Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0001709

Physical Location & Seq

Genomic Coordinates Forward (+)

40166426 .. 40167685

Gene Structure 1260 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0331600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1260 bp

ATGATTAACTTGCAAAAATCTAGTGTTGTATTCAGTGGTAGTGTCAGTCTACGAACAAAGAACCACTTGGCTTCTATTCTGGGTGTTCAGTGTGTTAATGAGCATGGGTTGTATTTGGGATTACCTATTCATGTAGGTCATAACAAAACTGCAATCTTTGCATTTCTGAAGGAACGACTCACTAAGAAGTTAATCAGTTGGAGGTCAAAGGTTCTTAGTGCAGGAGGTAAAGAGTTGCTTATTAAAGTAGTAGCTCAGACTTTACCTAATTATGTTATGAACTGCTATTTGTTACCTCGGTCACTCTGTGATGACTTGCAGCAGCTTTGTTCCCAATTCTTTTGGGGGAGTACAGATGAAAAAAGAAAAATCCATTGGAGATCCTGGGAGAGAATGTGTCTTCCCAAGGAAGGAGGAGGTATGGGTTTTAAATTTCTGTATGCACATAATCTTGCTATGCTCTCAAAACAAGGCTGGAGAATTCTCTCTAATCCGGACTCCTTGGTTGCTCGAGTGTTTCATGCTGTTTATTACCCCCATGGAAATTTTCTTAATGCTGACATGGGAGATAGACCATCATATTCATGGAGAAGTATAATGGAGGCCCGACCTATCTTAAAAGCTGGACTTTCTTGGAGAATTGGTAATGGTACCTCTGTGAATATTTGGGAGGATGATTGGATCCCGAATGTCCCCTCTCATTCTTTACTCAAACCCAATGATTCGATTTTTGAGCTGGTATCAGACTTGATAGATGTTAATTCTTGGTCTTGGGATGTTGTGGCTGTTCAGTCTTGTTTCACGCCTGAAGTGGCTACTCATGTGATATCCATTCCATTGAGTCGACGATATGGTGTTGATAAAGTTGCATGGAAGTTCAATAAAAAGGGTTATTTCTCTGTTAAGTCGGCCTACAAAATAGTTGCTTCATCATCTAATGGGGATCCCTATGTTCCTATTTGGAAGGCATTATGGAAAGCAAAAGTTCCAAATAAGGTGGCTATTTTTGGGTGGAGAGTAGCTCATAATCTCCTCCCTACTAGAGTTGCATTGACTTCTAAAGGCTATTCAGGCGAGCTGCATTGTGTTCTCTGTTCTCAGGCTATTGAAACCATTGAGCATTTATTTTGCGAATGTGGTATTGCTAGAGAGATCTTGGGTGCCCCCCCCCCCCCCCCCCCCCCCCCGGTTTTCCTTTTCTTCTTCCAGTTTTCCTTGGAAAGAGTGGTTATTGGAGAAGGCTACTTCTCTAACTTCTAG

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:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

419

Amino Acids

47.26

Weight (kDa)

9.34

Isoelectric Point (pI)

37.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	299 - 384	1e-20	zinc-binding in reverse transcriptase

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: OG0001709)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G76280 AT1G76280 AT1G76280 AT1G76280 AT1G76280
fragaria_vesca	FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510 FvH4_2g37510
malus_domestica	MD08G1002500.v1.1
prunus_persica	Prupe.2G013700_v2.0.a1 Prupe.2G013700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0270441 RchiOBHm_Chr6g0304231
rosa_laevigata	RLG00000011004 RLG00000013792 RLG00000035378
rosa_multiflora	Rmu_sc0009479.1_g000010 Rmu_ssc0000218.1_g000015
rosa_roxburghii	Rroxscaffold_7G00163950 Rroxscaffold_7G00197930
rosa_rugosa	Rorug05G0331600 Rorug05G0331700 Rorug06G0329000
rosa_samantha	Rh5AG395800 Rh6AG173300 Rh6AG442800 Rh6BG177200 Rh6BG459900 Rh6CG173000 Rh6CG455200 Rh6DG165400 Rh6DG442200
rosa_wichuraiana	Rw0G006810 Rw5G037260 Rw6G014750 Rw6G038390

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	650
AccB1I	GGYRCC	2 cut(s)	650, 1160
AccI	GTMKAC	2 cut(s)	49, 844
AccIII	TCCGGA	1 cut(s)	493
AclWI	GGATC	5 cut(s)	375, 676, 689, 938, 951
AcsI	RAATTY	3 cut(s)	431, 480, 544
AcuI	CTGAAG	2 cut(s)	188, 828
AdeI	CACNNNGTG	1 cut(s)	308
AfaI	GTAC	2 cut(s)	352, 652
AfiI	CCNNNNNNNGG	2 cut(s)	410, 1186
AgsI	TTSAA	2 cut(s)	880, 1109
AjnI	CCWGG	1 cut(s)	383
AjuI	GAANNNNNNNTTGG	2 cut(s)	358, 390
AluBI	AGCT	6 cut(s)	254, 325, 623, 736, 1022, 1078
AluI	AGCT	6 cut(s)	254, 325, 623, 736, 1022, 1078
AlwI	GGATC	5 cut(s)	375, 676, 689, 938, 951
Ama87I	CYCGRG	1 cut(s)	510
Aor13HI	TCCGGA	1 cut(s)	493
AoxI	GGCC	2 cut(s)	603, 909
ApeKI	GCWGC	3 cut(s)	319, 322, 1078
ApoI	RAATTY	3 cut(s)	431, 480, 544
Asp718I	GGTACC	1 cut(s)	650
AspS9I	GGNCC	1 cut(s)	604
AsuC2I	CCSGG	1 cut(s)	1187
AvaI	CYCGRG	1 cut(s)	510
BaeGI	GKGCMC	1 cut(s)	1165
BaeI	ACNNNNGTAYC	2 cut(s)	642, 675
BamHI	GGATCC	2 cut(s)	681, 943
BanI	GGYRCC	2 cut(s)	650, 1160
BbsI	GAAGAC	1 cut(s)	392
BbvI	GCAGC	3 cut(s)	331, 334, 1065
BccI	CCATC	1 cut(s)	583
BciT130I	CCWGG	1 cut(s)	385
BcnI	CCSGG	1 cut(s)	1187
BfaI	CTAG	4 cut(s)	21, 1041, 1146, 1258
BglII	AGATCT	1 cut(s)	1152
BisI	GCNGC	3 cut(s)	320, 323, 1079
BlsI	GCNGC	3 cut(s)	321, 324, 1080
Bme1390I	CCNGG	2 cut(s)	385, 1187
BmeT110I	CYCGRG	1 cut(s)	510
BmgT120I	GGNCC	1 cut(s)	604
BmiI	GGNNCC	4 cut(s)	652, 683, 945, 1162
BmrFI	CCNGG	2 cut(s)	385, 1187
BpiI	GAAGAC	1 cut(s)	392
BplI	GAGNNNNNCTC	2 cut(s)	1006, 1038
BpmI	CTGGAG	1 cut(s)	496
BpuMI	CCSGG	1 cut(s)	1187
BsaJI	CCNNGG	7 cut(s)	296, 384, 405, 501, 538, 1185, 1215
BsaWI	WCCGGW	1 cut(s)	493
BsaXI	ACNNNNNCTCC	4 cut(s)	380, 410, 628, 658
Bsc4I	CCNNNNNNNGG	2 cut(s)	410, 1186
Bse1I	ACTGG	1 cut(s)	1207
BseAI	TCCGGA	1 cut(s)	493
BseBI	CCWGG	1 cut(s)	385
BseDI	CCNNGG	7 cut(s)	296, 384, 405, 501, 538, 1185, 1215
BseGI	GGATG	2 cut(s)	679, 781
BseLI	CCNNNNNNNGG	2 cut(s)	410, 1186
BseMII	CTCAG	2 cut(s)	269, 1112
BseNI	ACTGG	1 cut(s)	1207
BseRI	GAGGAG	2 cut(s)	429, 1022
BseSI	GKGCMC	1 cut(s)	1165
BseXI	GCAGC	3 cut(s)	331, 334, 1065
BsgI	GTGCAG	1 cut(s)	240
BshFI	GGCC	2 cut(s)	605, 911
BshNI	GGYRCC	2 cut(s)	650, 1160
BsiHKCI	CYCGRG	1 cut(s)	510
BsiSI	CCGG	2 cut(s)	494, 1187
BslFI	GGGAC	1 cut(s)	677
BslI	CCNNNNNNNGG	2 cut(s)	410, 1186
BsmFI	GGGAC	1 cut(s)	677
BsnI	GGCC	2 cut(s)	605, 911
BsoBI	CYCGRG	1 cut(s)	510
Bsp1286I	GDGCHC	1 cut(s)	1165
Bsp13I	TCCGGA	1 cut(s)	493
Bsp143I	GATC	4 cut(s)	380, 681, 943, 1152
Bsp19I	CCATGG	1 cut(s)	538
BspANI	GGCC	2 cut(s)	605, 911
BspCNI	CTCAG	2 cut(s)	268, 1111
BspEI	TCCGGA	1 cut(s)	493
BspLI	GGNNCC	4 cut(s)	652, 683, 945, 1162
BspPI	GGATC	5 cut(s)	375, 676, 689, 938, 951
BspT107I	GGYRCC	2 cut(s)	650, 1160
BsrI	ACTGG	1 cut(s)	1207
BssECI	CCNNGG	7 cut(s)	296, 384, 405, 501, 538, 1185, 1215
BssMI	GATC	4 cut(s)	380, 681, 943, 1152
BssT1I	CCWWGG	4 cut(s)	405, 501, 538, 1215
Bst2UI	CCWGG	1 cut(s)	385
BstAPI	GCANNNNNTGC	1 cut(s)	158
BstC8I	GCNNGC	1 cut(s)	1076
BstDEI	CTNAG	4 cut(s)	183, 215, 255, 1098
BstDSI	CCRYGG	1 cut(s)	538
BstF5I	GGATG	2 cut(s)	679, 781
BstKTI	GATC	4 cut(s)	383, 684, 946, 1155
BstMBI	GATC	4 cut(s)	380, 681, 943, 1152
BstMWI	GCNNNNNNNGC	2 cut(s)	158, 1071
BstNI	CCWGG	1 cut(s)	385
BstSCI	CCNGG	2 cut(s)	383, 1185
BstSLI	GKGCMC	1 cut(s)	1165
BstV1I	GCAGC	3 cut(s)	331, 334, 1065
BstV2I	GAAGAC	1 cut(s)	392
BstX2I	RGATCY	4 cut(s)	380, 681, 943, 1152
BstYI	RGATCY	4 cut(s)	380, 681, 943, 1152
BsuRI	GGCC	2 cut(s)	605, 911
BtgI	CCRYGG	1 cut(s)	538
BtsCI	GGATG	2 cut(s)	679, 781
BtsIMutI	CAGTG	2 cut(s)	40, 95
Cac8I	GCNNGC	1 cut(s)	1076
Cfr13I	GGNCC	1 cut(s)	604
Csp6I	GTAC	2 cut(s)	351, 651
CspCI	CAANNNNNGTGG	2 cut(s)	978, 1013
CviAII	CATG	8 cut(s)	104, 131, 521, 539, 562, 585, 821, 870
CviQI	GTAC	2 cut(s)	351, 651
DdeI	CTNAG	4 cut(s)	183, 215, 255, 1098
DpnI	GATC	4 cut(s)	382, 683, 945, 1154
DpnII	GATC	4 cut(s)	380, 681, 943, 1152
DraI	TTTAAA	1 cut(s)	430
DraIII	CACNNNGTG	1 cut(s)	308
Eco130I	CCWWGG	4 cut(s)	405, 501, 538, 1215
Eco32I	GATATC	1 cut(s)	828
Eco57I	CTGAAG	2 cut(s)	188, 828
Eco88I	CYCGRG	1 cut(s)	510
EcoRI	GAATTC	1 cut(s)	480
EcoRII	CCWGG	1 cut(s)	383
EcoRV	GATATC	1 cut(s)	828
EcoT14I	CCWWGG	4 cut(s)	405, 501, 538, 1215
ErhI	CCWWGG	4 cut(s)	405, 501, 538, 1215
FaeI	CATG	8 cut(s)	107, 134, 524, 542, 565, 588, 824, 873
FalI	AAGNNNNNCTT	6 cut(s)	50, 82, 222, 254, 612, 644
FaqI	GGGAC	1 cut(s)	677
FatI	CATG	8 cut(s)	103, 130, 520, 538, 561, 584, 820, 869
FblI	GTMKAC	2 cut(s)	49, 844
Fnu4HI	GCNGC	3 cut(s)	320, 323, 1079
FokI	GGATG	2 cut(s)	686, 788
Fsp4HI	GCNGC	3 cut(s)	320, 323, 1079
FspBI	CTAG	4 cut(s)	21, 1041, 1146, 1258
GluI	GCNGC	3 cut(s)	320, 323, 1079
GsuI	CTGGAG	1 cut(s)	496
HaeIII	GGCC	2 cut(s)	605, 911
HapII	CCGG	2 cut(s)	494, 1187
Hin1II	CATG	8 cut(s)	107, 134, 524, 542, 565, 588, 824, 873
HincII	GTYRAC	1 cut(s)	845
HindII	GTYRAC	1 cut(s)	845
HinfI	GANTC	4 cut(s)	177, 497, 722, 841
HpaII	CCGG	2 cut(s)	494, 1187
Hpy166II	GTNNAC	2 cut(s)	50, 845
Hpy188I	TCNGA	3 cut(s)	168, 258, 745
Hpy188III	TCNNGA	2 cut(s)	494, 685
Hpy8I	GTNNAC	2 cut(s)	50, 845
Hpy99I	CGWCG	1 cut(s)	849
HpyAV	CCTTC	4 cut(s)	163, 404, 958, 1232
HpyCH4V	TGCA	9 cut(s)	13, 152, 161, 221, 319, 443, 869, 1049, 1081
HpyF10VI	GCNNNNNNNGC	2 cut(s)	158, 1071
HpyF3I	CTNAG	4 cut(s)	183, 215, 255, 1098
Hsp92II	CATG	8 cut(s)	107, 134, 524, 542, 565, 588, 824, 873
Kpn2I	TCCGGA	1 cut(s)	493
KpnI	GGTACC	1 cut(s)	654
Kzo9I	GATC	4 cut(s)	380, 681, 943, 1152
Lsp1109I	GCAGC	3 cut(s)	331, 334, 1065
MaeI	CTAG	4 cut(s)	21, 1041, 1146, 1258
MaeIII	GTNAC	2 cut(s)	291, 300
MalI	GATC	4 cut(s)	382, 683, 945, 1154
MboI	GATC	4 cut(s)	380, 681, 943, 1152
MboII	GAAGA	3 cut(s)	392, 1192, 1195
MflI	RGATCY	4 cut(s)	380, 681, 943, 1152
MhlI	GDGCHC	1 cut(s)	1165
MluCI	AATT	7 cut(s)	268, 335, 431, 480, 544, 639, 760
MlyI	GAGTC	3 cut(s)	171, 491, 850
MmeI	TCCRAC	1 cut(s)	179
MroI	TCCGGA	1 cut(s)	493
MseI	TTAA	9 cut(s)	6, 96, 191, 243, 429, 552, 617, 759, 903
MslI	CAYNNNNRTG	1 cut(s)	583
MspI	CCGG	2 cut(s)	494, 1187
MspR9I	CCNGG	2 cut(s)	385, 1187
MvaI	CCWGG	1 cut(s)	385
MwoI	GCNNNNNNNGC	2 cut(s)	158, 1071
NciI	CCSGG	1 cut(s)	1187
NcoI	CCATGG	1 cut(s)	538
NdeII	GATC	4 cut(s)	380, 681, 943, 1152
NlaIII	CATG	8 cut(s)	107, 134, 524, 542, 565, 588, 824, 873
NlaIV	GGNNCC	4 cut(s)	652, 683, 945, 1162
NmuCI	GTSAC	1 cut(s)	300
PaeR7I	CTCGAG	1 cut(s)	510
PfeI	GAWTC	1 cut(s)	722
PkrI	GCNGC	3 cut(s)	321, 324, 1080
PleI	GAGTC	3 cut(s)	171, 491, 849
PpsI	GAGTC	3 cut(s)	171, 491, 849
Psp6I	CCWGG	1 cut(s)	383
PspGI	CCWGG	1 cut(s)	383
PspN4I	GGNNCC	4 cut(s)	652, 683, 945, 1162
PspPI	GGNCC	1 cut(s)	604
PspXI	VCTCGAGB	1 cut(s)	510
PsuI	RGATCY	4 cut(s)	380, 681, 943, 1152
RsaI	GTAC	2 cut(s)	352, 652
RsaNI	GTAC	2 cut(s)	351, 651
RseI	CAYNNNNRTG	1 cut(s)	583
SalI	GTCGAC	1 cut(s)	843
SaqAI	TTAA	9 cut(s)	6, 96, 191, 243, 429, 552, 617, 759, 903
SatI	GCNGC	3 cut(s)	320, 323, 1079
Sau3AI	GATC	4 cut(s)	380, 681, 943, 1152
Sau96I	GGNCC	1 cut(s)	604
SchI	GAGTC	3 cut(s)	171, 491, 850
ScrFI	CCNGG	2 cut(s)	385, 1187
SduI	GDGCHC	1 cut(s)	1165
Sfr274I	CTCGAG	1 cut(s)	510
SlaI	CTCGAG	1 cut(s)	510
SmiMI	CAYNNNNRTG	1 cut(s)	583
SmlI	CTYRAG	1 cut(s)	510
SmoI	CTYRAG	1 cut(s)	510
Sse9I	AATT	7 cut(s)	268, 335, 431, 480, 544, 639, 760
SspI	AATATT	1 cut(s)	664
SspMI	CTAG	4 cut(s)	21, 1041, 1146, 1258
StyD4I	CCNGG	2 cut(s)	383, 1185
StyI	CCWWGG	4 cut(s)	405, 501, 538, 1215
TaqI	TCGA	3 cut(s)	511, 725, 844
TaqII	GACCGA	1 cut(s)	288
TasI	AATT	7 cut(s)	268, 335, 431, 480, 544, 639, 760
TatI	WGTACW	1 cut(s)	350
TfiI	GAWTC	1 cut(s)	722
Tru1I	TTAA	9 cut(s)	6, 96, 191, 243, 429, 552, 617, 759, 903
Tru9I	TTAA	9 cut(s)	6, 96, 191, 243, 429, 552, 617, 759, 903
TscAI	CASTG	2 cut(s)	40, 95
TseFI	GTSAC	1 cut(s)	300
TseI	GCWGC	3 cut(s)	319, 322, 1078
Tsp45I	GTSAC	1 cut(s)	300
TspDTI	ATGAA	6 cut(s)	119, 293, 372, 509, 573, 918
TspRI	CASTG	2 cut(s)	40, 95
XapI	RAATTY	3 cut(s)	431, 480, 544
XcmI	CCANNNNNNNNNTGG	1 cut(s)	582
XhoI	CTCGAG	1 cut(s)	510
XmiI	GTMKAC	2 cut(s)	49, 844
XspI	CTAG	4 cut(s)	21, 1041, 1146, 1258

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