Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0000353

Physical Location & Seq

Genomic Coordinates Reverse (-)

41121447 .. 41125384

Gene Structure 3938 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0342000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGGCGGCCCTCGATCCTCTCTCTCCTCTCTCCCTCTTCAGCCCCCTCGCATCATTGAGTGCCTCGTTAGCGATGAGACTGGAACCATTGTCTTCACTGCTCGCAATGACCAAGGGTGTTGGGTTGTTGTGTTGTGGAATTGTGGGTGTGGTTGATATGACAATAGGATTGTGGAGCATTTGTACCCTACAGAATGCAAAGATTGACATTATGAAGCCTGGTACCACTGTGATTCCACGCAATGCAAAGATTGACATGTTCATCAAGGGTACTATGAGGCTTGCAGTTGATAAATGGGGTAGTGTTGAAGTCACAGAACCAGCCAGCTTTGAAGTCAAGGAGGTGAAAAGTGGAAAAAGTAGCTTAGAGCAGATATCTAGAGTTTACGGAAATCAGGTTCTACACATGGATAGGAATGACTATTACGGAGGAGAGTGTGCATCACTTAATCTTATTCAGAGGTTCAGGGGAGATGATAAGCCCCCAGCCCAGTTGGGCTCTAGTAGGGATTATAATGTGGACATGGTCCCTAAGTTTATGATGGCCAATGGAACTCTAGTGCGTGTCCTCATTCATACAGATGTTACCAAGTATTTGTCCTTCAAAGCTGTGGATGGCAGTTTTGTCTATAATAAAGGAAAGGTTCACAAGGTTCCAGCAAATGATATGGAGGCACTTAAATCTCCACTCATGGGTCTATTTGAAAAGCGCCGTGCATGCAAGTTCTTCATAGAGATGATCGCTACCTGGATGAACCTGCACTGGATACTATGTTTCGTCATTGTCATGCACTTGAGTTTTCCCTATTGTTTATCTATTGCACGTTTTCAAGGAGGATCTCCATACATTTATCCTTTGTATAGACTAGGAGAGCTTCCTCAGGCATTTGCACGACTTAGTGCGGTTTATGGTGGTACTTATATGCTTAATAAACCTGAATGCAAGGTGGAGTTCAATGAGGAAGGGAAAGTTATTGGTGTCACATCTGAAGGTGAAACTGCCAAGTGCACTAAAGTTGTCTGTGACCCTTCTTACTTACCCAACAAGTATCTTATGTGCATGTTGAAGATCGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006417 GO:0006446 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010608 GO:0010628 GO:0016070 GO:0016787 GO:0016788 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032268 GO:0032270 GO:0034248 GO:0034250 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045727 GO:0045948 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0065007 GO:0070129 GO:0070131 GO:0070132 GO:0070134 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:2000112

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_3

Protein Analysis

358

Amino Acids

39.77

Weight (kDa)

8.74

Isoelectric Point (pI)

34.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
OB_Ssb-like	PF21473	60 - 104	4.7e-15	Single-stranded DNA binding protein Ssb-like, OB fold
GDI	PF00996	126 - 244	4.1e-56	GDP dissociation inhibitor
GDI	PF00996	269 - 350	2e-36	GDP dissociation inhibitor

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: OG0000353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G07020 AT5G35380
fragaria_vesca	FvH4_1g27800 FvH4_1g27800 FvH4_1g27800 FvH4_1g27800 FvH4_1g27800 FvH4_6g28460 FvH4_6g29380 FvH4_6g29380 FvH4_6g29380 FvH4_6g29380 FvH4_6g29580 FvH4_6g29580 FvH4_6g29581
malus_domestica	MD02G1258200.v1.1 MD09G1226500.v1.1 MD13G1232900.v1.1 MD13G1233000.v1.1 MD17G1212900.v1.1 MD17G1215300.v1.1 MD17G1215400.v1.1 MD17G1224800.v1.1
prunus_persica	Prupe.1G064300_v2.0.a1 Prupe.2G073500_v2.0.a1 Prupe.2G073500_v2.0.a1 Prupe.3G088300_v2.0.a1 Prupe.3G091100_v2.0.a1 Prupe.3G100600_v2.0.a1
pyrus_communis	pycom02g21950 pycom09g14550 pycom13g20580 pycom17g21790 pycom17g21970 pycom17g22850
rosa_chinensis	RchiOBHm_Chr1g0332091 RchiOBHm_Chr2g0132681 RchiOBHm_Chr2g0134781 RchiOBHm_Chr2g0135161 RchiOBHm_Chr2g0135181 RchiOBHm_Chr2g0135191 RchiOBHm_Chr2g0135201 RchiOBHm_Chr4g0397641 RchiOBHm_Chr4g0397651
rosa_laevigata	RLG00000009421 RLG00000019421 RLG00000019446 RLG00000019447 RLG00000029693
rosa_multiflora	Rmu_co8345215.1_g000001 Rmu_sc0000100.1_g000004 Rmu_sc0000718.1_g000015 Rmu_sc0002729.1_g000006 Rmu_sc0003358.1_g000008 Rmu_sc0004216.1_g000001 Rmu_sc0013462.1_g000001 Rmu_sc0013462.1_g000002 Rmu_sc0016837.1_g000002 Rmu_sc0021270.1_g000001 Rmu_sc0021634.1_g000001 Rmu_sc0024706.1_g000001
rosa_roxburghii	Rroxscaffold_2G00109410 Rroxscaffold_2G00109420 Rroxscaffold_2G00109760 Rroxscaffold_4G00318390 Rroxscaffold_5G00342450 Rroxscaffold_5G00342460
rosa_rugosa	Rorug01G0098200 Rorug01G0098300 Rorug02G0306000 Rorug02G0320000 Rorug02G0323800 Rorug02G0323800 Rorug03G0342000 Rorug03G0342100
rosa_samantha	Rh1AG006500 Rh1AG122200 Rh1BG093600 Rh1CG116800 Rh2AG359000 Rh2AG371300 Rh2AG371400 Rh2AG373600 Rh2BG365600 Rh2BG377600 Rh2BG380100 Rh2BG380200 Rh2BG380300 Rh2CG342200 Rh2CG356000 Rh2CG359300 Rh2CG359600 Rh2DG382100 Rh2DG394600 Rh2DG396600 Rh2DG396700 Rh2DG396800 Rh2DG396900 Rh4BG077700 Rh4CG085500 Rh4DG072600
rosa_wichuraiana	Rw1G009960 Rw2G029220 Rw2G030290 Rw2G030560 Rw2G030570 Rw4G006520

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	513
Acc36I	ACCTGC	1 cut(s)	765
Acc65I	GGTACC	1 cut(s)	221
AccB1I	GGYRCC	1 cut(s)	221
AciI	CCGC	2 cut(s)	5, 902
AclWI	GGATC	2 cut(s)	8, 844
AcoI	YGGCCR	1 cut(s)	543
AcuI	CTGAAG	2 cut(s)	22, 1008
AfaI	GTAC	4 cut(s)	184, 223, 271, 916
AfiI	CCNNNNNNNGG	1 cut(s)	692
AflIII	ACRYGT	1 cut(s)	255
AgsI	TTSAA	7 cut(s)	308, 332, 604, 704, 830, 955, 1066
AjnI	CCWGG	2 cut(s)	217, 746
AloI	GAACNNNNNNTCC	2 cut(s)	381, 413
AluBI	AGCT	4 cut(s)	327, 363, 608, 874
AluI	AGCT	4 cut(s)	327, 363, 608, 874
Alw21I	GWGCWC	1 cut(s)	1010
Alw26I	GTCTC	1 cut(s)	70
Alw44I	GTGCAC	1 cut(s)	1006
AlwI	GGATC	2 cut(s)	8, 844
AoxI	GGCC	2 cut(s)	6, 543
ApaLI	GTGCAC	1 cut(s)	1006
Asp718I	GGTACC	1 cut(s)	221
AspLEI	GCGC	1 cut(s)	711
AspS9I	GGNCC	2 cut(s)	7, 526
AsuHPI	GGTGA	2 cut(s)	355, 1004
AvaII	GGWCC	1 cut(s)	526
AxyI	CCTNAGG	1 cut(s)	879
BaeGI	GKGCMC	1 cut(s)	1010
BaeI	ACNNNNGTAYC	2 cut(s)	213, 246
BalI	TGGCCA	1 cut(s)	545
BanI	GGYRCC	1 cut(s)	221
BanII	GRGCYC	1 cut(s)	500
BarI	GAAGNNNNNNTAC	2 cut(s)	584, 616
BbsI	GAAGAC	1 cut(s)	84
Bbv12I	GWGCWC	1 cut(s)	1010
BccI	CCATC	2 cut(s)	535, 608
BceAI	ACGGC	1 cut(s)	696
BciT130I	CCWGG	2 cut(s)	219, 748
BciVI	GTATCC	1 cut(s)	759
BcoDI	GTCTC	1 cut(s)	70
BfaI	CTAG	4 cut(s)	378, 501, 557, 866
BfmI	CTRYAG	1 cut(s)	188
BfoI	RGCGCY	1 cut(s)	712
BfuAI	ACCTGC	1 cut(s)	765
BfuI	GTATCC	1 cut(s)	759
BisI	GCNGC	1 cut(s)	6
BlsI	GCNGC	1 cut(s)	7
Bme1390I	CCNGG	2 cut(s)	219, 748
Bme18I	GGWCC	1 cut(s)	526
BmgT120I	GGNCC	2 cut(s)	7, 526
BmiI	GGNNCC	4 cut(s)	84, 223, 528, 654
BmrFI	CCNGG	2 cut(s)	219, 748
BmrI	ACTGGG	1 cut(s)	484
BmsI	GCATC	2 cut(s)	59, 449
BmuI	ACTGGG	1 cut(s)	484
BpiI	GAAGAC	1 cut(s)	84
BpuEI	CTTGAG	1 cut(s)	814
BsaJI	CCNNGG	1 cut(s)	111
BsaXI	ACNNNNNCTCC	2 cut(s)	166, 196
Bsc4I	CCNNNNNNNGG	1 cut(s)	692
Bse1I	ACTGG	3 cut(s)	84, 490, 767
Bse21I	CCTNAGG	1 cut(s)	879
Bse3DI	GCAATG	2 cut(s)	111, 247
BseBI	CCWGG	2 cut(s)	219, 748
BseDI	CCNNGG	1 cut(s)	111
BseGI	GGATG	2 cut(s)	619, 756
BseLI	CCNNNNNNNGG	1 cut(s)	692
BseMI	GCAATG	2 cut(s)	111, 247
BseMII	CTCAG	1 cut(s)	893
BseNI	ACTGG	3 cut(s)	84, 490, 767
BseRI	GAGGAG	2 cut(s)	15, 444
BseSI	GKGCMC	1 cut(s)	1010
BseYI	CCCAGC	1 cut(s)	484
BsgI	GTGCAG	1 cut(s)	743
BshFI	GGCC	2 cut(s)	8, 545
BshNI	GGYRCC	1 cut(s)	221
BsiHKAI	GWGCWC	1 cut(s)	1010
BslFI	GGGAC	1 cut(s)	512
BslI	CCNNNNNNNGG	1 cut(s)	692
BsmAI	GTCTC	1 cut(s)	70
BsmFI	GGGAC	1 cut(s)	512
BsmI	GAATGC	2 cut(s)	199, 944
BsnI	GGCC	2 cut(s)	8, 545
Bsp1286I	GDGCHC	2 cut(s)	500, 1010
Bsp143I	GATC	4 cut(s)	13, 738, 836, 1068
BspACI	CCGC	2 cut(s)	5, 902
BspANI	GGCC	2 cut(s)	8, 545
BspCNI	CTCAG	1 cut(s)	892
BspLI	GGNNCC	4 cut(s)	84, 223, 528, 654
BspMI	ACCTGC	1 cut(s)	765
BspPI	GGATC	2 cut(s)	8, 844
BspT107I	GGYRCC	1 cut(s)	221
BsrDI	GCAATG	2 cut(s)	111, 247
BsrI	ACTGG	3 cut(s)	84, 490, 767
BssECI	CCNNGG	1 cut(s)	111
BssMI	GATC	4 cut(s)	13, 738, 836, 1068
BssT1I	CCWWGG	1 cut(s)	111
Bst2UI	CCWGG	2 cut(s)	219, 748
Bst4CI	ACNGT	1 cut(s)	229
Bst6I	CTCTTC	1 cut(s)	41
BstC8I	GCNNGC	4 cut(s)	102, 282, 325, 718
BstDEI	CTNAG	4 cut(s)	364, 531, 879, 896
BstF5I	GGATG	2 cut(s)	619, 756
BstH2I	RGCGCY	1 cut(s)	712
BstHHI	GCGC	1 cut(s)	711
BstKTI	GATC	4 cut(s)	16, 741, 839, 1071
BstMAI	GTCTC	1 cut(s)	70
BstMBI	GATC	4 cut(s)	13, 738, 836, 1068
BstMWI	GCNNNNNNNGC	2 cut(s)	68, 717
BstNI	CCWGG	2 cut(s)	219, 748
BstNSI	RCATGY	3 cut(s)	259, 720, 1063
BstSCI	CCNGG	2 cut(s)	217, 746
BstSFI	CTRYAG	1 cut(s)	188
BstSLI	GKGCMC	1 cut(s)	1010
BstV2I	GAAGAC	1 cut(s)	84
BstX2I	RGATCY	1 cut(s)	836
BstYI	RGATCY	1 cut(s)	836
Bsu36I	CCTNAGG	1 cut(s)	879
BsuI	GTATCC	1 cut(s)	759
BsuRI	GGCC	2 cut(s)	8, 545
BtgZI	GCGATG	1 cut(s)	86
BtsCI	GGATG	2 cut(s)	619, 756
BtsI	GCAGTG	1 cut(s)	95
BtsIMutI	CAGTG	3 cut(s)	95, 225, 760
BveI	ACCTGC	1 cut(s)	765
Cac8I	GCNNGC	4 cut(s)	102, 282, 325, 718
CfoI	GCGC	1 cut(s)	711
Cfr13I	GGNCC	2 cut(s)	7, 526
Csp6I	GTAC	4 cut(s)	183, 222, 270, 915
CviAII	CATG	7 cut(s)	256, 406, 523, 691, 717, 787, 1060
CviQI	GTAC	4 cut(s)	183, 222, 270, 915
DdeI	CTNAG	4 cut(s)	364, 531, 879, 896
DpnI	GATC	4 cut(s)	15, 740, 838, 1070
DpnII	GATC	4 cut(s)	13, 738, 836, 1068
EaeI	YGGCCR	1 cut(s)	543
Eam1104I	CTCTTC	1 cut(s)	41
EarI	CTCTTC	1 cut(s)	41
Eco130I	CCWWGG	1 cut(s)	111
Eco24I	GRGCYC	1 cut(s)	500
Eco32I	GATATC	1 cut(s)	375
Eco47I	GGWCC	1 cut(s)	526
Eco57I	CTGAAG	2 cut(s)	22, 1008
Eco81I	CCTNAGG	1 cut(s)	879
EcoRII	CCWGG	2 cut(s)	217, 746
EcoRV	GATATC	1 cut(s)	375
EcoT14I	CCWWGG	1 cut(s)	111
EcoT38I	GRGCYC	1 cut(s)	500
ErhI	CCWWGG	1 cut(s)	111
FaeI	CATG	7 cut(s)	259, 409, 526, 694, 720, 790, 1063
FaqI	GGGAC	1 cut(s)	512
FatI	CATG	7 cut(s)	255, 405, 522, 690, 716, 786, 1059
Fnu4HI	GCNGC	1 cut(s)	6
FokI	GGATG	2 cut(s)	626, 763
FriOI	GRGCYC	1 cut(s)	500
Fsp4HI	GCNGC	1 cut(s)	6
FspBI	CTAG	4 cut(s)	378, 501, 557, 866
GlaI	GCGC	1 cut(s)	710
GluI	GCNGC	1 cut(s)	6
GsaI	CCCAGC	1 cut(s)	488
HaeII	RGCGCY	1 cut(s)	712
HaeIII	GGCC	2 cut(s)	8, 545
HhaI	GCGC	1 cut(s)	711
Hin1II	CATG	7 cut(s)	259, 409, 526, 694, 720, 790, 1063
Hin6I	GCGC	1 cut(s)	709
HinP1I	GCGC	1 cut(s)	709
HinfI	GANTC	1 cut(s)	232
HphI	GGTGA	2 cut(s)	355, 1004
Hpy166II	GTNNAC	4 cut(s)	385, 520, 646, 1008
Hpy188I	TCNGA	2 cut(s)	459, 988
Hpy188III	TCNNGA	1 cut(s)	378
Hpy8I	GTNNAC	4 cut(s)	385, 520, 646, 1008
HpyAV	CCTTC	4 cut(s)	610, 956, 983, 1038
HpyCH4III	ACNGT	1 cut(s)	229
HpyCH4IV	ACGT	1 cut(s)	823
HpyF10VI	GCNNNNNNNGC	2 cut(s)	68, 717
HpyF3I	CTNAG	4 cut(s)	364, 531, 879, 896
HpySE526I	ACGT	1 cut(s)	823
Hsp92II	CATG	7 cut(s)	259, 409, 526, 694, 720, 790, 1063
HspAI	GCGC	1 cut(s)	709
KpnI	GGTACC	1 cut(s)	225
Kzo9I	GATC	4 cut(s)	13, 738, 836, 1068
LmnI	GCTCC	1 cut(s)	174
LweI	GCATC	2 cut(s)	59, 449
MaeI	CTAG	4 cut(s)	378, 501, 557, 866
MaeII	ACGT	1 cut(s)	823
MaeIII	GTNAC	4 cut(s)	310, 583, 979, 1022
MalI	GATC	4 cut(s)	15, 740, 838, 1070
MboI	GATC	4 cut(s)	13, 738, 836, 1068
MboII	GAAGA	3 cut(s)	28, 84, 718
MflI	RGATCY	1 cut(s)	836
MhlI	GDGCHC	2 cut(s)	500, 1010
MlsI	TGGCCA	1 cut(s)	545
MluCI	AATT	1 cut(s)	138
MluNI	TGGCCA	1 cut(s)	545
Mox20I	TGGCCA	1 cut(s)	545
MscI	TGGCCA	1 cut(s)	545
MseI	TTAA	3 cut(s)	447, 678, 927
MslI	CAYNNNNRTG	3 cut(s)	579, 734, 785
Msp20I	TGGCCA	1 cut(s)	545
MspR9I	CCNGG	2 cut(s)	219, 748
Mva1269I	GAATGC	2 cut(s)	199, 944
MvaI	CCWGG	2 cut(s)	219, 748
MwoI	GCNNNNNNNGC	2 cut(s)	68, 717
NdeII	GATC	4 cut(s)	13, 738, 836, 1068
NlaIII	CATG	7 cut(s)	259, 409, 526, 694, 720, 790, 1063
NlaIV	GGNNCC	4 cut(s)	84, 223, 528, 654
NmuCI	GTSAC	3 cut(s)	310, 979, 1022
NspI	RCATGY	3 cut(s)	259, 720, 1063
PaeI	GCATGC	1 cut(s)	720
PciI	ACATGT	1 cut(s)	255
PctI	GAATGC	2 cut(s)	199, 944
PfeI	GAWTC	1 cut(s)	232
PflFI	GACNNNGTC	1 cut(s)	524
PkrI	GCNGC	1 cut(s)	7
PscI	ACATGT	1 cut(s)	255
PsiI	TTATAA	1 cut(s)	513
Psp6I	CCWGG	2 cut(s)	217, 746
PspFI	CCCAGC	1 cut(s)	484
PspGI	CCWGG	2 cut(s)	217, 746
PspN4I	GGNNCC	4 cut(s)	84, 223, 528, 654
PspPI	GGNCC	2 cut(s)	7, 526
PsuI	RGATCY	1 cut(s)	836
PsyI	GACNNNGTC	1 cut(s)	524
RsaI	GTAC	4 cut(s)	184, 223, 271, 916
RsaNI	GTAC	4 cut(s)	183, 222, 270, 915
RseI	CAYNNNNRTG	3 cut(s)	579, 734, 785
SaqAI	TTAA	3 cut(s)	447, 678, 927
SatI	GCNGC	1 cut(s)	6
Sau3AI	GATC	4 cut(s)	13, 738, 836, 1068
Sau96I	GGNCC	2 cut(s)	7, 526
ScrFI	CCNGG	2 cut(s)	219, 748
SduI	GDGCHC	2 cut(s)	500, 1010
SfaNI	GCATC	2 cut(s)	59, 449
SfcI	CTRYAG	1 cut(s)	188
SinI	GGWCC	1 cut(s)	526
SmiMI	CAYNNNNRTG	3 cut(s)	579, 734, 785
SmlI	CTYRAG	1 cut(s)	793
SmoI	CTYRAG	1 cut(s)	793
SphI	GCATGC	1 cut(s)	720
Sse9I	AATT	1 cut(s)	138
SsiI	CCGC	2 cut(s)	5, 902
SspMI	CTAG	4 cut(s)	378, 501, 557, 866
StyD4I	CCNGG	2 cut(s)	217, 746
StyI	CCWWGG	1 cut(s)	111
TaaI	ACNGT	1 cut(s)	229
TaiI	ACGT	1 cut(s)	826
TaqI	TCGA	2 cut(s)	12, 1071
TasI	AATT	1 cut(s)	138
TauI	GCSGC	1 cut(s)	8
TfiI	GAWTC	1 cut(s)	232
Tru1I	TTAA	3 cut(s)	447, 678, 927
Tru9I	TTAA	3 cut(s)	447, 678, 927
TscAI	CASTG	3 cut(s)	102, 232, 767
TseFI	GTSAC	3 cut(s)	310, 979, 1022
Tsp45I	GTSAC	3 cut(s)	310, 979, 1022
TspDTI	ATGAA	5 cut(s)	227, 250, 563, 718, 767
TspGWI	ACGGA	2 cut(s)	402, 441
TspRI	CASTG	3 cut(s)	102, 232, 767
Tth111I	GACNNNGTC	1 cut(s)	524
VneI	GTGCAC	1 cut(s)	1006
VpaK11BI	GGWCC	1 cut(s)	526
XbaI	TCTAGA	1 cut(s)	377
XceI	RCATGY	3 cut(s)	259, 720, 1063
XspI	CTAG	4 cut(s)	378, 501, 557, 866

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