Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0011912

Physical Location & Seq

Genomic Coordinates Reverse (-)

3035727 .. 3036882

Gene Structure 1156 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0038800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGAGCCAAGAACAGTCAAAGAGGGGTCATGATCAGCAGCAGAAGGCCGTGAAATTTGCGGACGTTTTCCCTGCCGTTCAGGGAGAGGTGGCGGACAAGGTGGTGGCCCCAAAGGACGCAGCCACGATGCAGACGGCAGAAAGCGAAGCCGTCGGGCAAAACCTCAAACGTGGCGCTGCCGCGACTATGCAGTCCGCAGCTGCACAGAATCAAAGGGCTGGTCATGTGGGACCAAATGACATGAATATTGTCGAAGATGACGTTACCATAACGGAGACTGATCTTCCCGGCCGCCGTATTTTCACGGAGTCAGTTGGTGGACAGGTTGTTGGTGAATATATCCAGAGAGCTCCTTTGGCAGCACCCTCCACTGTTCAAGTTAGTGGCGGTCAAATCACCATCGGTGAAGCCTTGGAGGCTACTGCTATGACGGCCGGAAAGAAGCCCGTGGAGTGGACTGACGCTGCTGCAATCCAAGCAGCTGAGATTAGAGCCACCGGGCGACCCAGCATTGTACCTGGTGGTGTGGCTGCGGAGGCTCAGTCTGCCGCAACCCTCAACGCTCGGACTATGCGCAATGAGGACAAGACCAAACTTGGTGATATTCTTGCGGGTGCAACCGCAAAACTACCAGATGACAAACCAGCAACACTGCGAGACGCCGAGGGTGTGACAGATGCAGAGATGCGAAATGATCGATATCTGACTACACATCCAACAGGTGTGGCAGCTTCGGTGGCTGCAGCTGCTAGGCTAAACCAGGATGACAGCAACATACCAAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000041 GO:0003674 GO:0005215 GO:0005385 GO:0005575 GO:0006810 GO:0006811 GO:0006812 GO:0006829 GO:0008150 GO:0008324 GO:0015075 GO:0015318 GO:0016020 GO:0022857 GO:0022890 GO:0030001 GO:0034220 GO:0046873 GO:0046915 GO:0051179 GO:0051234 GO:0055085 GO:0070838 GO:0071577 GO:0072509 GO:0072511 GO:0098655 GO:0098660 GO:0098662

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Zip

Protein Analysis

261

Amino Acids

27.18

Weight (kDa)

5.11

Isoelectric Point (pI)

35.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMP	PF04927	17 - 73	1.1e-14	Seed maturation protein
SMP	PF04927	132 - 189	2.4e-22	Seed maturation protein
SMP	PF04927	197 - 255	9e-19	Seed maturation protein

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: OG0011912)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G08650 AT3G08650
fragaria_vesca	FvH4_6g09450 FvH4_6g09450
malus_domestica	MD04G1177600.v1.1 MD12G1192900.v1.1
prunus_persica	Prupe.6G297500_v2.0.a1
pyrus_communis	pycom04g15660 pycom12g17960
rosa_chinensis	RchiOBHm_Chr3g0459921
rosa_laevigata	RLG00000025051
rosa_multiflora	Rmu_sc0000240.1_g000047 Rmu_sc0016534.1_g000002
rosa_roxburghii	Rroxscaffold_6G00419910
rosa_rugosa	Rorug03G0038800
rosa_samantha	Rh3AG097400 Rh3BG100300 Rh3CG102100 Rh3DG101800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	190
Acc16I	TGCGCA	1 cut(s)	575
AccII	CGCG	1 cut(s)	182
AcoI	YGGCCR	2 cut(s)	289, 432
AcsI	RAATTY	1 cut(s)	53
AcyI	GRCGYC	1 cut(s)	660
AfaI	GTAC	1 cut(s)	516
AfiI	CCNNNNNNNGG	1 cut(s)	453
AgsI	TTSAA	1 cut(s)	377
AjnI	CCWGG	2 cut(s)	517, 759
AluBI	AGCT	5 cut(s)	200, 350, 482, 731, 746
AluI	AGCT	5 cut(s)	200, 350, 482, 731, 746
Alw21I	GWGCWC	1 cut(s)	352
Alw26I	GTCTC	2 cut(s)	269, 651
AoxI	GGCC	4 cut(s)	45, 105, 289, 432
ApoI	RAATTY	1 cut(s)	53
ArsI	GACNNNNNNTTYG	2 cut(s)	205, 237
AspLEI	GCGC	2 cut(s)	176, 576
AspS9I	GGNCC	2 cut(s)	106, 230
AsuC2I	CCSGG	2 cut(s)	288, 499
AsuHPI	GGTGA	4 cut(s)	344, 388, 416, 611
AvaII	GGWCC	1 cut(s)	230
BanII	GRGCYC	1 cut(s)	352
Bbv12I	GWGCWC	1 cut(s)	352
BccI	CCATC	1 cut(s)	407
BceAI	ACGGC	6 cut(s)	32, 59, 134, 150, 279, 447
BciT130I	CCWGG	2 cut(s)	519, 761
BclI	TGATCA	1 cut(s)	31
BcnI	CCSGG	2 cut(s)	288, 499
BcoDI	GTCTC	2 cut(s)	269, 651
BfaI	CTAG	1 cut(s)	750
BfmI	CTRYAG	1 cut(s)	741
BfoI	RGCGCY	1 cut(s)	177
BglI	GCCNNNNNGGC	1 cut(s)	416
Bme1390I	CCNGG	4 cut(s)	288, 499, 519, 761
Bme18I	GGWCC	1 cut(s)	230
BmgT120I	GGNCC	2 cut(s)	106, 230
BmiI	GGNNCC	2 cut(s)	108, 231
BmrFI	CCNGG	4 cut(s)	288, 499, 519, 761
BmsI	GCATC	3 cut(s)	117, 667, 675
BpuMI	CCSGG	2 cut(s)	288, 499
Bsa29I	ATCGAT	1 cut(s)	697
BsaBI	GATNNNNATC	1 cut(s)	699
BsaHI	GRCGYC	1 cut(s)	660
BsaJI	CCNNGG	3 cut(s)	411, 447, 663
BsaXI	ACNNNNNCTCC	2 cut(s)	527, 557
Bsc4I	CCNNNNNNNGG	1 cut(s)	453
Bse3DI	GCAATG	1 cut(s)	583
Bse8I	GATNNNNATC	1 cut(s)	699
BseBI	CCWGG	2 cut(s)	519, 761
BseCI	ATCGAT	1 cut(s)	697
BseDI	CCNNGG	3 cut(s)	411, 447, 663
BseGI	GGATG	2 cut(s)	712, 769
BseJI	GATNNNNATC	1 cut(s)	699
BseLI	CCNNNNNNNGG	1 cut(s)	453
BseMI	GCAATG	1 cut(s)	583
BseMII	CTCAG	2 cut(s)	474, 554
BseX3I	CGGCCG	2 cut(s)	289, 432
BseYI	CCCAGC	1 cut(s)	506
BsgI	GTGCAG	1 cut(s)	186
Bsh1236I	CGCG	1 cut(s)	182
Bsh1285I	CGRYCG	2 cut(s)	292, 435
BshFI	GGCC	4 cut(s)	47, 107, 291, 434
BshVI	ATCGAT	1 cut(s)	697
BsiEI	CGRYCG	2 cut(s)	292, 435
BsiHKAI	GWGCWC	1 cut(s)	352
BsiSI	CCGG	3 cut(s)	288, 435, 498
BslFI	GGGAC	1 cut(s)	243
BslI	CCNNNNNNNGG	1 cut(s)	453
BsmAI	GTCTC	2 cut(s)	269, 651
BsmBI	CGTCTC	1 cut(s)	651
BsmFI	GGGAC	1 cut(s)	243
BsnI	GGCC	4 cut(s)	47, 107, 291, 434
Bsp1286I	GDGCHC	1 cut(s)	352
Bsp143I	GATC	3 cut(s)	31, 280, 694
BspANI	GGCC	4 cut(s)	47, 107, 291, 434
BspCNI	CTCAG	2 cut(s)	475, 553
BspDI	ATCGAT	1 cut(s)	697
BspFNI	CGCG	1 cut(s)	182
BspHI	TCATGA	1 cut(s)	28
BspLI	GGNNCC	2 cut(s)	108, 231
BspMAI	CTGCAG	1 cut(s)	745
BsrDI	GCAATG	1 cut(s)	583
BssECI	CCNNGG	3 cut(s)	411, 447, 663
BssMI	GATC	3 cut(s)	31, 280, 694
BssNI	GRCGYC	1 cut(s)	660
BssT1I	CCWWGG	1 cut(s)	411
Bst2UI	CCWGG	2 cut(s)	519, 761
Bst4CI	ACNGT	2 cut(s)	15, 373
BstACI	GRCGYC	1 cut(s)	660
BstDEI	CTNAG	2 cut(s)	483, 540
BstDSI	CCRYGG	1 cut(s)	447
BstF5I	GGATG	2 cut(s)	712, 769
BstFNI	CGCG	1 cut(s)	182
BstH2I	RGCGCY	1 cut(s)	177
BstHHI	GCGC	2 cut(s)	176, 576
BstKTI	GATC	3 cut(s)	34, 283, 697
BstMAI	GTCTC	2 cut(s)	269, 651
BstMBI	GATC	3 cut(s)	31, 280, 694
BstMCI	CGRYCG	2 cut(s)	292, 435
BstMWI	GCNNNNNNNGC	8 cut(s)	356, 416, 431, 476, 536, 545, 737, 746
BstNI	CCWGG	2 cut(s)	519, 761
BstSCI	CCNGG	4 cut(s)	286, 497, 517, 759
BstSFI	CTRYAG	1 cut(s)	741
BstUI	CGCG	1 cut(s)	182
BstZI	CGGCCG	2 cut(s)	289, 432
Bsu15I	ATCGAT	1 cut(s)	697
BsuRI	GGCC	4 cut(s)	47, 107, 291, 434
BsuTUI	ATCGAT	1 cut(s)	697
BtgI	CCRYGG	1 cut(s)	447
BtsCI	GGATG	2 cut(s)	712, 769
BtsI	GCAGTG	1 cut(s)	650
BtsIMutI	CAGTG	2 cut(s)	369, 650
CciI	TCATGA	1 cut(s)	28
CfoI	GCGC	2 cut(s)	176, 576
Cfr13I	GGNCC	2 cut(s)	106, 230
ClaI	ATCGAT	1 cut(s)	697
CseI	GACGC	3 cut(s)	125, 470, 668
CsiI	ACCWGGT	1 cut(s)	517
Csp6I	GTAC	1 cut(s)	515
CspCI	CAANNNNNGTGG	2 cut(s)	705, 740
CviAII	CATG	3 cut(s)	29, 224, 241
CviQI	GTAC	1 cut(s)	515
DdeI	CTNAG	2 cut(s)	483, 540
DpnI	GATC	3 cut(s)	33, 282, 696
DpnII	GATC	3 cut(s)	31, 280, 694
DrdI	GACNNNNNNGTC	1 cut(s)	190
DseDI	GACNNNNNNGTC	1 cut(s)	190
EaeI	YGGCCR	2 cut(s)	289, 432
EagI	CGGCCG	2 cut(s)	289, 432
EciI	GGCGGA	1 cut(s)	107
Ecl136II	GAGCTC	1 cut(s)	350
EclXI	CGGCCG	2 cut(s)	289, 432
Eco130I	CCWWGG	1 cut(s)	411
Eco24I	GRGCYC	1 cut(s)	352
Eco32I	GATATC	1 cut(s)	701
Eco47I	GGWCC	1 cut(s)	230
Eco52I	CGGCCG	2 cut(s)	289, 432
Eco53kI	GAGCTC	1 cut(s)	350
EcoICRI	GAGCTC	1 cut(s)	350
EcoRII	CCWGG	2 cut(s)	517, 759
EcoRV	GATATC	1 cut(s)	701
EcoT14I	CCWWGG	1 cut(s)	411
EcoT38I	GRGCYC	1 cut(s)	352
ErhI	CCWWGG	1 cut(s)	411
Esp3I	CGTCTC	1 cut(s)	651
FaeI	CATG	3 cut(s)	32, 227, 244
FaiI	YATR	9 cut(s)	30, 188, 225, 242, 269, 339, 428, 572, 776
FaqI	GGGAC	1 cut(s)	243
FatI	CATG	3 cut(s)	28, 223, 240
FauI	CCCGC	1 cut(s)	604
FbaI	TGATCA	1 cut(s)	31
FokI	GGATG	2 cut(s)	699, 776
FriOI	GRGCYC	1 cut(s)	352
FspBI	CTAG	1 cut(s)	750
FspI	TGCGCA	1 cut(s)	575
GlaI	GCGC	2 cut(s)	175, 575
GsaI	CCCAGC	1 cut(s)	510
HaeII	RGCGCY	1 cut(s)	177
HaeIII	GGCC	4 cut(s)	47, 107, 291, 434
HapII	CCGG	3 cut(s)	288, 435, 498
HgaI	GACGC	3 cut(s)	125, 470, 668
HhaI	GCGC	2 cut(s)	176, 576
Hin1I	GRCGYC	1 cut(s)	660
Hin1II	CATG	3 cut(s)	32, 227, 244
Hin6I	GCGC	2 cut(s)	174, 574
HinP1I	GCGC	2 cut(s)	174, 574
HinfI	GANTC	2 cut(s)	208, 308
HpaII	CCGG	3 cut(s)	288, 435, 498
HphI	GGTGA	4 cut(s)	344, 388, 416, 611
Hpy166II	GTNNAC	2 cut(s)	320, 456
Hpy188I	TCNGA	2 cut(s)	567, 705
Hpy188III	TCNNGA	2 cut(s)	29, 343
Hpy8I	GTNNAC	2 cut(s)	320, 456
Hpy99I	CGWCG	1 cut(s)	155
HpyAV	CCTTC	1 cut(s)	37
HpyCH4III	ACNGT	2 cut(s)	15, 373
HpyCH4IV	ACGT	3 cut(s)	63, 169, 261
HpyCH4V	TGCA	7 cut(s)	130, 190, 203, 470, 617, 680, 743
HpyF10VI	GCNNNNNNNGC	8 cut(s)	356, 416, 431, 476, 536, 545, 737, 746
HpyF3I	CTNAG	2 cut(s)	483, 540
HpySE526I	ACGT	3 cut(s)	63, 169, 261
Hsp92I	GRCGYC	1 cut(s)	660
Hsp92II	CATG	3 cut(s)	32, 227, 244
HspAI	GCGC	2 cut(s)	174, 574
Ksp22I	TGATCA	1 cut(s)	31
Kzo9I	GATC	3 cut(s)	31, 280, 694
LmnI	GCTCC	1 cut(s)	355
LweI	GCATC	3 cut(s)	117, 667, 675
MabI	ACCWGGT	1 cut(s)	517
MaeI	CTAG	1 cut(s)	750
MaeII	ACGT	3 cut(s)	63, 169, 261
MaeIII	GTNAC	2 cut(s)	262, 670
MalI	GATC	3 cut(s)	33, 282, 696
MboI	GATC	3 cut(s)	31, 280, 694
MboII	GAAGA	2 cut(s)	266, 275
MhlI	GDGCHC	1 cut(s)	352
MluCI	AATT	1 cut(s)	53
MlyI	GAGTC	1 cut(s)	317
MmeI	TCCRAC	1 cut(s)	740
MnlI	CCTC	9 cut(s)	15, 79, 173, 376, 409, 529, 566, 574, 658
MspA1I	CMGCKG	3 cut(s)	200, 482, 746
MspI	CCGG	3 cut(s)	288, 435, 498
MspR9I	CCNGG	4 cut(s)	288, 499, 519, 761
MvaI	CCWGG	2 cut(s)	519, 761
MvnI	CGCG	1 cut(s)	182
MwoI	GCNNNNNNNGC	8 cut(s)	356, 416, 431, 476, 536, 545, 737, 746
NciI	CCSGG	2 cut(s)	288, 499
NdeII	GATC	3 cut(s)	31, 280, 694
NlaIII	CATG	3 cut(s)	32, 227, 244
NlaIV	GGNNCC	2 cut(s)	108, 231
NmeAIII	GCCGAG	1 cut(s)	688
NmuCI	GTSAC	1 cut(s)	670
NsbI	TGCGCA	1 cut(s)	575
PagI	TCATGA	1 cut(s)	28
PcsI	WCGNNNNNNNCGW	1 cut(s)	258
PfeI	GAWTC	1 cut(s)	208
PleI	GAGTC	1 cut(s)	316
PpsI	GAGTC	1 cut(s)	316
Psp124BI	GAGCTC	1 cut(s)	352
Psp6I	CCWGG	2 cut(s)	517, 759
PspFI	CCCAGC	1 cut(s)	506
PspGI	CCWGG	2 cut(s)	517, 759
PspN4I	GGNNCC	2 cut(s)	108, 231
PspPI	GGNCC	2 cut(s)	106, 230
PstI	CTGCAG	1 cut(s)	745
PvuII	CAGCTG	3 cut(s)	200, 482, 746
RsaI	GTAC	1 cut(s)	516
RsaNI	GTAC	1 cut(s)	515
SacI	GAGCTC	1 cut(s)	352
Sau3AI	GATC	3 cut(s)	31, 280, 694
Sau96I	GGNCC	2 cut(s)	106, 230
SchI	GAGTC	1 cut(s)	317
ScrFI	CCNGG	4 cut(s)	288, 499, 519, 761
SduI	GDGCHC	1 cut(s)	352
SexAI	ACCWGGT	1 cut(s)	517
SfaNI	GCATC	3 cut(s)	117, 667, 675
SfcI	CTRYAG	1 cut(s)	741
SinI	GGWCC	1 cut(s)	230
Sse9I	AATT	1 cut(s)	53
SspI	AATATT	1 cut(s)	247
SspMI	CTAG	1 cut(s)	750
SstI	GAGCTC	1 cut(s)	352
StyD4I	CCNGG	4 cut(s)	286, 497, 517, 759
StyI	CCWWGG	1 cut(s)	411
TaaI	ACNGT	2 cut(s)	15, 373
TaiI	ACGT	3 cut(s)	66, 172, 264
TaqI	TCGA	2 cut(s)	252, 697
TasI	AATT	1 cut(s)	53
TauI	GCSGC	3 cut(s)	182, 294, 551
TfiI	GAWTC	1 cut(s)	208
TscAI	CASTG	2 cut(s)	376, 657
TseFI	GTSAC	1 cut(s)	670
Tsp45I	GTSAC	1 cut(s)	670
TspDTI	ATGAA	1 cut(s)	257
TspGWI	ACGGA	2 cut(s)	287, 320
TspRI	CASTG	2 cut(s)	376, 657
VpaK11BI	GGWCC	1 cut(s)	230
XapI	RAATTY	1 cut(s)	53
XspI	CTAG	1 cut(s)	750

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