Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0006072

Physical Location & Seq

Genomic Coordinates Forward (+)

329296 .. 335828

Gene Structure 6533 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0004100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGCGCAATCATCTTCCAGTGCAGAGAGGGCAAAAACATCGATCCAAGATGACGACGACGCCGCCGCAATTGAAGCCTACAAGACTTACGTACGGGTGATGTCTTGCATTCCCCCAACCCACTTCAAAGAGATGGAAAAAACCGAACCAGAGAGTATGCGTAAACTTAAGTTGAGCCTCGAATCCAGGGACCAACTGAAAGAGATACATGCTGACATTGTCAAGGAGGAAGCCCTCTTTGTTGAGGAGAGAAAGAGATGGCTGGCGGATAACCGGGATCTCTATACTGACATGAATCAGTTTTTTGTCAAAAGATGTCAATGGGAAACTGATTTTAAGGAAATCCACTTAAAGCCTCTTTATGAAAAGAGATGTATTGCTGCTAAAGGAGTCCCTGCCTTTTGGCTTACTGCAATGATTGCTAACAAGACACTTTATAAGCAGATTGCAGAGAGAGATACAAAGGCTTTGTACTTTCTGAATGATATCAAGTCTAGTAGGACAACTGATTTGAAAGGATTTGAGCTGAAGTTCACCTTTGACGATCATAATCCTTATTTTAAGAATAAGGTCTTGACTAAAAAGTATGAGGTGATTGATGACAACGAGTCTGTTTCGTTGAAGGCAATTGGGACTAAAATAGACTGGTATCCTTCTCAAAAATTAACGCAGCAGAGTGGTAAAAGCAGTGAAAGTTTCTTTAAGTTCTTTAGTTCATATGCTACTGTCGATCCTCTTTCTTTTGACAAAGAAGCTGATGAACTCAAAGGCGACCTTCCGACGGATTATTTAATTGGTACCAAGTTTCGAGACAAGATCATTCCGCATGCTATATCCTGGTATACATTTTCAGAGGATGATGATAGTGATTTTGGAGATGACAATGATGAAGAATGTGAGCGTTGCTCAAGATGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000731 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006301 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010225 GO:0016035 GO:0018130 GO:0019438 GO:0019985 GO:0032991 GO:0033554 GO:0034641 GO:0034644 GO:0034645 GO:0034654 GO:0042276 GO:0042575 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0061695 GO:0071214 GO:0071478 GO:0071482 GO:0071494 GO:0071704 GO:0071897 GO:0090304 GO:0104004 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko01100 ko01524 ko03460 map01100 map01524 map03460

Pfam Domains

Protein Families

DNA_pol_B DNA_pol_B_exo1 RVT_2 zf-C4pol zf-RanBP

Protein Analysis

305

Amino Acids

35.65

Weight (kDa)

5.22

Isoelectric Point (pI)

41.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NAP	PF00956	64 - 282	1.2e-35	Nucleosome assembly protein (NAP)

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: OG0006072)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55040
fragaria_vesca	FvH4_6g06160
malus_domestica	MD04G1203800.v1.1 MD12G1217600.v1.1
prunus_persica	Prupe.6G323900_v2.0.a1 Prupe.6G323900_v2.0.a1
pyrus_communis	pycom04g18030 pycom12g20320
rosa_chinensis	RchiOBHm_Chr1g0324471 RchiOBHm_Chr3g0455171
rosa_laevigata	RLG00000025382 RLG00000030198
rosa_multiflora	Rmu_sc0002169.1_g000027 Rmu_sc0002502.1_g000001 Rmu_sc0013000.1_g000010
rosa_roxburghii	Rroxscaffold_4G00325480 Rroxscaffold_6G00424520
rosa_rugosa	Rorug01G0046100 Rorug03G0004100 Rorug03G0004200
rosa_samantha	Rh1AG061900 Rh3AG065000 Rh3BG067100 Rh3CG065500 Rh3DG067000
rosa_wichuraiana	Rw1G005240 Rw3G005100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	438
Acc65I	GGTACC	1 cut(s)	797
AccB1I	GGYRCC	1 cut(s)	797
AccI	GTMKAC	1 cut(s)	842
AciI	CCGC	4 cut(s)	63, 66, 266, 824
AclWI	GGATC	3 cut(s)	37, 285, 725
AcuI	CTGAAG	1 cut(s)	548
AcyI	GRCGYC	1 cut(s)	60
AfaI	GTAC	3 cut(s)	93, 473, 799
AfiI	CCNNNNNNNGG	1 cut(s)	781
AflII	CTTAAG	1 cut(s)	167
AgsI	TTSAA	4 cut(s)	74, 127, 514, 622
AhdI	GACNNNNNGTC	1 cut(s)	607
AjnI	CCWGG	2 cut(s)	185, 836
AluBI	AGCT	2 cut(s)	526, 755
AluI	AGCT	2 cut(s)	526, 755
Alw26I	GTCTC	1 cut(s)	804
AlwI	GGATC	3 cut(s)	37, 285, 725
ApeKI	GCWGC	2 cut(s)	380, 670
ArsI	GACNNNNNNTTYG	2 cut(s)	493, 525
Asp718I	GGTACC	1 cut(s)	797
AspLEI	GCGC	1 cut(s)	7
AspS9I	GGNCC	1 cut(s)	190
AsuC2I	CCSGG	1 cut(s)	275
AsuHPI	GGTGA	3 cut(s)	109, 526, 604
AvaII	GGWCC	1 cut(s)	190
BanI	GGYRCC	1 cut(s)	797
BbvI	GCAGC	2 cut(s)	367, 682
BccI	CCATC	3 cut(s)	127, 252, 906
BcgI	CGANNNNNNTGC	2 cut(s)	21, 55
BciT130I	CCWGG	2 cut(s)	187, 838
BciVI	GTATCC	1 cut(s)	660
BcnI	CCSGG	1 cut(s)	275
BcoDI	GTCTC	1 cut(s)	804
BfaI	CTAG	1 cut(s)	495
BfrI	CTTAAG	1 cut(s)	167
BfuI	GTATCC	1 cut(s)	660
BisI	GCNGC	4 cut(s)	63, 66, 381, 671
BlsI	GCNGC	4 cut(s)	64, 67, 382, 672
Bme1390I	CCNGG	3 cut(s)	187, 275, 838
Bme18I	GGWCC	1 cut(s)	190
BmeRI	GACNNNNNGTC	1 cut(s)	607
BmgT120I	GGNCC	1 cut(s)	190
BmiI	GGNNCC	2 cut(s)	191, 799
BmrFI	CCNGG	3 cut(s)	187, 275, 838
BplI	GAGNNNNNCTC	1 cut(s)	890
BpuEI	CTTGAG	1 cut(s)	892
BpuMI	CCSGG	1 cut(s)	275
Bsa29I	ATCGAT	1 cut(s)	41
BsaAI	YACGTR	1 cut(s)	91
BsaBI	GATNNNNATC	1 cut(s)	549
BsaHI	GRCGYC	1 cut(s)	60
BsaJI	CCNNGG	1 cut(s)	186
Bsc4I	CCNNNNNNNGG	1 cut(s)	781
Bse1I	ACTGG	2 cut(s)	18, 650
Bse3DI	GCAATG	1 cut(s)	420
Bse8I	GATNNNNATC	1 cut(s)	549
BseBI	CCWGG	2 cut(s)	187, 838
BseCI	ATCGAT	1 cut(s)	41
BseDI	CCNNGG	1 cut(s)	186
BseGI	GGATG	1 cut(s)	862
BseJI	GATNNNNATC	1 cut(s)	549
BseLI	CCNNNNNNNGG	1 cut(s)	781
BseMI	GCAATG	1 cut(s)	420
BseNI	ACTGG	2 cut(s)	18, 650
BseRI	GAGGAG	1 cut(s)	260
BseXI	GCAGC	2 cut(s)	367, 682
BsgI	GTGCAG	1 cut(s)	42
BshNI	GGYRCC	1 cut(s)	797
BshVI	ATCGAT	1 cut(s)	41
BsiSI	CCGG	1 cut(s)	274
BsiWI	CGTACG	1 cut(s)	91
BslFI	GGGAC	3 cut(s)	203, 377, 646
BslI	CCNNNNNNNGG	1 cut(s)	781
BsmAI	GTCTC	1 cut(s)	804
BsmFI	GGGAC	3 cut(s)	203, 377, 646
BsmI	GAATGC	1 cut(s)	108
Bsp143I	GATC	5 cut(s)	42, 277, 544, 730, 816
BspACI	CCGC	4 cut(s)	63, 66, 266, 824
BspDI	ATCGAT	1 cut(s)	41
BspLI	GGNNCC	2 cut(s)	191, 799
BspPI	GGATC	3 cut(s)	37, 285, 725
BspT107I	GGYRCC	1 cut(s)	797
BspTI	CTTAAG	1 cut(s)	167
BsrDI	GCAATG	1 cut(s)	420
BsrI	ACTGG	2 cut(s)	18, 650
BssECI	CCNNGG	1 cut(s)	186
BssMI	GATC	5 cut(s)	42, 277, 544, 730, 816
BssNAI	GTATAC	1 cut(s)	843
BssNI	GRCGYC	1 cut(s)	60
Bst1107I	GTATAC	1 cut(s)	843
Bst2UI	CCWGG	2 cut(s)	187, 838
Bst4CI	ACNGT	1 cut(s)	727
BstACI	GRCGYC	1 cut(s)	60
BstAFI	CTTAAG	1 cut(s)	167
BstAPI	GCANNNNNTGC	1 cut(s)	419
BstBAI	YACGTR	1 cut(s)	91
BstC8I	GCNNGC	2 cut(s)	264, 828
BstF5I	GGATG	1 cut(s)	862
BstHHI	GCGC	1 cut(s)	7
BstKTI	GATC	5 cut(s)	45, 280, 547, 733, 819
BstMAI	GTCTC	1 cut(s)	804
BstMBI	GATC	5 cut(s)	42, 277, 544, 730, 816
BstMWI	GCNNNNNNNGC	3 cut(s)	29, 74, 419
BstNI	CCWGG	2 cut(s)	187, 838
BstNSI	RCATGY	2 cut(s)	212, 830
BstSCI	CCNGG	3 cut(s)	185, 273, 836
BstSNI	TACGTA	1 cut(s)	91
BstV1I	GCAGC	2 cut(s)	367, 682
BstX2I	RGATCY	1 cut(s)	277
BstYI	RGATCY	1 cut(s)	277
BstZ17I	GTATAC	1 cut(s)	843
Bsu15I	ATCGAT	1 cut(s)	41
BsuI	GTATCC	1 cut(s)	660
BsuTUI	ATCGAT	1 cut(s)	41
BtsCI	GGATG	1 cut(s)	862
BtsI	GCAGTG	1 cut(s)	694
BtsIMutI	CAGTG	2 cut(s)	25, 694
Cac8I	GCNNGC	2 cut(s)	264, 828
CfoI	GCGC	1 cut(s)	7
Cfr13I	GGNCC	1 cut(s)	190
ClaI	ATCGAT	1 cut(s)	41
CseI	GACGC	1 cut(s)	68
Csp6I	GTAC	3 cut(s)	92, 472, 798
CviAII	CATG	3 cut(s)	209, 292, 827
CviJI	RGCY	9 cut(s)	77, 177, 233, 262, 355, 406, 467, 526, 755
CviKI_1	RGCY	9 cut(s)	77, 177, 233, 262, 355, 406, 467, 526, 755
CviQI	GTAC	3 cut(s)	92, 472, 798
DpnI	GATC	5 cut(s)	44, 279, 546, 732, 818
DpnII	GATC	5 cut(s)	42, 277, 544, 730, 816
DriI	GACNNNNNGTC	1 cut(s)	607
Eam1105I	GACNNNNNGTC	1 cut(s)	607
EciI	GGCGGA	1 cut(s)	281
Eco105I	TACGTA	1 cut(s)	91
Eco32I	GATATC	1 cut(s)	487
Eco47I	GGWCC	1 cut(s)	190
Eco57I	CTGAAG	1 cut(s)	548
EcoRII	CCWGG	2 cut(s)	185, 836
EcoRV	GATATC	1 cut(s)	487
FaeI	CATG	3 cut(s)	212, 295, 830
FalI	AAGNNNNNCTT	4 cut(s)	521, 553, 759, 791
FaqI	GGGAC	3 cut(s)	203, 377, 646
FatI	CATG	3 cut(s)	208, 291, 826
FauNDI	CATATG	1 cut(s)	718
FblI	GTMKAC	1 cut(s)	842
Fnu4HI	GCNGC	4 cut(s)	63, 66, 381, 671
FokI	GGATG	1 cut(s)	869
Fsp4HI	GCNGC	4 cut(s)	63, 66, 381, 671
FspBI	CTAG	1 cut(s)	495
GlaI	GCGC	1 cut(s)	6
GluI	GCNGC	4 cut(s)	63, 66, 381, 671
HapII	CCGG	1 cut(s)	274
HgaI	GACGC	1 cut(s)	68
HhaI	GCGC	1 cut(s)	7
Hin1I	GRCGYC	1 cut(s)	60
Hin1II	CATG	3 cut(s)	212, 295, 830
Hin6I	GCGC	1 cut(s)	5
HinP1I	GCGC	1 cut(s)	5
HinfI	GANTC	4 cut(s)	182, 295, 390, 608
HpaII	CCGG	1 cut(s)	274
HphI	GGTGA	3 cut(s)	109, 526, 604
Hpy166II	GTNNAC	3 cut(s)	164, 534, 843
Hpy188I	TCNGA	3 cut(s)	480, 780, 853
Hpy188III	TCNNGA	3 cut(s)	574, 809, 909
Hpy8I	GTNNAC	3 cut(s)	164, 534, 843
Hpy99I	CGWCG	3 cut(s)	59, 62, 784
HpyAV	CCTTC	3 cut(s)	616, 663, 785
HpyCH4III	ACNGT	1 cut(s)	727
HpyCH4IV	ACGT	1 cut(s)	90
HpyCH4V	TGCA	4 cut(s)	23, 108, 413, 449
HpyF10VI	GCNNNNNNNGC	3 cut(s)	29, 74, 419
HpySE526I	ACGT	1 cut(s)	90
Hsp92I	GRCGYC	1 cut(s)	60
Hsp92II	CATG	3 cut(s)	212, 295, 830
HspAI	GCGC	1 cut(s)	5
KpnI	GGTACC	1 cut(s)	801
Kzo9I	GATC	5 cut(s)	42, 277, 544, 730, 816
Lsp1109I	GCAGC	2 cut(s)	367, 682
MaeI	CTAG	1 cut(s)	495
MaeII	ACGT	1 cut(s)	90
MalI	GATC	5 cut(s)	44, 279, 546, 732, 818
MboI	GATC	5 cut(s)	42, 277, 544, 730, 816
MboII	GAAGA	2 cut(s)	6, 902
MfeI	CAATTG	2 cut(s)	69, 627
MflI	RGATCY	1 cut(s)	277
MluCI	AATT	4 cut(s)	69, 627, 662, 792
MlyI	GAGTC	2 cut(s)	399, 617
MmeI	TCCRAC	1 cut(s)	803
MnlI	CCTC	9 cut(s)	21, 188, 220, 238, 245, 366, 583, 744, 847
MseI	TTAA	7 cut(s)	168, 336, 350, 561, 665, 702, 791
MspCI	CTTAAG	1 cut(s)	167
MspI	CCGG	1 cut(s)	274
MspR9I	CCNGG	3 cut(s)	187, 275, 838
MunI	CAATTG	2 cut(s)	69, 627
Mva1269I	GAATGC	1 cut(s)	108
MvaI	CCWGG	2 cut(s)	187, 838
MwoI	GCNNNNNNNGC	3 cut(s)	29, 74, 419
NciI	CCSGG	1 cut(s)	275
NdeI	CATATG	1 cut(s)	718
NdeII	GATC	5 cut(s)	42, 277, 544, 730, 816
NlaIII	CATG	3 cut(s)	212, 295, 830
NlaIV	GGNNCC	2 cut(s)	191, 799
NspI	RCATGY	2 cut(s)	212, 830
PaeI	GCATGC	1 cut(s)	830
PctI	GAATGC	1 cut(s)	108
PfeI	GAWTC	2 cut(s)	182, 295
Pfl23II	CGTACG	1 cut(s)	91
PflFI	GACNNNGTC	1 cut(s)	218
PkrI	GCNGC	4 cut(s)	64, 67, 382, 672
PleI	GAGTC	2 cut(s)	398, 616
PpsI	GAGTC	2 cut(s)	398, 616
Ppu21I	YACGTR	1 cut(s)	91
PsiI	TTATAA	1 cut(s)	438
Psp6I	CCWGG	2 cut(s)	185, 836
PspGI	CCWGG	2 cut(s)	185, 836
PspLI	CGTACG	1 cut(s)	91
PspN4I	GGNNCC	2 cut(s)	191, 799
PspPI	GGNCC	1 cut(s)	190
PsuI	RGATCY	1 cut(s)	277
PsyI	GACNNNGTC	1 cut(s)	218
RsaI	GTAC	3 cut(s)	93, 473, 799
RsaNI	GTAC	3 cut(s)	92, 472, 798
SaqAI	TTAA	7 cut(s)	168, 336, 350, 561, 665, 702, 791
SatI	GCNGC	4 cut(s)	63, 66, 381, 671
Sau3AI	GATC	5 cut(s)	42, 277, 544, 730, 816
Sau96I	GGNCC	1 cut(s)	190
SchI	GAGTC	2 cut(s)	399, 617
ScrFI	CCNGG	3 cut(s)	187, 275, 838
SetI	ASST	7 cut(s)	93, 528, 539, 573, 594, 757, 777
SinI	GGWCC	1 cut(s)	190
SmlI	CTYRAG	2 cut(s)	167, 907
SmoI	CTYRAG	2 cut(s)	167, 907
SnaBI	TACGTA	1 cut(s)	91
SphI	GCATGC	1 cut(s)	830
Sse9I	AATT	4 cut(s)	69, 627, 662, 792
SsiI	CCGC	4 cut(s)	63, 66, 266, 824
SspMI	CTAG	1 cut(s)	495
StyD4I	CCNGG	3 cut(s)	185, 273, 836
TaaI	ACNGT	1 cut(s)	727
TaiI	ACGT	1 cut(s)	93
TaqI	TCGA	4 cut(s)	41, 180, 729, 808
TasI	AATT	4 cut(s)	69, 627, 662, 792
TatI	WGTACW	1 cut(s)	471
TauI	GCSGC	2 cut(s)	65, 68
TfiI	GAWTC	2 cut(s)	182, 295
Tru1I	TTAA	7 cut(s)	168, 336, 350, 561, 665, 702, 791
Tru9I	TTAA	7 cut(s)	168, 336, 350, 561, 665, 702, 791
TscAI	CASTG	2 cut(s)	25, 694
TseI	GCWGC	2 cut(s)	380, 670
TspDTI	ATGAA	5 cut(s)	308, 378, 705, 774, 903
TspGWI	ACGGA	1 cut(s)	797
TspRI	CASTG	2 cut(s)	25, 694
Tth111I	GACNNNGTC	1 cut(s)	218
Vha464I	CTTAAG	1 cut(s)	167
VpaK11BI	GGWCC	1 cut(s)	190
XceI	RCATGY	2 cut(s)	212, 830
XmiI	GTMKAC	1 cut(s)	842
XspI	CTAG	1 cut(s)	495

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