Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0007178

Physical Location & Seq

Genomic Coordinates Reverse (-)

2824302 .. 2830364

Gene Structure 6063 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G003250.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGAGCCAAGAACAGTCAAAGAGGGGTCATGATCAGCAGCAGAAGGCCGTGAAATTTGCGGACATTTTCCCTGCTGTTCAGGGAGAGGTGGCGGACAAGGTGGTGGCCCCAAAGGACGCAGCCACGATGCAGACGGCAGAAAGCGAAGCCATGAGAACTCGGGTCGGGCAAAACCTCAAACGTGGCGTTGCCGCGACTATGCAGTCCGCTGCTGCACAGAATCAAAGGGCTGGTCATGTGGGACCAAATGACATGAATATTGTCCAAGATGACTTTACCATAACGGAGACTGATCTTCCCGGCCGCCGTATTTTCACGGAGTCAGTTGTTGGTGAATATATCAAGAGAGCTCCTTTGGTAGCACCCTCCACTGTTCAAGTTAGTGGCGGTCAAATCACCATTGGTGAAGCCTTGGAGGCTACTGCTATGACGGCCGGAAAGAAGCCCGTGGACTGGAGTGACGCTGCTGCAATCCAAGCAGCTGAGATTAGAGCCACCGGGCGACCCAGCATTGTACCTGGTGGTGTGGCTGCGGAGGCTCAGTCTGCCGCAACCCTCAACGCTCGGACTATGCGCAATGAGGACAAGACCAAACTTGGTGATATTCTTGCGGGTGCAACCGCAAAACTACCAGATGACAAACCAGCAACACTGCGAGACGCCGAGGGTGTGACAGATGCAGAGATGCGAAATGATCGATATCTGAATACACATCCAACCGGTGTGGCGGCTTCGGTGGCTGCAGCTGCTAGGCTAAACCAGGATGATAGCAACATACCAAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SMP

Protein Analysis

261

Amino Acids

27.49

Weight (kDa)

5.72

Isoelectric Point (pI)

36.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMP	PF04927	17 - 77	1.1e-13	Seed maturation protein
SMP	PF04927	132 - 189	7.2e-23	Seed maturation protein
SMP	PF04927	197 - 255	1.1e-18	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: OG0007178)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G27980
fragaria_vesca	FvH4_6g03840 FvH4_6g03841
malus_domestica	MD04G1217900.v1.1 MD12G1235300.v1.1
prunus_persica	Prupe.6G337900_v2.0.a1 Prupe.6G337900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0452411
rosa_laevigata	RLG00000025605
rosa_multiflora	Rmu_co8111080.1_g000001 Rmu_sc0010928.1_g000016
rosa_roxburghii	Rroxscaffold_6G00429430 Rroxscaffold_6G00429940
rosa_rugosa	Rorug02G0640500 Rorug02G0640600
rosa_samantha	Rh3AG042400 Rh3AG042500 Rh3BG043900 Rh3BG044000 Rh3CG042700 Rh3CG042800 Rh3DG043400 Rh3DG043500
rosa_wichuraiana	Rw3G003250 Rw3G003260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	202
Acc16I	TGCGCA	1 cut(s)	575
AccII	CGCG	1 cut(s)	194
AcoI	YGGCCR	2 cut(s)	301, 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
AgeI	ACCGGT	1 cut(s)	719
AgsI	TTSAA	1 cut(s)	377
AjnI	CCWGG	2 cut(s)	517, 759
AluBI	AGCT	3 cut(s)	350, 482, 746
AluI	AGCT	3 cut(s)	350, 482, 746
Alw21I	GWGCWC	1 cut(s)	352
Alw26I	GTCTC	2 cut(s)	281, 651
Ama87I	CYCGRG	1 cut(s)	159
AoxI	GGCC	4 cut(s)	45, 105, 301, 432
ApoI	RAATTY	1 cut(s)	53
ArsI	GACNNNNNNTTYG	2 cut(s)	217, 249
AsiGI	ACCGGT	1 cut(s)	719
AspLEI	GCGC	1 cut(s)	576
AspS9I	GGNCC	2 cut(s)	106, 242
AsuC2I	CCSGG	2 cut(s)	300, 499
AsuHPI	GGTGA	4 cut(s)	344, 388, 416, 611
AvaI	CYCGRG	1 cut(s)	159
AvaII	GGWCC	1 cut(s)	242
BanII	GRGCYC	1 cut(s)	352
Bbv12I	GWGCWC	1 cut(s)	352
BceAI	ACGGC	4 cut(s)	32, 150, 291, 447
BciT130I	CCWGG	2 cut(s)	519, 761
BclI	TGATCA	1 cut(s)	31
BcnI	CCSGG	2 cut(s)	300, 499
BcoDI	GTCTC	2 cut(s)	281, 651
BfaI	CTAG	1 cut(s)	750
BfmI	CTRYAG	1 cut(s)	741
BglI	GCCNNNNNGGC	1 cut(s)	416
Bme1390I	CCNGG	4 cut(s)	300, 499, 519, 761
Bme18I	GGWCC	1 cut(s)	242
BmeT110I	CYCGRG	1 cut(s)	159
BmgT120I	GGNCC	2 cut(s)	106, 242
BmiI	GGNNCC	2 cut(s)	108, 243
BmrFI	CCNGG	4 cut(s)	300, 499, 519, 761
BmsI	GCATC	3 cut(s)	117, 667, 675
BpmI	CTGGAG	1 cut(s)	475
BpuMI	CCSGG	2 cut(s)	300, 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
BsaWI	WCCGGW	1 cut(s)	719
BsaXI	ACNNNNNCTCC	2 cut(s)	527, 557
Bsc4I	CCNNNNNNNGG	1 cut(s)	453
Bse118I	RCCGGY	1 cut(s)	719
Bse1I	ACTGG	1 cut(s)	458
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
BseNI	ACTGG	1 cut(s)	458
BseX3I	CGGCCG	2 cut(s)	301, 432
BseYI	CCCAGC	1 cut(s)	506
BsgI	GTGCAG	1 cut(s)	198
Bsh1236I	CGCG	1 cut(s)	194
Bsh1285I	CGRYCG	2 cut(s)	304, 435
BshFI	GGCC	4 cut(s)	47, 107, 303, 434
BshTI	ACCGGT	1 cut(s)	719
BshVI	ATCGAT	1 cut(s)	697
BsiEI	CGRYCG	2 cut(s)	304, 435
BsiHKAI	GWGCWC	1 cut(s)	352
BsiHKCI	CYCGRG	1 cut(s)	159
BsiSI	CCGG	4 cut(s)	300, 435, 498, 720
BslFI	GGGAC	1 cut(s)	255
BslI	CCNNNNNNNGG	1 cut(s)	453
BsmAI	GTCTC	2 cut(s)	281, 651
BsmBI	CGTCTC	1 cut(s)	651
BsmFI	GGGAC	1 cut(s)	255
BsnI	GGCC	4 cut(s)	47, 107, 303, 434
BsoBI	CYCGRG	1 cut(s)	159
Bsp1286I	GDGCHC	1 cut(s)	352
Bsp143I	GATC	3 cut(s)	31, 292, 694
BspANI	GGCC	4 cut(s)	47, 107, 303, 434
BspCNI	CTCAG	2 cut(s)	475, 553
BspDI	ATCGAT	1 cut(s)	697
BspFNI	CGCG	1 cut(s)	194
BspHI	TCATGA	1 cut(s)	28
BspLI	GGNNCC	2 cut(s)	108, 243
BspMAI	CTGCAG	1 cut(s)	745
BsrDI	GCAATG	1 cut(s)	583
BsrFI	RCCGGY	1 cut(s)	719
BsrI	ACTGG	1 cut(s)	458
BssAI	RCCGGY	1 cut(s)	719
BssECI	CCNNGG	3 cut(s)	411, 447, 663
BssMI	GATC	3 cut(s)	31, 292, 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)	194
BstHHI	GCGC	1 cut(s)	576
BstKTI	GATC	3 cut(s)	34, 295, 697
BstMAI	GTCTC	2 cut(s)	281, 651
BstMBI	GATC	3 cut(s)	31, 292, 694
BstMCI	CGRYCG	2 cut(s)	304, 435
BstMWI	GCNNNNNNNGC	7 cut(s)	416, 431, 476, 536, 545, 737, 746
BstNI	CCWGG	2 cut(s)	519, 761
BstSCI	CCNGG	4 cut(s)	298, 497, 517, 759
BstSFI	CTRYAG	1 cut(s)	741
BstUI	CGCG	1 cut(s)	194
BstZI	CGGCCG	2 cut(s)	301, 432
Bsu15I	ATCGAT	1 cut(s)	697
BsuRI	GGCC	4 cut(s)	47, 107, 303, 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	1 cut(s)	576
Cfr10I	RCCGGY	1 cut(s)	719
Cfr13I	GGNCC	2 cut(s)	106, 242
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
CspAI	ACCGGT	1 cut(s)	719
CspCI	CAANNNNNGTGG	2 cut(s)	705, 740
CviAII	CATG	4 cut(s)	29, 151, 236, 253
CviQI	GTAC	1 cut(s)	515
DdeI	CTNAG	2 cut(s)	483, 540
DpnI	GATC	3 cut(s)	33, 294, 696
DpnII	GATC	3 cut(s)	31, 292, 694
DrdI	GACNNNNNNGTC	1 cut(s)	202
DseDI	GACNNNNNNGTC	1 cut(s)	202
EaeI	YGGCCR	2 cut(s)	301, 432
EagI	CGGCCG	2 cut(s)	301, 432
EciI	GGCGGA	1 cut(s)	107
Ecl136II	GAGCTC	1 cut(s)	350
EclXI	CGGCCG	2 cut(s)	301, 432
Eco130I	CCWWGG	1 cut(s)	411
Eco24I	GRGCYC	1 cut(s)	352
Eco32I	GATATC	1 cut(s)	701
Eco47I	GGWCC	1 cut(s)	242
Eco52I	CGGCCG	2 cut(s)	301, 432
Eco53kI	GAGCTC	1 cut(s)	350
Eco88I	CYCGRG	1 cut(s)	159
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	4 cut(s)	32, 154, 239, 256
FaqI	GGGAC	1 cut(s)	255
FatI	CATG	4 cut(s)	28, 150, 235, 252
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	1 cut(s)	575
GsaI	CCCAGC	1 cut(s)	510
GsuI	CTGGAG	1 cut(s)	475
HaeIII	GGCC	4 cut(s)	47, 107, 303, 434
HapII	CCGG	4 cut(s)	300, 435, 498, 720
HgaI	GACGC	3 cut(s)	125, 470, 668
HhaI	GCGC	1 cut(s)	576
Hin1I	GRCGYC	1 cut(s)	660
Hin1II	CATG	4 cut(s)	32, 154, 239, 256
Hin6I	GCGC	1 cut(s)	574
HinP1I	GCGC	1 cut(s)	574
HinfI	GANTC	2 cut(s)	220, 320
HpaII	CCGG	4 cut(s)	300, 435, 498, 720
HphI	GGTGA	4 cut(s)	344, 388, 416, 611
Hpy166II	GTNNAC	1 cut(s)	451
Hpy188I	TCNGA	2 cut(s)	567, 705
Hpy188III	TCNNGA	2 cut(s)	29, 343
Hpy8I	GTNNAC	1 cut(s)	451
HpyAV	CCTTC	1 cut(s)	37
HpyCH4III	ACNGT	2 cut(s)	15, 373
HpyCH4IV	ACGT	1 cut(s)	181
HpyCH4V	TGCA	7 cut(s)	130, 202, 215, 470, 617, 680, 743
HpyF10VI	GCNNNNNNNGC	7 cut(s)	416, 431, 476, 536, 545, 737, 746
HpyF3I	CTNAG	2 cut(s)	483, 540
HpySE526I	ACGT	1 cut(s)	181
Hsp92I	GRCGYC	1 cut(s)	660
Hsp92II	CATG	4 cut(s)	32, 154, 239, 256
HspAI	GCGC	1 cut(s)	574
Ksp22I	TGATCA	1 cut(s)	31
Kzo9I	GATC	3 cut(s)	31, 292, 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	1 cut(s)	181
MaeIII	GTNAC	2 cut(s)	458, 670
MalI	GATC	3 cut(s)	33, 294, 696
MboI	GATC	3 cut(s)	31, 292, 694
MboII	GAAGA	1 cut(s)	287
MhlI	GDGCHC	1 cut(s)	352
MluCI	AATT	1 cut(s)	53
MlyI	GAGTC	1 cut(s)	329
MmeI	TCCRAC	1 cut(s)	740
MnlI	CCTC	9 cut(s)	15, 79, 185, 376, 409, 529, 566, 574, 658
MspA1I	CMGCKG	3 cut(s)	209, 482, 746
MspI	CCGG	4 cut(s)	300, 435, 498, 720
MspR9I	CCNGG	4 cut(s)	300, 499, 519, 761
MvaI	CCWGG	2 cut(s)	519, 761
MvnI	CGCG	1 cut(s)	194
MwoI	GCNNNNNNNGC	7 cut(s)	416, 431, 476, 536, 545, 737, 746
NciI	CCSGG	2 cut(s)	300, 499
NdeII	GATC	3 cut(s)	31, 292, 694
NlaIII	CATG	4 cut(s)	32, 154, 239, 256
NlaIV	GGNNCC	2 cut(s)	108, 243
NmeAIII	GCCGAG	1 cut(s)	688
NmuCI	GTSAC	2 cut(s)	458, 670
NsbI	TGCGCA	1 cut(s)	575
PagI	TCATGA	1 cut(s)	28
PfeI	GAWTC	1 cut(s)	220
PinAI	ACCGGT	1 cut(s)	719
PleI	GAGTC	1 cut(s)	328
PpsI	GAGTC	1 cut(s)	328
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, 243
PspPI	GGNCC	2 cut(s)	106, 242
PstI	CTGCAG	1 cut(s)	745
PvuII	CAGCTG	2 cut(s)	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, 292, 694
Sau96I	GGNCC	2 cut(s)	106, 242
SchI	GAGTC	1 cut(s)	329
ScrFI	CCNGG	4 cut(s)	300, 499, 519, 761
SduI	GDGCHC	1 cut(s)	352
SetI	ASST	8 cut(s)	90, 102, 177, 184, 352, 484, 520, 748
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)	242
Sse9I	AATT	1 cut(s)	53
SspI	AATATT	1 cut(s)	259
SspMI	CTAG	1 cut(s)	750
SstI	GAGCTC	1 cut(s)	352
StyD4I	CCNGG	4 cut(s)	298, 497, 517, 759
StyI	CCWWGG	1 cut(s)	411
TaaI	ACNGT	2 cut(s)	15, 373
TaiI	ACGT	1 cut(s)	184
TaqI	TCGA	1 cut(s)	697
TasI	AATT	1 cut(s)	53
TauI	GCSGC	4 cut(s)	194, 306, 551, 731
TfiI	GAWTC	1 cut(s)	220
TscAI	CASTG	2 cut(s)	376, 657
TseFI	GTSAC	2 cut(s)	458, 670
Tsp45I	GTSAC	2 cut(s)	458, 670
TspDTI	ATGAA	1 cut(s)	269
TspGWI	ACGGA	2 cut(s)	299, 332
TspRI	CASTG	2 cut(s)	376, 657
VpaK11BI	GGWCC	1 cut(s)	242
XapI	RAATTY	1 cut(s)	53
XspI	CTAG	1 cut(s)	750

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