Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0004301

Physical Location & Seq

Genomic Coordinates Forward (+)

3354371 .. 3357901

Gene Structure 3531 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0042800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1008 bp

ATGACGATCGACGACGAGAGCTCCGTCTACGTCGGCGGCCTTCCGTACGACGCCACGGAGGACAGTGTCCGCCGAGTCTTCGATCTGTACGGCGCCGTCGTCGCCGTTAAGATTGTGAATGATAATACGAGCAGAGGAAAATGCTACGGCTTCGTTACGTTTCGGAATCCACGGTCGGCGATCGACGCCATCAACGACATGGACGGCAGGACTGTGGATGGGAGAGTTGTGAGAGTGAATGAGATGGAGTATGATGATGTTAGGGAGAGGTATAGGGAGAGGTCTATGGAGCGTGGGGATAGGTACATTGTTCGGTCAAGGGAGCGGCGGTCTGTTGAGTATGAGGGGGAAATAGATGGGGGATACGGTCGTGTACATGGTGATCAGGAGGTAATGAGTGAGCATTTCTCGGATAGAGAACGTGTGAGGGACAGGGATTTGGAAGATATTGAGCAAGGACACAGCAGGAGCCATGAGCGGGGTTGGGGGAGAAGAAATCGTACTGTGGAATCTGATAGAGAGAGGGAGATGGACAGAACGGAGCTTCCAAATGATATTGTTGAGAAGGATAGAGATCAACAGTCAAGGAGGTGGAACGGTTCAAATTCTGTTGACCGAAATAGTAGGGAGCTTTTATCCCATTCAAGTGATGATTTCAGTGATCAGGTAAAAGAACAGCTTGAAAGATCCACACTGAGGCTTGAAGAATTGAAAAAAGAGACTTCTGAGATGGAAGAGAAGTTAGAAGATGAAGGAAAACTGGTTTTGGATTTACAGAATCAATCTAAGAAGCTGGAGGATGCATTGGTAAATGCAAAGAAGAACACTTCACACCAGAAGATGCAGTTGACCAAGCTACATGATTGCTTTATGCAAGTAAAAGATTACAGAGAAAGACTTAAAAGAAGTGAAGATGAACTTCAGATGCTGGTTGAAGCAGCAACAGGGGAAGATGGCATTGATGATGTTGGCTTGAGGGATAAAATCCTGACTATTGGCAATGCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000815 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0005771 GO:0006810 GO:0006900 GO:0006996 GO:0007032 GO:0008104 GO:0008150 GO:0009987 GO:0010008 GO:0010256 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0016050 GO:0016192 GO:0031090 GO:0031410 GO:0031982 GO:0032991 GO:0033036 GO:0036452 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0051179 GO:0051234 GO:0061024 GO:0070676 GO:0071702 GO:0071705 GO:0071840 GO:0097708 GO:0098588 GO:0098796 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko04144 ko04217 map04144 map04217

Pfam Domains

Protein Families

Snf7

Protein Analysis

335

Amino Acids

39.12

Weight (kDa)

5.03

Isoelectric Point (pI)

45.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	9 - 78	5.5e-21	RNA recognition motif

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: OG0004301)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G05280
fragaria_vesca	FvH4_1g08250
malus_domestica	MD01G1126200.v1.1 MD02G1086800.v1.1 MD07G1195700.v1.1 MD07G1195800.v1.1 MD07G1196000.v1.1 MD07G1196100.v1.1 MD15G1214000.v1.1
prunus_persica	Prupe.2G233100_v2.0.a1 Prupe.3G043300_v2.0.a1 Prupe.7G203000_v2.0.a1
pyrus_communis	pycom01g15190 pycom09g10280 pycom15g19020
rosa_chinensis	RchiOBHm_Chr2g0094301 RchiOBHm_Chr2g0144911
rosa_laevigata	RLG00000016475 RLG00000020118
rosa_multiflora	Rmu_sc0002354.1_g000011 Rmu_sc0003819.1_g000026
rosa_roxburghii	Rroxscaffold_2G00147280
rosa_rugosa	Rorug02G0042800
rosa_samantha	Rh2AG090600 Rh2AG442000 Rh2BG090500 Rh2BG452600 Rh2CG093000 Rh2CG429300 Rh2DG089500 Rh2DG462500
rosa_wichuraiana	Rw2G036140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	92
AccBSI	CCGCTC	2 cut(s)	325, 478
AccI	GTMKAC	1 cut(s)	27
AciI	CCGC	5 cut(s)	36, 70, 325, 328, 478
AclWI	GGATC	1 cut(s)	681
AcsI	RAATTY	1 cut(s)	604
AcuI	CTGAAG	1 cut(s)	905
AcyI	GRCGYC	3 cut(s)	51, 93, 186
AfaI	GTAC	5 cut(s)	47, 89, 305, 375, 502
AfiI	CCNNNNNNNGG	2 cut(s)	478, 696
AflIII	ACRYGT	1 cut(s)	421
AgsI	TTSAA	6 cut(s)	603, 645, 683, 704, 712, 935
AloI	GAACNNNNNNTCC	2 cut(s)	529, 561
AluBI	AGCT	6 cut(s)	21, 544, 631, 679, 793, 856
AluI	AGCT	6 cut(s)	21, 544, 631, 679, 793, 856
Alw21I	GWGCWC	1 cut(s)	23
Alw26I	GTCTC	1 cut(s)	713
AlwI	GGATC	1 cut(s)	681
AlwNI	CAGNNNCTG	1 cut(s)	928
AoxI	GGCC	1 cut(s)	37
ApeKI	GCWGC	1 cut(s)	938
ApoI	RAATTY	1 cut(s)	604
AspLEI	GCGC	1 cut(s)	95
AsuHPI	GGTGA	1 cut(s)	392
BaeI	ACNNNNGTAYC	2 cut(s)	355, 388
BanI	GGYRCC	1 cut(s)	92
BanII	GRGCYC	1 cut(s)	23
BarI	GAAGNNNNNNTAC	2 cut(s)	484, 516
BbsI	GAAGAC	1 cut(s)	70
Bbv12I	GWGCWC	1 cut(s)	23
BbvI	GCAGC	1 cut(s)	950
BccI	CCATC	7 cut(s)	197, 212, 238, 350, 523, 724, 947
BceAI	ACGGC	5 cut(s)	80, 89, 106, 163, 220
BciVI	GTATCC	1 cut(s)	356
BclI	TGATCA	2 cut(s)	382, 661
BcoDI	GTCTC	1 cut(s)	713
BfoI	RGCGCY	1 cut(s)	96
BfuI	GTATCC	1 cut(s)	356
BisI	GCNGC	3 cut(s)	37, 326, 939
BlsI	GCNGC	3 cut(s)	38, 327, 940
BmiI	GGNNCC	2 cut(s)	94, 470
BmsI	GCATC	3 cut(s)	790, 831, 915
BpiI	GAAGAC	1 cut(s)	70
BplI	GAGNNNNNCTC	2 cut(s)	392, 424
BpmI	CTGGAG	1 cut(s)	815
BpuEI	CTTGAG	1 cut(s)	994
BsaBI	GATNNNNATC	1 cut(s)	573
BsaHI	GRCGYC	3 cut(s)	51, 93, 186
BsaJI	CCNNGG	2 cut(s)	54, 170
BsaXI	ACNNNNNCTCC	4 cut(s)	5, 35, 314, 344
Bsc4I	CCNNNNNNNGG	2 cut(s)	478, 696
Bse1I	ACTGG	1 cut(s)	765
Bse3DI	GCAATG	1 cut(s)	1006
Bse8I	GATNNNNATC	1 cut(s)	573
BseDI	CCNNGG	2 cut(s)	54, 170
BseGI	GGATG	2 cut(s)	223, 805
BseJI	GATNNNNATC	1 cut(s)	573
BseLI	CCNNNNNNNGG	2 cut(s)	478, 696
BseMI	GCAATG	1 cut(s)	1006
BseMII	CTCAG	2 cut(s)	686, 717
BseNI	ACTGG	1 cut(s)	765
BseXI	GCAGC	1 cut(s)	950
Bsh1285I	CGRYCG	4 cut(s)	9, 176, 183, 370
BshFI	GGCC	1 cut(s)	39
BshNI	GGYRCC	1 cut(s)	92
BsiEI	CGRYCG	4 cut(s)	9, 176, 183, 370
BsiHKAI	GWGCWC	1 cut(s)	23
BsiWI	CGTACG	1 cut(s)	45
BslFI	GGGAC	1 cut(s)	443
BslI	CCNNNNNNNGG	2 cut(s)	478, 696
BsmAI	GTCTC	1 cut(s)	713
BsmFI	GGGAC	1 cut(s)	443
BsnI	GGCC	1 cut(s)	39
Bsp1286I	GDGCHC	1 cut(s)	23
Bsp1407I	TGTACA	1 cut(s)	373
Bsp143I	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
BspACI	CCGC	5 cut(s)	36, 70, 325, 328, 478
BspANI	GGCC	1 cut(s)	39
BspCNI	CTCAG	2 cut(s)	687, 718
BspLI	GGNNCC	2 cut(s)	94, 470
BspPI	GGATC	1 cut(s)	681
BspT107I	GGYRCC	1 cut(s)	92
BsrBI	CCGCTC	2 cut(s)	325, 478
BsrDI	GCAATG	1 cut(s)	1006
BsrGI	TGTACA	1 cut(s)	373
BsrI	ACTGG	1 cut(s)	765
BssECI	CCNNGG	2 cut(s)	54, 170
BssMI	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
BssNI	GRCGYC	3 cut(s)	51, 93, 186
Bst4CI	ACNGT	7 cut(s)	65, 174, 214, 368, 505, 582, 599
Bst6I	CTCTTC	1 cut(s)	729
BstACI	GRCGYC	3 cut(s)	51, 93, 186
BstAUI	TGTACA	1 cut(s)	373
BstDEI	CTNAG	3 cut(s)	695, 726, 786
BstDSI	CCRYGG	2 cut(s)	54, 170
BstF5I	GGATG	2 cut(s)	223, 805
BstH2I	RGCGCY	1 cut(s)	96
BstHHI	GCGC	1 cut(s)	95
BstKTI	GATC	7 cut(s)	9, 85, 183, 385, 577, 664, 689
BstMAI	GTCTC	1 cut(s)	713
BstMBI	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
BstMCI	CGRYCG	4 cut(s)	9, 176, 183, 370
BstMWI	GCNNNNNNNGC	2 cut(s)	101, 185
BstV1I	GCAGC	1 cut(s)	950
BstV2I	GAAGAC	1 cut(s)	70
BstX2I	RGATCY	1 cut(s)	686
BstYI	RGATCY	1 cut(s)	686
BsuI	GTATCC	1 cut(s)	356
BsuRI	GGCC	1 cut(s)	39
BtgI	CCRYGG	2 cut(s)	54, 170
BtsCI	GGATG	2 cut(s)	223, 805
BtsIMutI	CAGTG	3 cut(s)	70, 664, 692
CaiI	CAGNNNCTG	1 cut(s)	928
CfoI	GCGC	1 cut(s)	95
CseI	GACGC	2 cut(s)	59, 194
Csp6I	GTAC	5 cut(s)	46, 88, 304, 374, 501
CviAII	CATG	4 cut(s)	199, 377, 473, 860
CviQI	GTAC	5 cut(s)	46, 88, 304, 374, 501
DdeI	CTNAG	3 cut(s)	695, 726, 786
DinI	GGCGCC	1 cut(s)	94
DpnI	GATC	7 cut(s)	8, 84, 182, 384, 576, 663, 688
DpnII	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
Eam1104I	CTCTTC	1 cut(s)	729
EarI	CTCTTC	1 cut(s)	729
EciI	GGCGGA	1 cut(s)	59
Ecl136II	GAGCTC	1 cut(s)	21
Eco24I	GRGCYC	1 cut(s)	23
Eco53kI	GAGCTC	1 cut(s)	21
Eco57I	CTGAAG	1 cut(s)	905
EcoICRI	GAGCTC	1 cut(s)	21
EcoT22I	ATGCAT	1 cut(s)	805
EcoT38I	GRGCYC	1 cut(s)	23
EgeI	GGCGCC	1 cut(s)	94
EheI	GGCGCC	1 cut(s)	94
FaeI	CATG	4 cut(s)	202, 380, 476, 863
FaiI	YATR	9 cut(s)	200, 252, 273, 287, 342, 378, 474, 861, 872
FalI	AAGNNNNNCTT	4 cut(s)	663, 695, 903, 935
FaqI	GGGAC	1 cut(s)	443
FatI	CATG	4 cut(s)	198, 376, 472, 859
FauI	CCCGC	1 cut(s)	471
FbaI	TGATCA	2 cut(s)	382, 661
FblI	GTMKAC	1 cut(s)	27
Fnu4HI	GCNGC	3 cut(s)	37, 326, 939
FokI	GGATG	2 cut(s)	230, 812
FriOI	GRGCYC	1 cut(s)	23
Fsp4HI	GCNGC	3 cut(s)	37, 326, 939
GlaI	GCGC	1 cut(s)	94
GluI	GCNGC	3 cut(s)	37, 326, 939
GsuI	CTGGAG	1 cut(s)	815
HaeII	RGCGCY	1 cut(s)	96
HaeIII	GGCC	1 cut(s)	39
HgaI	GACGC	2 cut(s)	59, 194
HhaI	GCGC	1 cut(s)	95
Hin1I	GRCGYC	3 cut(s)	51, 93, 186
Hin1II	CATG	4 cut(s)	202, 380, 476, 863
Hin6I	GCGC	1 cut(s)	93
HinP1I	GCGC	1 cut(s)	93
HincII	GTYRAC	2 cut(s)	613, 849
HindII	GTYRAC	2 cut(s)	613, 849
HinfI	GANTC	4 cut(s)	75, 166, 509, 778
HphI	GGTGA	1 cut(s)	392
Hpy166II	GTNNAC	4 cut(s)	28, 374, 613, 849
Hpy188I	TCNGA	5 cut(s)	165, 412, 514, 727, 924
Hpy188III	TCNNGA	2 cut(s)	386, 988
Hpy8I	GTNNAC	4 cut(s)	28, 374, 613, 849
Hpy99I	CGWCG	7 cut(s)	14, 17, 35, 53, 101, 104, 188
HpyAV	CCTTC	3 cut(s)	50, 559, 746
HpyCH4III	ACNGT	7 cut(s)	65, 174, 214, 368, 505, 582, 599
HpyCH4IV	ACGT	3 cut(s)	30, 158, 421
HpyCH4V	TGCA	4 cut(s)	803, 815, 844, 874
HpyF10VI	GCNNNNNNNGC	2 cut(s)	101, 185
HpyF3I	CTNAG	3 cut(s)	695, 726, 786
HpySE526I	ACGT	3 cut(s)	30, 158, 421
Hsp92I	GRCGYC	3 cut(s)	51, 93, 186
Hsp92II	CATG	4 cut(s)	202, 380, 476, 863
HspAI	GCGC	1 cut(s)	93
KasI	GGCGCC	1 cut(s)	92
Ksp22I	TGATCA	2 cut(s)	382, 661
Kzo9I	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
LmnI	GCTCC	6 cut(s)	26, 289, 322, 468, 541, 628
Lsp1109I	GCAGC	1 cut(s)	950
LweI	GCATC	3 cut(s)	790, 831, 915
MaeII	ACGT	3 cut(s)	30, 158, 421
MaeIII	GTNAC	1 cut(s)	154
MalI	GATC	7 cut(s)	8, 84, 182, 384, 576, 663, 688
MbiI	CCGCTC	2 cut(s)	325, 478
MboI	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
MflI	RGATCY	1 cut(s)	686
MhlI	GDGCHC	1 cut(s)	23
MluCI	AATT	2 cut(s)	604, 707
Mly113I	GGCGCC	1 cut(s)	93
MlyI	GAGTC	1 cut(s)	84
Mph1103I	ATGCAT	1 cut(s)	805
MseI	TTAA	2 cut(s)	108, 900
MslI	CAYNNNNRTG	1 cut(s)	645
MwoI	GCNNNNNNNGC	2 cut(s)	101, 185
NarI	GGCGCC	1 cut(s)	93
NdeII	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
NlaIII	CATG	4 cut(s)	202, 380, 476, 863
NlaIV	GGNNCC	2 cut(s)	94, 470
NmeAIII	GCCGAG	1 cut(s)	98
NsiI	ATGCAT	1 cut(s)	805
PcsI	WCGNNNNNNNCGW	3 cut(s)	21, 96, 192
PfeI	GAWTC	3 cut(s)	166, 509, 778
Pfl23II	CGTACG	1 cut(s)	45
PflFI	GACNNNGTC	1 cut(s)	65
PkrI	GCNGC	3 cut(s)	38, 327, 940
Ple19I	CGATCG	2 cut(s)	9, 183
PleI	GAGTC	1 cut(s)	83
PluTI	GGCGCC	1 cut(s)	96
PpsI	GAGTC	1 cut(s)	83
Psp124BI	GAGCTC	1 cut(s)	23
PspLI	CGTACG	1 cut(s)	45
PspN4I	GGNNCC	2 cut(s)	94, 470
PstNI	CAGNNNCTG	1 cut(s)	928
PsuI	RGATCY	1 cut(s)	686
PsyI	GACNNNGTC	1 cut(s)	65
PvuI	CGATCG	2 cut(s)	9, 183
RsaI	GTAC	5 cut(s)	47, 89, 305, 375, 502
RsaNI	GTAC	5 cut(s)	46, 88, 304, 374, 501
RseI	CAYNNNNRTG	1 cut(s)	645
SacI	GAGCTC	1 cut(s)	23
SaqAI	TTAA	2 cut(s)	108, 900
SatI	GCNGC	3 cut(s)	37, 326, 939
Sau3AI	GATC	7 cut(s)	6, 82, 180, 382, 574, 661, 686
SchI	GAGTC	1 cut(s)	84
SduI	GDGCHC	1 cut(s)	23
SfaNI	GCATC	3 cut(s)	790, 831, 915
SfoI	GGCGCC	1 cut(s)	94
SmiMI	CAYNNNNRTG	1 cut(s)	645
SmlI	CTYRAG	1 cut(s)	973
SmoI	CTYRAG	1 cut(s)	973
Sse9I	AATT	2 cut(s)	604, 707
SsiI	CCGC	5 cut(s)	36, 70, 325, 328, 478
SspDI	GGCGCC	1 cut(s)	92
SstI	GAGCTC	1 cut(s)	23
TaaI	ACNGT	7 cut(s)	65, 174, 214, 368, 505, 582, 599
TaiI	ACGT	3 cut(s)	33, 161, 424
TaqI	TCGA	3 cut(s)	9, 81, 183
TaqII	GACCGA	2 cut(s)	303, 630
TasI	AATT	2 cut(s)	604, 707
TatI	WGTACW	1 cut(s)	373
TauI	GCSGC	2 cut(s)	39, 328
TfiI	GAWTC	3 cut(s)	166, 509, 778
Tru1I	TTAA	2 cut(s)	108, 900
Tru9I	TTAA	2 cut(s)	108, 900
TscAI	CASTG	3 cut(s)	70, 664, 699
TseI	GCWGC	1 cut(s)	938
TspDTI	ATGAA	2 cut(s)	765, 930
TspGWI	ACGGA	4 cut(s)	13, 33, 71, 554
TspRI	CASTG	3 cut(s)	70, 664, 699
Tth111I	GACNNNGTC	1 cut(s)	65
XapI	RAATTY	1 cut(s)	604
XcmI	CCANNNNNNNNNTGG	1 cut(s)	196
XmiI	GTMKAC	1 cut(s)	27
Zsp2I	ATGCAT	1 cut(s)	805

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