Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0000840

Physical Location & Seq

Genomic Coordinates Forward (+)

60720906 .. 60722074

Gene Structure 1169 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0489100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 984 bp

ATGGACTCTGATCAAGCGAAGCTCTTCGTCGGTGGTTTGTCTAAGGACACCACCGAAGCCACATTGAAAGAACACTTCGGCCAATACGGCGTCGTTTCGGGCTCGACGGTTACCAAGGACCGCGTCACGAGCAGTTCTCGAGGGTTTGGCTTCGTCTGGTTCTCTGATCCGTCTTCCGCTGATAAAGCCCTAGAAGACTCGCATGTCATTCTTGGAAGAAAGGTAGATGTGAAGAAAGCGAAACCCAGAAGAGCCTGGGCATACCCCAAAAACCAAGAACCACTGCCACCGCAACAACTGCAAAGTAGTAGTTTTGAGAGTGGCAGTAATTTTAGAACAAGGAAGATTTTTGTAGGGGGATTGTCGCCGAGTGTAACTGAGTTGGAGTTTAAGAATTACTTTGAGATGTTTGGTAGGGTAACTGATGTAGTGGTGATGATGGACAGCGCAACTCACCGCCCTCGGGGCTTTGGTTTCATAACTTTTGATTCAGAGGAGTCGGTGGAGAATGTAATGCAGAAGAACTTTCATGAGTTGAATGGTAAGTTTGTGGAGGTCAAGAGGGCTGTGCCGAGGGAGGAGAGTTACAGCAACAATGAGAGGGGTTATCAGCCGGGCAGTAATCGTCCTCGATATACCGGTAGTCCTACTACATATGGAGTTCTTCCTACTCCTGCACCTTATAATGGTTTCGGAGGGTTTACTGGTGGAACAGGTGTTTATGGGGGTGGTTGGTACCCATCGGGTGGATACGCTGGGGTTCCTTATGGCATTGCCCCAATTGTTCCTCAGGCGTGGGTGTTTCCATACGGCAACACTTTTTATCCTGCCTACATGAGTGGCGGGGGATGGGTGGCGGCTGCTGGTGGGCATAACTTGTATAACAGAGTGTCCGAGCCAGCTGTGAATCGGCGTGGTTTTGTCAATGAGCATGCACCAGCGGATGTGAAGTCATCTGGGGTTGAAGGGGATCGAGAAACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006417 GO:0006950 GO:0006970 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009637 GO:0009651 GO:0009653 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009965 GO:0010016 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0017148 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0034248 GO:0034249 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0046983 GO:0048366 GO:0048367 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ Homeobox

Protein Analysis

327

Amino Acids

35.75

Weight (kDa)

8.53

Isoelectric Point (pI)

43.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	8 - 74	7.5e-17	RNA recognition motif
RRM_7	PF16367	114 - 187	3.9e-07	RNA recognition motif
RRM_1	PF00076	116 - 184	2e-16	RNA recognition motif

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

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Orthologous Genes (Group: OG0000840)

Species	Orthologous Gene IDs
malus_domestica	MD03G1055300.v1.1 MD07G1214200.v1.1 MD12G1168400.v1.1
pyrus_communis	pycom04g07310 pycom12g15990
rosa_chinensis	RchiOBHm_Chr1g0313541 RchiOBHm_Chr1g0317181 RchiOBHm_Chr2g0134361 RchiOBHm_Chr6g0250031
rosa_laevigata	RLG00000003886 RLG00000007406 RLG00000011469 RLG00000011470 RLG00000030498 RLG00000033863
rosa_multiflora	Rmu_sc0002892.1_g000017 Rmu_sc0003338.1_g000013 Rmu_sc0004498.1_g000009 Rmu_sc0006199.1_g000003 Rmu_sc0016218.1_g000011 Rmu_sc0016786.1_g000001 Rmu_sc0036490.1_g000001
rosa_roxburghii	Rroxscaffold_1G00042920 Rroxscaffold_2G00082220 Rroxscaffold_2G00114810 Rroxscaffold_3G00220570 Rroxscaffold_3G00228270 Rroxscaffold_3G00236760 Rroxscaffold_3G00240020 Rroxscaffold_3G00250010 Rroxscaffold_3G00257960 Rroxscaffold_5G00352750 Rroxscaffold_5G00379700 Rroxscaffold_6G00388200
rosa_rugosa	Rorug01G0066800 Rorug05G0244200 Rorug06G0061500 Rorug06G0061600 Rorug06G0061600 Rorug06G0061700 Rorug06G0111400 Rorug06G0489100
rosa_samantha	Rh1AG003800 Rh1AG038900 Rh1AG416400 Rh1BG321500 Rh1CG067300 Rh1DG072100 Rh1DG153100 Rh1DG360700 Rh2AG053000 Rh2BG375000 Rh2CG492900 Rh2DG220300 Rh3BG324200 Rh3CG298300 Rh4AG417900 Rh4CG444400 Rh4DG158900 Rh4DG425600 Rh5DG417100 Rh6AG252400 Rh7AG428200 Rh7BG192200 Rh7CG178900 Rh7DG171700 Rh7DG435000
rosa_wichuraiana	Rw6G007890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	684
AasI	GACNNNNNNGTC	1 cut(s)	203
Acc65I	GGTACC	1 cut(s)	735
AccB1I	GGYRCC	1 cut(s)	735
AccB7I	CCANNNNNTGG	1 cut(s)	746
AccII	CGCG	1 cut(s)	123
AciI	CCGC	7 cut(s)	121, 177, 290, 457, 843, 857, 941
AclWI	GGATC	2 cut(s)	161, 978
AcoI	YGGCCR	1 cut(s)	79
AcyI	GRCGYC	1 cut(s)	90
AfaI	GTAC	1 cut(s)	737
AfiI	CCNNNNNNNGG	3 cut(s)	463, 686, 746
AgeI	ACCGGT	1 cut(s)	638
AgsI	TTSAA	3 cut(s)	67, 538, 965
AjnI	CCWGG	1 cut(s)	254
AluBI	AGCT	2 cut(s)	22, 902
AluI	AGCT	2 cut(s)	22, 902
AlwI	GGATC	2 cut(s)	161, 978
Ama87I	CYCGRG	2 cut(s)	138, 462
AoxI	GGCC	1 cut(s)	79
ApeKI	GCWGC	1 cut(s)	860
AsiGI	ACCGGT	1 cut(s)	638
Asp700I	GAANNNNTTC	1 cut(s)	23
Asp718I	GGTACC	1 cut(s)	735
AspLEI	GCGC	1 cut(s)	449
AspS9I	GGNCC	1 cut(s)	118
AsuC2I	CCSGG	1 cut(s)	615
AsuHPI	GGTGA	2 cut(s)	445, 446
AvaI	CYCGRG	2 cut(s)	138, 462
AvaII	GGWCC	1 cut(s)	118
AxyI	CCTNAGG	1 cut(s)	789
BanI	GGYRCC	1 cut(s)	735
BanII	GRGCYC	1 cut(s)	104
BauI	CACGAG	1 cut(s)	127
BbsI	GAAGAC	2 cut(s)	165, 201
BbvI	GCAGC	1 cut(s)	847
BccI	CCATC	3 cut(s)	433, 748, 843
BceAI	ACGGC	2 cut(s)	103, 826
BciT130I	CCWGG	1 cut(s)	256
BciVI	GTATCC	1 cut(s)	743
BclI	TGATCA	1 cut(s)	10
BcnI	CCSGG	1 cut(s)	615
BfaI	CTAG	1 cut(s)	191
BfuI	GTATCC	1 cut(s)	743
BglI	GCCNNNNNGGC	2 cut(s)	87, 465
BisI	GCNGC	2 cut(s)	858, 861
BlsI	GCNGC	2 cut(s)	859, 862
Bme1390I	CCNGG	2 cut(s)	256, 615
Bme18I	GGWCC	1 cut(s)	118
BmeT110I	CYCGRG	2 cut(s)	138, 462
BmgT120I	GGNCC	1 cut(s)	118
BmiI	GGNNCC	2 cut(s)	737, 762
BmrFI	CCNGG	2 cut(s)	256, 615
BpiI	GAAGAC	2 cut(s)	165, 201
BplI	GAGNNNNNCTC	2 cut(s)	121, 153
BpuMI	CCSGG	1 cut(s)	615
BsaHI	GRCGYC	1 cut(s)	90
BsaJI	CCNNGG	4 cut(s)	114, 255, 461, 572
BsaWI	WCCGGW	1 cut(s)	638
Bsc4I	CCNNNNNNNGG	3 cut(s)	463, 686, 746
Bse118I	RCCGGY	1 cut(s)	638
Bse1I	ACTGG	1 cut(s)	709
Bse21I	CCTNAGG	1 cut(s)	789
Bse3DI	GCAATG	1 cut(s)	771
BseBI	CCWGG	1 cut(s)	256
BseDI	CCNNGG	4 cut(s)	114, 255, 461, 572
BseGI	GGATG	2 cut(s)	854, 949
BseLI	CCNNNNNNNGG	3 cut(s)	463, 686, 746
BseMI	GCAATG	1 cut(s)	771
BseMII	CTCAG	2 cut(s)	369, 803
BseNI	ACTGG	1 cut(s)	709
BseRI	GAGGAG	2 cut(s)	509, 593
BseXI	GCAGC	1 cut(s)	847
BseYI	CCCAGC	1 cut(s)	755
BsgI	GTGCAG	1 cut(s)	660
Bsh1236I	CGCG	1 cut(s)	123
BshFI	GGCC	1 cut(s)	81
BshNI	GGYRCC	1 cut(s)	735
BshTI	ACCGGT	1 cut(s)	638
BsiHKCI	CYCGRG	2 cut(s)	138, 462
BsiSI	CCGG	2 cut(s)	614, 639
BslI	CCNNNNNNNGG	3 cut(s)	463, 686, 746
BsnI	GGCC	1 cut(s)	81
BsoBI	CYCGRG	2 cut(s)	138, 462
Bsp1286I	GDGCHC	1 cut(s)	104
Bsp143I	GATC	3 cut(s)	10, 166, 970
BspACI	CCGC	7 cut(s)	121, 177, 290, 457, 843, 857, 941
BspANI	GGCC	1 cut(s)	81
BspCNI	CTCAG	2 cut(s)	370, 802
BspFNI	CGCG	1 cut(s)	123
BspHI	TCATGA	1 cut(s)	529
BspLI	GGNNCC	2 cut(s)	737, 762
BspPI	GGATC	2 cut(s)	161, 978
BspQI	GCTCTTC	2 cut(s)	29, 244
BspT107I	GGYRCC	1 cut(s)	735
BsrDI	GCAATG	1 cut(s)	771
BsrFI	RCCGGY	1 cut(s)	638
BsrI	ACTGG	1 cut(s)	709
BssAI	RCCGGY	1 cut(s)	638
BssECI	CCNNGG	4 cut(s)	114, 255, 461, 572
BssMI	GATC	3 cut(s)	10, 166, 970
BssNI	GRCGYC	1 cut(s)	90
BssSI	CACGAG	1 cut(s)	127
BssT1I	CCWWGG	1 cut(s)	114
Bst2BI	CACGAG	1 cut(s)	127
Bst2UI	CCWGG	1 cut(s)	256
Bst4CI	ACNGT	1 cut(s)	109
Bst6I	CTCTTC	2 cut(s)	29, 244
BstACI	GRCGYC	1 cut(s)	90
BstAPI	GCANNNNNTGC	1 cut(s)	298
BstC8I	GCNNGC	2 cut(s)	900, 933
BstDEI	CTNAG	3 cut(s)	42, 378, 789
BstEII	GGTNACC	1 cut(s)	109
BstF5I	GGATG	2 cut(s)	854, 949
BstFNI	CGCG	1 cut(s)	123
BstHHI	GCGC	1 cut(s)	449
BstKTI	GATC	3 cut(s)	13, 169, 973
BstMBI	GATC	3 cut(s)	10, 166, 970
BstMWI	GCNNNNNNNGC	5 cut(s)	87, 129, 185, 298, 465
BstNI	CCWGG	1 cut(s)	256
BstNSI	RCATGY	2 cut(s)	206, 935
BstPI	GGTNACC	1 cut(s)	109
BstSCI	CCNGG	2 cut(s)	254, 613
BstUI	CGCG	1 cut(s)	123
BstV1I	GCAGC	1 cut(s)	847
BstV2I	GAAGAC	2 cut(s)	165, 201
Bsu36I	CCTNAGG	1 cut(s)	789
BsuI	GTATCC	1 cut(s)	743
BsuRI	GGCC	1 cut(s)	81
BtsCI	GGATG	2 cut(s)	854, 949
BtsI	GCAGTG	1 cut(s)	281
BtsIMutI	CAGTG	1 cut(s)	281
Cac8I	GCNNGC	2 cut(s)	900, 933
CciI	TCATGA	1 cut(s)	529
CfoI	GCGC	1 cut(s)	449
Cfr10I	RCCGGY	1 cut(s)	638
Cfr13I	GGNCC	1 cut(s)	118
CseI	GACGC	2 cut(s)	79, 112
Csp6I	GTAC	1 cut(s)	736
CspAI	ACCGGT	1 cut(s)	638
CviAII	CATG	4 cut(s)	203, 530, 835, 932
CviQI	GTAC	1 cut(s)	736
DdeI	CTNAG	3 cut(s)	42, 378, 789
DpnI	GATC	3 cut(s)	12, 168, 972
DpnII	GATC	3 cut(s)	10, 166, 970
DrdI	GACNNNNNNGTC	1 cut(s)	203
DseDI	GACNNNNNNGTC	1 cut(s)	203
EaeI	YGGCCR	1 cut(s)	79
Eam1104I	CTCTTC	2 cut(s)	29, 244
EarI	CTCTTC	2 cut(s)	29, 244
Eco130I	CCWWGG	1 cut(s)	114
Eco24I	GRGCYC	1 cut(s)	104
Eco47I	GGWCC	1 cut(s)	118
Eco81I	CCTNAGG	1 cut(s)	789
Eco88I	CYCGRG	2 cut(s)	138, 462
Eco91I	GGTNACC	1 cut(s)	109
EcoO65I	GGTNACC	1 cut(s)	109
EcoRII	CCWGG	1 cut(s)	254
EcoT14I	CCWWGG	1 cut(s)	114
EcoT38I	GRGCYC	1 cut(s)	104
ErhI	CCWWGG	1 cut(s)	114
FaeI	CATG	4 cut(s)	206, 533, 838, 935
FalI	AAGNNNNNCTT	2 cut(s)	383, 415
FatI	CATG	4 cut(s)	202, 529, 834, 931
FauI	CCCGC	1 cut(s)	836
FauNDI	CATATG	1 cut(s)	655
FbaI	TGATCA	1 cut(s)	10
Fnu4HI	GCNGC	2 cut(s)	858, 861
FokI	GGATG	2 cut(s)	861, 956
FriOI	GRGCYC	1 cut(s)	104
Fsp4HI	GCNGC	2 cut(s)	858, 861
FspBI	CTAG	1 cut(s)	191
GlaI	GCGC	1 cut(s)	448
GluI	GCNGC	2 cut(s)	858, 861
GsaI	CCCAGC	1 cut(s)	759
HaeIII	GGCC	1 cut(s)	81
HapII	CCGG	2 cut(s)	614, 639
HgaI	GACGC	2 cut(s)	79, 112
HhaI	GCGC	1 cut(s)	449
Hin1I	GRCGYC	1 cut(s)	90
Hin1II	CATG	4 cut(s)	206, 533, 838, 935
Hin6I	GCGC	1 cut(s)	447
HinP1I	GCGC	1 cut(s)	447
HinfI	GANTC	5 cut(s)	5, 197, 488, 497, 907
HpaII	CCGG	2 cut(s)	614, 639
HphI	GGTGA	2 cut(s)	445, 446
Hpy166II	GTNNAC	1 cut(s)	702
Hpy188I	TCNGA	5 cut(s)	10, 166, 493, 695, 895
Hpy188III	TCNNGA	5 cut(s)	127, 138, 530, 559, 974
Hpy8I	GTNNAC	1 cut(s)	702
Hpy99I	CGWCG	3 cut(s)	32, 95, 109
HpyAV	CCTTC	1 cut(s)	959
HpyCH4III	ACNGT	1 cut(s)	109
HpyCH4V	TGCA	4 cut(s)	301, 517, 677, 935
HpyF10VI	GCNNNNNNNGC	5 cut(s)	87, 129, 185, 298, 465
HpyF3I	CTNAG	3 cut(s)	42, 378, 789
Hsp92I	GRCGYC	1 cut(s)	90
Hsp92II	CATG	4 cut(s)	206, 533, 838, 935
HspAI	GCGC	1 cut(s)	447
KpnI	GGTACC	1 cut(s)	739
Ksp22I	TGATCA	1 cut(s)	10
Kzo9I	GATC	3 cut(s)	10, 166, 970
LguI	GCTCTTC	2 cut(s)	29, 244
Lsp1109I	GCAGC	1 cut(s)	847
MaeI	CTAG	1 cut(s)	191
MaeIII	GTNAC	5 cut(s)	109, 124, 373, 418, 584
MalI	GATC	3 cut(s)	12, 168, 972
MboI	GATC	3 cut(s)	10, 166, 970
MboII	GAAGA	9 cut(s)	16, 165, 206, 228, 244, 261, 355, 532, 656
MfeI	CAATTG	1 cut(s)	780
MhlI	GDGCHC	1 cut(s)	104
MluCI	AATT	3 cut(s)	328, 394, 780
MlyI	GAGTC	2 cut(s)	191, 506
MmeI	TCCRAC	1 cut(s)	363
MroXI	GAANNNNTTC	1 cut(s)	23
MseI	TTAA	1 cut(s)	390
MspA1I	CMGCKG	3 cut(s)	179, 902, 941
MspI	CCGG	2 cut(s)	614, 639
MspR9I	CCNGG	2 cut(s)	256, 615
MunI	CAATTG	1 cut(s)	780
MvaI	CCWGG	1 cut(s)	256
MvnI	CGCG	1 cut(s)	123
MwoI	GCNNNNNNNGC	5 cut(s)	87, 129, 185, 298, 465
NciI	CCSGG	1 cut(s)	615
NdeI	CATATG	1 cut(s)	655
NdeII	GATC	3 cut(s)	10, 166, 970
NlaIII	CATG	4 cut(s)	206, 533, 838, 935
NlaIV	GGNNCC	2 cut(s)	737, 762
NmeAIII	GCCGAG	2 cut(s)	393, 597
NmuCI	GTSAC	1 cut(s)	124
NspI	RCATGY	2 cut(s)	206, 935
PaeI	GCATGC	1 cut(s)	935
PaeR7I	CTCGAG	1 cut(s)	138
PagI	TCATGA	1 cut(s)	529
PciSI	GCTCTTC	2 cut(s)	29, 244
PdmI	GAANNNNTTC	1 cut(s)	23
PfeI	GAWTC	2 cut(s)	488, 907
PflFI	GACNNNGTC	1 cut(s)	122
PflMI	CCANNNNNTGG	1 cut(s)	746
PinAI	ACCGGT	1 cut(s)	638
PkrI	GCNGC	2 cut(s)	859, 862
PleI	GAGTC	2 cut(s)	191, 505
PpsI	GAGTC	2 cut(s)	191, 505
PsiI	TTATAA	1 cut(s)	684
Psp6I	CCWGG	1 cut(s)	254
PspEI	GGTNACC	1 cut(s)	109
PspFI	CCCAGC	1 cut(s)	755
PspGI	CCWGG	1 cut(s)	254
PspN4I	GGNNCC	2 cut(s)	737, 762
PspPI	GGNCC	1 cut(s)	118
PsyI	GACNNNGTC	1 cut(s)	122
PvuII	CAGCTG	1 cut(s)	902
RsaI	GTAC	1 cut(s)	737
RsaNI	GTAC	1 cut(s)	736
SapI	GCTCTTC	2 cut(s)	29, 244
SaqAI	TTAA	1 cut(s)	390
SatI	GCNGC	2 cut(s)	858, 861
Sau3AI	GATC	3 cut(s)	10, 166, 970
Sau96I	GGNCC	1 cut(s)	118
SchI	GAGTC	2 cut(s)	191, 506
ScrFI	CCNGG	2 cut(s)	256, 615
SduI	GDGCHC	1 cut(s)	104
SetI	ASST	6 cut(s)	24, 225, 558, 682, 718, 904
Sfr274I	CTCGAG	1 cut(s)	138
SinI	GGWCC	1 cut(s)	118
SlaI	CTCGAG	1 cut(s)	138
SmlI	CTYRAG	1 cut(s)	138
SmoI	CTYRAG	1 cut(s)	138
SphI	GCATGC	1 cut(s)	935
Sse9I	AATT	3 cut(s)	328, 394, 780
SsiI	CCGC	7 cut(s)	121, 177, 290, 457, 843, 857, 941
SspMI	CTAG	1 cut(s)	191
StyD4I	CCNGG	2 cut(s)	254, 613
StyI	CCWWGG	1 cut(s)	114
TaaI	ACNGT	1 cut(s)	109
TaqI	TCGA	4 cut(s)	104, 139, 631, 973
TasI	AATT	3 cut(s)	328, 394, 780
TauI	GCSGC	1 cut(s)	860
TfiI	GAWTC	2 cut(s)	488, 907
Tru1I	TTAA	1 cut(s)	390
Tru9I	TTAA	1 cut(s)	390
TscAI	CASTG	1 cut(s)	288
TseFI	GTSAC	1 cut(s)	124
TseI	GCWGC	1 cut(s)	860
Tsp45I	GTSAC	1 cut(s)	124
TspDTI	ATGAA	2 cut(s)	466, 518
TspGWI	ACGGA	1 cut(s)	159
TspRI	CASTG	1 cut(s)	288
Tth111I	GACNNNGTC	1 cut(s)	122
Van91I	CCANNNNNTGG	1 cut(s)	746
VpaK11BI	GGWCC	1 cut(s)	118
XceI	RCATGY	2 cut(s)	206, 935
XhoI	CTCGAG	1 cut(s)	138
XmnI	GAANNNNTTC	1 cut(s)	23
XspI	CTAG	1 cut(s)	191

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