Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0005462

Physical Location & Seq

Genomic Coordinates Reverse (-)

27708026 .. 27711415

Gene Structure 3390 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0279400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGGCGAAGCTCTCTTTTGTGGCTCTGCTCCTACTTTTAGGGGCCGTTTCGCAGTTTGTTGCAGCAAAACCGCTTTCCCAGAGTAAGCTCCAGTCTCCTGTTCTTCAGGAGTCAATCATTAAGGAGATAAATGAAAACCCCAACGCAGGATGGCAAGCTGCCATGAGTCCTCGCCTCTCCAATTACACTGTTGGTGAGTTTATGCATCTTCTGGGAGTCAAACCAATACCCAAAAAGGAATTGTTGGGTGTACCCATAGTAAGTCATCCGAAATCTTTGAAGTTGCCAAATAGTTTTGATGCAAGGGAGGCTTGGTCTCAGTGCACCACCATTGGACGAATTCTAGATCAGGGTCACTGTGGCTCTTGTTGGGCTTTTGCTGCTGTTGAAGCACTATCAGATCGTTTCTGCATCCAATTTGGCAAGAACACATCTCTGTCTGTTAATGATCTCTTAGCGTGCTGTGGTTTTATGTGTGGAAATGGTTGTGATGGTGGAATTCCAATTTATGCATGGCGTTACTTTGTCCACCACGGTGTTGTCACTGAAGAGTGTGACCCATACTTTGATCAAACTGGCTGTTCCCACCCTGGTTGTGAGCCCGCATATCCTACACCAAAGTGCATTAGAAAGTGTGTAGATGGGAACCAGATGTGGAACCGGGCAAAGCGTTACAGTGTCAGTGCATATAGGATCCATTCTGATCCACACAGTATTATGGCAGAAGTCTATAAGAACGGACCAGTTGAAGTTGCCTTCACCGTTTATGAGGATTTTGCATACTATAAATCTGGAGTTTACAAGCATATTACAGGTGAAGTTCTGGGAGGTCATGCTGTTAAGCTAATTGGGTGGGGCACAACCAACGCTGGGGAGGACTATTGGCTTCTCGCAAATCAGTGGAATAGAAGCTGGGGAGATGATGGTTACTTCATGATCAAAAGAGGAACAAACGAGTGTGGAATCGAAGAGGATGTGGTTGCTGGCTTGCCTTCGTCGAAAAATTTTATAAGCAAAGTTGCAAGCACCGGTGCTTTCGGGGATGTTGCTTCAGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010556 GO:0010557 GO:0010604 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031390 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0051338 GO:0051347 GO:0051716 GO:0060255 GO:0065007 GO:0065009 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:1900262 GO:1900264 GO:1901360 GO:1901576 GO:2000112 GO:2000278 GO:2000573

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 map03030 map03420 map03430

Pfam Domains

Protein Families

DNA_pol3_delta2

Protein Analysis

352

Amino Acids

38.59

Weight (kDa)

6.55

Isoelectric Point (pI)

35.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Propeptide_C1	PF08127	35 - 75	1.1e-09	Peptidase family C1 propeptide
Peptidase_C1	PF00112	95 - 329	8.8e-68	Papain family cysteine protease

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: OG0005462)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G27740
fragaria_vesca	FvH4_1g23560 FvH4_2g04970 FvH4_2g04970 FvH4_2g04970
malus_domestica	MD04G1041000.v1.1 MD04G1041300.v1.1 MD12G1011300.v1.1
prunus_persica	Prupe.1G194700_v2.0.a1 Prupe.1G194700_v2.0.a1 Prupe.4G268900_v2.0.a1 Prupe.4G268900_v2.0.a1 Prupe.7G013300_v2.0.a1 Prupe.7G013300_v2.0.a1 Prupe.7G013300_v2.0.a1
pyrus_communis	pycom12g00880
rosa_chinensis	RchiOBHm_Chr3g0496081
rosa_laevigata	RLG00000022564
rosa_multiflora	Rmu_sc0002392.1_g000001
rosa_roxburghii	Rroxscaffold_6G00389580
rosa_rugosa	Rorug03G0279300 Rorug03G0279400 Rorug03G0279400 Rorug03G0279400 Rorug03G0279500
rosa_samantha	Rh3AG326500 Rh3BG362800 Rh3DG362200
rosa_wichuraiana	Rw3G028590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1010
AciI	CCGC	2 cut(s)	71, 603
AclWI	GGATC	3 cut(s)	688, 698, 701
AcsI	RAATTY	3 cut(s)	339, 498, 1003
AcuI	CTGAAG	3 cut(s)	89, 567, 1035
AfaI	GTAC	1 cut(s)	252
AfiI	CCNNNNNNNGG	2 cut(s)	146, 870
AgeI	ACCGGT	1 cut(s)	1028
AgsI	TTSAA	3 cut(s)	280, 389, 749
AjnI	CCWGG	1 cut(s)	589
AleI	CACNNNNGTG	2 cut(s)	534, 619
AluBI	AGCT	5 cut(s)	10, 88, 158, 844, 912
AluI	AGCT	5 cut(s)	10, 88, 158, 844, 912
Alw21I	GWGCWC	1 cut(s)	326
Alw26I	GTCTC	2 cut(s)	99, 321
Alw44I	GTGCAC	1 cut(s)	322
AlwI	GGATC	3 cut(s)	688, 698, 701
AoxI	GGCC	1 cut(s)	42
ApaLI	GTGCAC	1 cut(s)	322
ApeKI	GCWGC	3 cut(s)	62, 158, 380
ApoI	RAATTY	3 cut(s)	339, 498, 1003
ArsI	GACNNNNNNTTYG	2 cut(s)	548, 580
AsiGI	ACCGGT	1 cut(s)	1028
AspS9I	GGNCC	2 cut(s)	42, 740
AsuC2I	CCSGG	1 cut(s)	662
AsuHPI	GGTGA	3 cut(s)	206, 751, 827
AvaII	GGWCC	1 cut(s)	740
BaeGI	GKGCMC	2 cut(s)	326, 860
BamHI	GGATCC	1 cut(s)	693
BanII	GRGCYC	1 cut(s)	603
Bbv12I	GWGCWC	1 cut(s)	326
BbvI	GCAGC	3 cut(s)	74, 145, 367
BccI	CCATC	4 cut(s)	144, 485, 635, 917
BceAI	ACGGC	1 cut(s)	29
BciT130I	CCWGG	1 cut(s)	591
BclI	TGATCA	2 cut(s)	568, 936
BcnI	CCSGG	1 cut(s)	662
BcoDI	GTCTC	2 cut(s)	99, 321
BfaI	CTAG	1 cut(s)	344
BisI	GCNGC	3 cut(s)	63, 159, 381
BlsI	GCNGC	3 cut(s)	64, 160, 382
Bme1390I	CCNGG	2 cut(s)	591, 662
Bme18I	GGWCC	1 cut(s)	740
BmgT120I	GGNCC	2 cut(s)	42, 740
BmiI	GGNNCC	4 cut(s)	43, 647, 659, 695
BmrFI	CCNGG	2 cut(s)	591, 662
BmsI	GCATC	3 cut(s)	214, 289, 420
BpmI	CTGGAG	2 cut(s)	74, 813
BpuMI	CCSGG	1 cut(s)	662
BsaI	GGTCTC	1 cut(s)	321
BsaJI	CCNNGG	2 cut(s)	532, 589
BsaWI	WCCGGW	1 cut(s)	1028
BsaXI	ACNNNNNCTCC	2 cut(s)	299, 329
Bsc4I	CCNNNNNNNGG	2 cut(s)	146, 870
Bse118I	RCCGGY	1 cut(s)	1028
Bse1I	ACTGG	3 cut(s)	91, 580, 743
BseBI	CCWGG	1 cut(s)	591
BseDI	CCNNGG	2 cut(s)	532, 589
BseGI	GGATG	5 cut(s)	155, 265, 411, 979, 1048
BseLI	CCNNNNNNNGG	2 cut(s)	146, 870
BseMII	CTCAG	1 cut(s)	332
BseNI	ACTGG	3 cut(s)	91, 580, 743
BseSI	GKGCMC	2 cut(s)	326, 860
BseXI	GCAGC	3 cut(s)	74, 145, 367
BseYI	CCCAGC	2 cut(s)	869, 912
BshFI	GGCC	1 cut(s)	44
BshTI	ACCGGT	1 cut(s)	1028
BsiHKAI	GWGCWC	1 cut(s)	326
BsiSI	CCGG	2 cut(s)	661, 1029
BslI	CCNNNNNNNGG	2 cut(s)	146, 870
BsmAI	GTCTC	2 cut(s)	99, 321
BsnI	GGCC	1 cut(s)	44
Bso31I	GGTCTC	1 cut(s)	321
Bsp1286I	GDGCHC	3 cut(s)	326, 603, 860
Bsp143I	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
BspACI	CCGC	2 cut(s)	71, 603
BspANI	GGCC	1 cut(s)	44
BspCNI	CTCAG	1 cut(s)	331
BspHI	TCATGA	1 cut(s)	933
BspLI	GGNNCC	4 cut(s)	43, 647, 659, 695
BspPI	GGATC	3 cut(s)	688, 698, 701
BspTNI	GGTCTC	1 cut(s)	321
BsrFI	RCCGGY	1 cut(s)	1028
BsrI	ACTGG	3 cut(s)	91, 580, 743
BssAI	RCCGGY	1 cut(s)	1028
BssECI	CCNNGG	2 cut(s)	532, 589
BssMI	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
Bst2UI	CCWGG	1 cut(s)	591
Bst4CI	ACNGT	6 cut(s)	190, 359, 536, 677, 713, 763
Bst6I	CTCTTC	2 cut(s)	543, 963
BstC8I	GCNNGC	6 cut(s)	156, 460, 603, 985, 989, 1024
BstDEI	CTNAG	2 cut(s)	318, 454
BstDSI	CCRYGG	1 cut(s)	532
BstF5I	GGATG	5 cut(s)	155, 265, 411, 979, 1048
BstKTI	GATC	7 cut(s)	349, 403, 451, 571, 696, 706, 939
BstMAI	GTCTC	2 cut(s)	99, 321
BstMBI	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
BstMWI	GCNNNNNNNGC	3 cut(s)	308, 380, 389
BstNI	CCWGG	1 cut(s)	591
BstSCI	CCNGG	2 cut(s)	589, 660
BstSLI	GKGCMC	2 cut(s)	326, 860
BstV1I	GCAGC	3 cut(s)	74, 145, 367
BstX2I	RGATCY	1 cut(s)	693
BstYI	RGATCY	1 cut(s)	693
BsuRI	GGCC	1 cut(s)	44
BtgI	CCRYGG	1 cut(s)	532
BtsCI	GGATG	5 cut(s)	155, 265, 411, 979, 1048
BtsIMutI	CAGTG	7 cut(s)	186, 326, 355, 543, 682, 688, 905
Cac8I	GCNNGC	6 cut(s)	156, 460, 603, 985, 989, 1024
CciI	TCATGA	1 cut(s)	933
Cfr10I	RCCGGY	1 cut(s)	1028
Cfr13I	GGNCC	2 cut(s)	42, 740
Csp6I	GTAC	1 cut(s)	251
CspAI	ACCGGT	1 cut(s)	1028
CspCI	CAANNNNNGTGG	2 cut(s)	575, 610
CviAII	CATG	4 cut(s)	163, 513, 833, 934
CviQI	GTAC	1 cut(s)	251
DdeI	CTNAG	2 cut(s)	318, 454
DpnI	GATC	7 cut(s)	348, 402, 450, 570, 695, 705, 938
DpnII	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
Eam1104I	CTCTTC	2 cut(s)	543, 963
EarI	CTCTTC	2 cut(s)	543, 963
Eco24I	GRGCYC	1 cut(s)	603
Eco31I	GGTCTC	1 cut(s)	321
Eco47I	GGWCC	1 cut(s)	740
Eco57I	CTGAAG	3 cut(s)	89, 567, 1035
EcoRI	GAATTC	2 cut(s)	339, 498
EcoRII	CCWGG	1 cut(s)	589
EcoT22I	ATGCAT	2 cut(s)	207, 514
EcoT38I	GRGCYC	1 cut(s)	603
FaeI	CATG	4 cut(s)	166, 516, 836, 937
FalI	AAGNNNNNCTT	2 cut(s)	295, 327
FatI	CATG	4 cut(s)	162, 512, 832, 933
FauI	CCCGC	1 cut(s)	610
FbaI	TGATCA	2 cut(s)	568, 936
Fnu4HI	GCNGC	3 cut(s)	63, 159, 381
FokI	GGATG	5 cut(s)	162, 252, 398, 986, 1055
FriOI	GRGCYC	1 cut(s)	603
Fsp4HI	GCNGC	3 cut(s)	63, 159, 381
FspBI	CTAG	1 cut(s)	344
GluI	GCNGC	3 cut(s)	63, 159, 381
GsaI	CCCAGC	2 cut(s)	873, 916
GsuI	CTGGAG	2 cut(s)	74, 813
HaeIII	GGCC	1 cut(s)	44
HapII	CCGG	2 cut(s)	661, 1029
Hin1II	CATG	4 cut(s)	166, 516, 836, 937
HinfI	GANTC	4 cut(s)	110, 166, 216, 963
HpaII	CCGG	2 cut(s)	661, 1029
HphI	GGTGA	3 cut(s)	206, 751, 827
Hpy166II	GTNNAC	4 cut(s)	251, 324, 529, 799
Hpy188I	TCNGA	3 cut(s)	270, 400, 703
Hpy188III	TCNNGA	4 cut(s)	107, 344, 792, 934
Hpy8I	GTNNAC	4 cut(s)	251, 324, 529, 799
Hpy99I	CGWCG	1 cut(s)	1000
HpyAV	CCTTC	2 cut(s)	766, 1002
HpyCH4III	ACNGT	6 cut(s)	190, 359, 536, 677, 713, 763
HpyF10VI	GCNNNNNNNGC	3 cut(s)	308, 380, 389
HpyF3I	CTNAG	2 cut(s)	318, 454
Hsp92II	CATG	4 cut(s)	166, 516, 836, 937
Ksp22I	TGATCA	2 cut(s)	568, 936
Kzo9I	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
LmnI	GCTCC	2 cut(s)	33, 93
Lsp1109I	GCAGC	3 cut(s)	74, 145, 367
LweI	GCATC	3 cut(s)	214, 289, 420
MaeI	CTAG	1 cut(s)	344
MaeIII	GTNAC	6 cut(s)	353, 518, 541, 554, 671, 926
MalI	GATC	7 cut(s)	348, 402, 450, 570, 695, 705, 938
MboI	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
MboII	GAAGA	4 cut(s)	95, 200, 560, 980
MflI	RGATCY	1 cut(s)	693
MhlI	GDGCHC	3 cut(s)	326, 603, 860
MluCI	AATT	8 cut(s)	181, 239, 339, 416, 498, 504, 846, 1003
MlyI	GAGTC	3 cut(s)	119, 175, 225
MnlI	CCTC	8 cut(s)	180, 185, 301, 763, 821, 868, 938, 964
Mph1103I	ATGCAT	2 cut(s)	207, 514
MseI	TTAA	3 cut(s)	120, 444, 840
MslI	CAYNNNNRTG	2 cut(s)	534, 619
MspI	CCGG	2 cut(s)	661, 1029
MspR9I	CCNGG	2 cut(s)	591, 662
MvaI	CCWGG	1 cut(s)	591
MwoI	GCNNNNNNNGC	3 cut(s)	308, 380, 389
NciI	CCSGG	1 cut(s)	662
NdeII	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
NlaIII	CATG	4 cut(s)	166, 516, 836, 937
NlaIV	GGNNCC	4 cut(s)	43, 647, 659, 695
NmuCI	GTSAC	3 cut(s)	353, 541, 554
NsiI	ATGCAT	2 cut(s)	207, 514
OliI	CACNNNNGTG	2 cut(s)	534, 619
PagI	TCATGA	1 cut(s)	933
PfeI	GAWTC	1 cut(s)	963
PinAI	ACCGGT	1 cut(s)	1028
PkrI	GCNGC	3 cut(s)	64, 160, 382
PleI	GAGTC	3 cut(s)	118, 174, 224
PpsI	GAGTC	3 cut(s)	118, 174, 224
PsiI	TTATAA	1 cut(s)	1010
Psp6I	CCWGG	1 cut(s)	589
PspFI	CCCAGC	2 cut(s)	869, 912
PspGI	CCWGG	1 cut(s)	589
PspN4I	GGNNCC	4 cut(s)	43, 647, 659, 695
PspPI	GGNCC	2 cut(s)	42, 740
PsuI	RGATCY	1 cut(s)	693
RsaI	GTAC	1 cut(s)	252
RsaNI	GTAC	1 cut(s)	251
RseI	CAYNNNNRTG	2 cut(s)	534, 619
SaqAI	TTAA	3 cut(s)	120, 444, 840
SatI	GCNGC	3 cut(s)	63, 159, 381
Sau3AI	GATC	7 cut(s)	346, 400, 448, 568, 693, 703, 936
Sau96I	GGNCC	2 cut(s)	42, 740
SchI	GAGTC	3 cut(s)	119, 175, 225
ScrFI	CCNGG	2 cut(s)	591, 662
SduI	GDGCHC	3 cut(s)	326, 603, 860
SetI	ASST	7 cut(s)	12, 90, 160, 817, 832, 846, 914
SfaNI	GCATC	3 cut(s)	214, 289, 420
SgrAI	CRCCGGYG	1 cut(s)	1028
SinI	GGWCC	1 cut(s)	740
SmiMI	CAYNNNNRTG	2 cut(s)	534, 619
Sse9I	AATT	8 cut(s)	181, 239, 339, 416, 498, 504, 846, 1003
SsiI	CCGC	2 cut(s)	71, 603
SspMI	CTAG	1 cut(s)	344
StyD4I	CCNGG	2 cut(s)	589, 660
TaaI	ACNGT	6 cut(s)	190, 359, 536, 677, 713, 763
TaqI	TCGA	2 cut(s)	966, 998
TasI	AATT	8 cut(s)	181, 239, 339, 416, 498, 504, 846, 1003
TfiI	GAWTC	1 cut(s)	963
Tru1I	TTAA	3 cut(s)	120, 444, 840
Tru9I	TTAA	3 cut(s)	120, 444, 840
TscAI	CASTG	7 cut(s)	193, 326, 362, 550, 682, 688, 905
TseFI	GTSAC	3 cut(s)	353, 541, 554
TseI	GCWGC	3 cut(s)	62, 158, 380
Tsp45I	GTSAC	3 cut(s)	353, 541, 554
TspDTI	ATGAA	2 cut(s)	147, 922
TspGWI	ACGGA	1 cut(s)	753
TspRI	CASTG	7 cut(s)	193, 326, 362, 550, 682, 688, 905
VneI	GTGCAC	1 cut(s)	322
VpaK11BI	GGWCC	1 cut(s)	740
XapI	RAATTY	3 cut(s)	339, 498, 1003
XbaI	TCTAGA	1 cut(s)	343
XcmI	CCANNNNNNNNNTGG	1 cut(s)	510
XspI	CTAG	1 cut(s)	344
Zsp2I	ATGCAT	2 cut(s)	207, 514

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