Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0016960

Physical Location & Seq

Genomic Coordinates Reverse (-)

1465824 .. 1466993

Gene Structure 1170 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0009900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGATAAGACTACGTTCTTGTTCATCGTCGTCTCTGCTCTACTTTCACTTAAATTTCAGAACCAGATGTTTATTCTTCTCCCATCAAATTCAAAACCCACAATGTATCTACAAGCTCTTCACCCAGAAAACATTTCACAATGCACTTCTTCCTCACTCATCTTTCCAATTTCGCACACATTCAAACCCAGACATTCTTCTTTCCGCTCTGATTTCTGCTATAAGCTCGTGCCCTTCTGTCTCCTATGGCCGTGCCATTCACGCATGTGTAATCAAGTCTTACGATTACAGTGATGGGTTCATTGGCGATCAGCTGGTTTCGTGTTATGCCAAGATGGGTTTTGCTGAAGATGCACTGAAGCTGTTTGATGAAATGCCCAACAAGGACTTGGTCTCCTGGAATTCTTTGATTTCCGGGTTTTCGCGAAGAGGGTATGTGGATAAATGCTTGACTGCGTTTCTTGGGATGAAGTTTGAAATGGGAATAGAACCCAATGAGGTTACGCTTATATCTGTAGTTTCAGCTTGTGCTATCAGGGGAGCTGTTGATGAAGGCATGTACATTCATGGACTTACACTGAAATTGGGTGTGCTGTGGGAACCAAAGCTTGTTAATTCTCTGATTAATCTGTATGGAAAGTCAGGCTATTGGGATGCAGTTTGTCGATTAGTTGAGACTATGCCGATACAGAATGTAGTGTCATGGAATTTAATGATTGCAATTTACGCTCAAAATGGATCTGCGGCGGAGGGGTTGAATTGTTTTAATCTCATGAGAAGGGCTGGAGTTTATCCTGATGATGGCACTGTGGTGTCCTTGCTTCAAGTTTGCGAGAATTTAGGTTTAGGGAAACTAGCAGAGGGTGTCCATGGTGTAATCATCAATTGTGGTCTTAGTGCAAGCGTCAGAGTTGCAACAGGAGTTGTAGATTTGTATACGAAGTTGGGGCGATTAGATTATTCACTTACGGTTTTCAAGGAGTTAATCGATCCGGATAAAGTAGCTTGGACTGCAATGCTTGCAGGTTATGCTACGCATGGGTATGGACGAGAAGCTATGGAGATCTTTGAAAGCATGGTTAGGAAAGGTGTGCAGCCTGATCACGTCACGTTCACCTATTTGTTAAGTGCTTGTAGTCATTCTGGACTTATCAAGGAAGGGAGAAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0030880 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0055029 GO:0061695 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

389

Amino Acids

43.05

Weight (kDa)

7.53

Isoelectric Point (pI)

29.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	129 - 177	2.8e-07	PPR repeat family
PPR_2	PF13041	231 - 277	5.3e-08	PPR repeat family
PPR_3	PF13812	329 - 378	2.2e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	331 - 379	3.4e-14	PPR repeat family
PPR	PF01535	334 - 364	2.6e-07	PPR repeat

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

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Orthologous Genes (Group: OG0016960)

Species	Orthologous Gene IDs
pyrus_communis	pycom07g07420
rosa_chinensis	RchiOBHm_Chr3g0485381
rosa_multiflora	Rmu_sc0000455.1_g000014 Rmu_sc0003863.1_g000006
rosa_roxburghii	Rroxscaffold_1G00046570 Rroxscaffold_2G00094580 Rroxscaffold_7G00158850 Rroxscaffold_7G00198560
rosa_rugosa	Rorug02G0195600 Rorug06G0009900 Rorug07G0338500
rosa_samantha	Rh6BG316300 Rh6BG316600
rosa_wichuraiana	Rw5G040660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1013
AccBSI	CCGCTC	1 cut(s)	206
AccI	GTMKAC	1 cut(s)	935
AccII	CGCG	1 cut(s)	424
AccIII	TCCGGA	1 cut(s)	991
AciI	CCGC	3 cut(s)	204, 743, 746
AclWI	GGATC	2 cut(s)	745, 983
AcoI	YGGCCR	1 cut(s)	247
AcsI	RAATTY	5 cut(s)	52, 87, 400, 706, 835
AcuI	CTGAAG	2 cut(s)	366, 377
AfaI	GTAC	1 cut(s)	560
AfiI	CCNNNNNNNGG	1 cut(s)	800
AgsI	TTSAA	7 cut(s)	92, 183, 476, 757, 824, 976, 1070
AjiI	CACGTC	1 cut(s)	1105
AjnI	CCWGG	1 cut(s)	395
AleI	CACNNNNGTG	2 cut(s)	264, 809
AluBI	AGCT	9 cut(s)	115, 225, 313, 361, 524, 542, 607, 1004, 1055
AluI	AGCT	9 cut(s)	115, 225, 313, 361, 524, 542, 607, 1004, 1055
Alw26I	GTCTC	4 cut(s)	36, 244, 397, 668
AlwI	GGATC	2 cut(s)	745, 983
Aor13HI	TCCGGA	1 cut(s)	991
AoxI	GGCC	1 cut(s)	247
ApeKI	GCWGC	1 cut(s)	1093
ApoI	RAATTY	5 cut(s)	52, 87, 400, 706, 835
AseI	ATTAAT	1 cut(s)	624
AsuC2I	CCSGG	1 cut(s)	415
AsuHPI	GGTGA	2 cut(s)	112, 1105
BaeGI	GKGCMC	1 cut(s)	233
BauI	CACGAG	1 cut(s)	226
BbvI	GCAGC	1 cut(s)	1105
BccI	CCATC	4 cut(s)	90, 287, 328, 794
BceAI	ACGGC	1 cut(s)	234
BciT130I	CCWGG	1 cut(s)	397
BclI	TGATCA	1 cut(s)	1099
BcnI	CCSGG	1 cut(s)	415
BcoDI	GTCTC	4 cut(s)	36, 244, 397, 668
BfaI	CTAG	1 cut(s)	854
BfmI	CTRYAG	1 cut(s)	513
BfuAI	ACCTGC	1 cut(s)	1013
BglII	AGATCT	1 cut(s)	1062
BisI	GCNGC	2 cut(s)	744, 1094
BlsI	GCNGC	2 cut(s)	745, 1095
Bme1390I	CCNGG	2 cut(s)	397, 415
BmgBI	CACGTC	1 cut(s)	1105
BmiI	GGNNCC	1 cut(s)	600
BmrFI	CCNGG	2 cut(s)	397, 415
BmsI	GCATC	2 cut(s)	340, 643
BpmI	CTGGAG	1 cut(s)	804
BpuMI	CCSGG	1 cut(s)	415
Bsa29I	ATCGAT	1 cut(s)	987
BsaI	GGTCTC	1 cut(s)	397
BsaJI	CCNNGG	1 cut(s)	868
BsaWI	WCCGGW	1 cut(s)	991
BsaXI	ACNNNNNCTCC	2 cut(s)	377, 407
Bsc4I	CCNNNNNNNGG	1 cut(s)	800
Bse3DI	GCAATG	1 cut(s)	1020
BseAI	TCCGGA	1 cut(s)	991
BseBI	CCWGG	1 cut(s)	397
BseCI	ATCGAT	1 cut(s)	987
BseDI	CCNNGG	1 cut(s)	868
BseGI	GGATG	2 cut(s)	471, 658
BseLI	CCNNNNNNNGG	1 cut(s)	800
BseMI	GCAATG	1 cut(s)	1020
BseSI	GKGCMC	1 cut(s)	233
BseXI	GCAGC	1 cut(s)	1105
BsgI	GTGCAG	1 cut(s)	1112
Bsh1236I	CGCG	1 cut(s)	424
BshFI	GGCC	1 cut(s)	249
BshVI	ATCGAT	1 cut(s)	987
BsiSI	CCGG	2 cut(s)	414, 992
BslI	CCNNNNNNNGG	1 cut(s)	800
BsmAI	GTCTC	4 cut(s)	36, 244, 397, 668
BsmBI	CGTCTC	1 cut(s)	36
BsnI	GGCC	1 cut(s)	249
Bso31I	GGTCTC	1 cut(s)	397
Bsp1286I	GDGCHC	1 cut(s)	233
Bsp13I	TCCGGA	1 cut(s)	991
Bsp1407I	TGTACA	1 cut(s)	558
Bsp143I	GATC	5 cut(s)	307, 737, 988, 1062, 1099
Bsp19I	CCATGG	1 cut(s)	868
Bsp68I	TCGCGA	1 cut(s)	424
BspACI	CCGC	3 cut(s)	204, 743, 746
BspANI	GGCC	1 cut(s)	249
BspDI	ATCGAT	1 cut(s)	987
BspEI	TCCGGA	1 cut(s)	991
BspFNI	CGCG	1 cut(s)	424
BspHI	TCATGA	1 cut(s)	771
BspLI	GGNNCC	1 cut(s)	600
BspMI	ACCTGC	1 cut(s)	1013
BspPI	GGATC	2 cut(s)	745, 983
BspQI	GCTCTTC	1 cut(s)	122
BspTNI	GGTCTC	1 cut(s)	397
BsrBI	CCGCTC	1 cut(s)	206
BsrDI	GCAATG	1 cut(s)	1020
BsrGI	TGTACA	1 cut(s)	558
BssECI	CCNNGG	1 cut(s)	868
BssMI	GATC	5 cut(s)	307, 737, 988, 1062, 1099
BssNAI	GTATAC	1 cut(s)	936
BssSI	CACGAG	1 cut(s)	226
BssT1I	CCWWGG	1 cut(s)	868
Bst1107I	GTATAC	1 cut(s)	936
Bst2BI	CACGAG	1 cut(s)	226
Bst2UI	CCWGG	1 cut(s)	397
Bst4CI	ACNGT	3 cut(s)	290, 808, 970
Bst6I	CTCTTC	2 cut(s)	122, 421
BstAPI	GCANNNNNTGC	2 cut(s)	1019, 1028
BstAUI	TGTACA	1 cut(s)	558
BstC8I	GCNNGC	2 cut(s)	901, 1020
BstDEI	CTNAG	1 cut(s)	893
BstDSI	CCRYGG	1 cut(s)	868
BstF5I	GGATG	2 cut(s)	471, 658
BstFNI	CGCG	1 cut(s)	424
BstKTI	GATC	5 cut(s)	310, 740, 991, 1065, 1102
BstMAI	GTCTC	4 cut(s)	36, 244, 397, 668
BstMBI	GATC	5 cut(s)	307, 737, 988, 1062, 1099
BstMWI	GCNNNNNNNGC	6 cut(s)	260, 350, 725, 1010, 1019, 1028
BstNI	CCWGG	1 cut(s)	397
BstNSI	RCATGY	2 cut(s)	267, 559
BstSCI	CCNGG	2 cut(s)	395, 413
BstSFI	CTRYAG	1 cut(s)	513
BstSLI	GKGCMC	1 cut(s)	233
BstUI	CGCG	1 cut(s)	424
BstV1I	GCAGC	1 cut(s)	1105
BstX2I	RGATCY	2 cut(s)	737, 1062
BstYI	RGATCY	2 cut(s)	737, 1062
BstZ17I	GTATAC	1 cut(s)	936
Bsu15I	ATCGAT	1 cut(s)	987
BsuRI	GGCC	1 cut(s)	249
BsuTUI	ATCGAT	1 cut(s)	987
BtgI	CCRYGG	1 cut(s)	868
BtrI	CACGTC	1 cut(s)	1105
BtsCI	GGATG	2 cut(s)	471, 658
BtsIMutI	CAGTG	4 cut(s)	295, 353, 575, 804
BtuMI	TCGCGA	1 cut(s)	424
BveI	ACCTGC	1 cut(s)	1013
Cac8I	GCNNGC	2 cut(s)	901, 1020
CciI	TCATGA	1 cut(s)	771
ClaI	ATCGAT	1 cut(s)	987
CseI	GACGC	1 cut(s)	892
Csp6I	GTAC	1 cut(s)	559
CviAII	CATG	8 cut(s)	264, 556, 566, 702, 772, 869, 1037, 1075
CviQI	GTAC	1 cut(s)	559
DdeI	CTNAG	1 cut(s)	893
DpnI	GATC	5 cut(s)	309, 739, 990, 1064, 1101
DpnII	GATC	5 cut(s)	307, 737, 988, 1062, 1099
EaeI	YGGCCR	1 cut(s)	247
Eam1104I	CTCTTC	2 cut(s)	122, 421
EarI	CTCTTC	2 cut(s)	122, 421
EciI	GGCGGA	1 cut(s)	761
Eco130I	CCWWGG	1 cut(s)	868
Eco31I	GGTCTC	1 cut(s)	397
Eco57I	CTGAAG	2 cut(s)	366, 377
EcoRI	GAATTC	1 cut(s)	400
EcoRII	CCWGG	1 cut(s)	395
EcoT14I	CCWWGG	1 cut(s)	868
ErhI	CCWWGG	1 cut(s)	868
Esp3I	CGTCTC	1 cut(s)	36
FaeI	CATG	8 cut(s)	267, 559, 569, 705, 775, 872, 1040, 1078
FatI	CATG	8 cut(s)	263, 555, 565, 701, 771, 868, 1036, 1074
FbaI	TGATCA	1 cut(s)	1099
FblI	GTMKAC	1 cut(s)	935
Fnu4HI	GCNGC	2 cut(s)	744, 1094
FokI	GGATG	2 cut(s)	478, 665
Fsp4HI	GCNGC	2 cut(s)	744, 1094
FspBI	CTAG	1 cut(s)	854
GluI	GCNGC	2 cut(s)	744, 1094
GsuI	CTGGAG	1 cut(s)	804
HaeIII	GGCC	1 cut(s)	249
HapII	CCGG	2 cut(s)	414, 992
HgaI	GACGC	1 cut(s)	892
Hin1II	CATG	8 cut(s)	267, 559, 569, 705, 775, 872, 1040, 1078
HindIII	AAGCTT	1 cut(s)	605
HpaII	CCGG	2 cut(s)	414, 992
HphI	GGTGA	2 cut(s)	112, 1105
Hpy166II	GTNNAC	2 cut(s)	936, 1113
Hpy188I	TCNGA	4 cut(s)	59, 210, 621, 908
Hpy188III	TCNNGA	5 cut(s)	423, 772, 794, 992, 1143
Hpy8I	GTNNAC	2 cut(s)	936, 1113
Hpy99I	CGWCG	1 cut(s)	31
HpyAV	CCTTC	4 cut(s)	243, 545, 771, 1151
HpyCH4III	ACNGT	3 cut(s)	290, 808, 970
HpyCH4IV	ACGT	3 cut(s)	13, 1104, 1109
HpyCH4V	TGCA	9 cut(s)	143, 353, 656, 719, 899, 914, 1013, 1022, 1093
HpyF10VI	GCNNNNNNNGC	6 cut(s)	260, 350, 725, 1010, 1019, 1028
HpyF3I	CTNAG	1 cut(s)	893
HpySE526I	ACGT	3 cut(s)	13, 1104, 1109
Hsp92II	CATG	8 cut(s)	267, 559, 569, 705, 775, 872, 1040, 1078
Kpn2I	TCCGGA	1 cut(s)	991
Ksp22I	TGATCA	1 cut(s)	1099
Kzo9I	GATC	5 cut(s)	307, 737, 988, 1062, 1099
LguI	GCTCTTC	1 cut(s)	122
LmnI	GCTCC	1 cut(s)	539
Lsp1109I	GCAGC	1 cut(s)	1105
LweI	GCATC	2 cut(s)	340, 643
MaeI	CTAG	1 cut(s)	854
MaeII	ACGT	3 cut(s)	13, 1104, 1109
MaeIII	GTNAC	2 cut(s)	499, 1105
MalI	GATC	5 cut(s)	309, 739, 990, 1064, 1101
MbiI	CCGCTC	1 cut(s)	206
MboI	GATC	5 cut(s)	307, 737, 988, 1062, 1099
MboII	GAAGA	6 cut(s)	67, 109, 140, 188, 359, 438
MfeI	CAATTG	1 cut(s)	883
MflI	RGATCY	2 cut(s)	737, 1062
MhlI	GDGCHC	1 cut(s)	233
MnlI	CCTC	5 cut(s)	162, 422, 490, 742, 853
MroI	TCCGGA	1 cut(s)	991
MseI	TTAA	7 cut(s)	50, 612, 624, 710, 765, 983, 1124
MslI	CAYNNNNRTG	3 cut(s)	264, 809, 1041
MspA1I	CMGCKG	1 cut(s)	313
MspI	CCGG	2 cut(s)	414, 992
MspR9I	CCNGG	2 cut(s)	397, 415
MunI	CAATTG	1 cut(s)	883
MvaI	CCWGG	1 cut(s)	397
MvnI	CGCG	1 cut(s)	424
MwoI	GCNNNNNNNGC	6 cut(s)	260, 350, 725, 1010, 1019, 1028
NciI	CCSGG	1 cut(s)	415
NcoI	CCATGG	1 cut(s)	868
NdeII	GATC	5 cut(s)	307, 737, 988, 1062, 1099
NlaIII	CATG	8 cut(s)	267, 559, 569, 705, 775, 872, 1040, 1078
NlaIV	GGNNCC	1 cut(s)	600
NmuCI	GTSAC	1 cut(s)	1105
NruI	TCGCGA	1 cut(s)	424
NspI	RCATGY	2 cut(s)	267, 559
OliI	CACNNNNGTG	2 cut(s)	264, 809
PagI	TCATGA	1 cut(s)	771
PciSI	GCTCTTC	1 cut(s)	122
PflFI	GACNNNGTC	1 cut(s)	389
PfoI	TCCNGGA	1 cut(s)	395
PkrI	GCNGC	2 cut(s)	745, 1095
PshBI	ATTAAT	1 cut(s)	624
Psp6I	CCWGG	1 cut(s)	395
PspGI	CCWGG	1 cut(s)	395
PspN4I	GGNNCC	1 cut(s)	600
PsuI	RGATCY	2 cut(s)	737, 1062
PsyI	GACNNNGTC	1 cut(s)	389
PvuII	CAGCTG	1 cut(s)	313
RruI	TCGCGA	1 cut(s)	424
RsaI	GTAC	1 cut(s)	560
RsaNI	GTAC	1 cut(s)	559
RseI	CAYNNNNRTG	3 cut(s)	264, 809, 1041
SapI	GCTCTTC	1 cut(s)	122
SaqAI	TTAA	7 cut(s)	50, 612, 624, 710, 765, 983, 1124
SatI	GCNGC	2 cut(s)	744, 1094
Sau3AI	GATC	5 cut(s)	307, 737, 988, 1062, 1099
ScrFI	CCNGG	2 cut(s)	397, 415
SduI	GDGCHC	1 cut(s)	233
SfaNI	GCATC	2 cut(s)	340, 643
SfcI	CTRYAG	1 cut(s)	513
SmiMI	CAYNNNNRTG	3 cut(s)	264, 809, 1041
SsiI	CCGC	3 cut(s)	204, 743, 746
SspMI	CTAG	1 cut(s)	854
StyD4I	CCNGG	2 cut(s)	395, 413
StyI	CCWWGG	1 cut(s)	868
TaaI	ACNGT	3 cut(s)	290, 808, 970
TaiI	ACGT	3 cut(s)	16, 1107, 1112
TaqI	TCGA	2 cut(s)	664, 987
TatI	WGTACW	1 cut(s)	558
TauI	GCSGC	1 cut(s)	746
Tru1I	TTAA	7 cut(s)	50, 612, 624, 710, 765, 983, 1124
Tru9I	TTAA	7 cut(s)	50, 612, 624, 710, 765, 983, 1124
TscAI	CASTG	4 cut(s)	295, 360, 582, 811
TseFI	GTSAC	1 cut(s)	1105
TseI	GCWGC	1 cut(s)	1093
Tsp45I	GTSAC	1 cut(s)	1105
TspDTI	ATGAA	6 cut(s)	12, 289, 384, 482, 554, 564
TspRI	CASTG	4 cut(s)	295, 360, 582, 811
Tth111I	GACNNNGTC	1 cut(s)	389
VspI	ATTAAT	1 cut(s)	624
XapI	RAATTY	5 cut(s)	52, 87, 400, 706, 835
XceI	RCATGY	2 cut(s)	267, 559
XcmI	CCANNNNNNNNNTGG	1 cut(s)	385
XmiI	GTMKAC	1 cut(s)	935
XspI	CTAG	1 cut(s)	854

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