 cut(s)	544
Psp6I	CCWGG	1 cut(s)	159
PspFI	CCCAGC	1 cut(s)	190
PspGI	CCWGG	1 cut(s)	159
PspN4I	GGNNCC	3 cut(s)	41, 350, 631
PspPI	GGNCC	2 cut(s)	40, 349
RsaI	GTAC	1 cut(s)	631
RsaNI	GTAC	1 cut(s)	630
SaqAI	TTAA	2 cut(s)	234, 768
SatI	GCNGC	1 cut(s)	543
Sau3AI	GATC	3 cut(s)	125, 511, 682
Sau96I	GGNCC	2 cut(s)	40, 349
ScrFI	CCNGG	1 cut(s)	161
SduI	GDGCHC	2 cut(s)	643, 670
SetI	ASST	7 cut(s)	165, 433, 526, 658, 711, 886, 900
SfaNI	GCATC	3 cut(s)	490, 529, 748
SfcI	CTRYAG	1 cut(s)	657
SinI	GGWCC	1 cut(s)	349
Sse9I	AATT	6 cut(s)	13, 101, 479, 516, 800, 851
SseBI	AGGCCT	1 cut(s)	209
SsiI	CCGC	1 cut(s)	266
SspI	AATATT	1 cut(s)	772
SspMI	CTAG	1 cut(s)	521
StuI	AGGCCT	1 cut(s)	209
StyD4I	CCNGG	1 cut(s)	159
StyI	CCWWGG	3 cut(s)	66, 261, 924
TaqI	TCGA	2 cut(s)	222, 865
TaqII	GACCGA	1 cut(s)	486
TasI	AATT	6 cut(s)	13, 101, 479, 516, 800, 851
TfiI	GAWTC	6 cut(s)	74, 89, 138, 224, 556, 581
Tru1I	TTAA	2 cut(s)	234, 768
Tru9I	TTAA	2 cut(s)	234, 768
TseI	GCWGC	1 cut(s)	542
TspDTI	ATGAA	3 cut(s)	321, 357, 587
VpaK11BI	GGWCC	1 cut(s)	349
XapI	RAATTY	3 cut(s)	479, 516, 851
XceI	RCATGY	1 cut(s)	922
XspI	CTAG	1 cut(s)	521

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