Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0007178

Physical Location & Seq

Genomic Coordinates Reverse (-)

2857944 .. 2858709

Gene Structure 766 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG043900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGAGCCAAGAACAGTCAAAGAGGGGTCATGATCAGCAGCAGAAGGCCGTGAAATTTGCGGACATTTTCCCTGCTGTTCAGGGAGAGGTGGCGGACAAGGTGGTGGCCCCAAAGGAAGCAGCCACGATGCAGACGGCAGAAAGGGAAGCCGTCGGGCAAAACCTCAAACGTGGCGCTGCCGCGACTATGCAGTCCGCTGCTGCACAGAATCAAAGGGCTGGTCATGTGGGACCAAATGACATGAATATTGTCCAAGATGACGTTACCATAACGGAGACTGATCTTCCCGGCAGCCATATTTTCACGGAGTCAGTCGGTGGACAGGTTGTTGGTGAATATATCCAGAGAACTCCTTTGGCAGCACCCTCCACTGTTCAAGTTAGTGGCGGTCAGATCACCATTGGTGAAGCCTTGGAGGCTACTGCTATGACGGCCGGAAAGAAGCCCGTGGAGTGGAGTGACGCTGCTGCAATCCAAGCAGCTGAGATTAGAGCCACCGGGCGACCCAGCATTGTACCTGGTGGTGTGGCTGCGGAGGCTCAGTCTGCCGCAACCCTCAACGCTCGGACTATGCGCAATGAGGACAAGACCAAACTTGGTGATATTCTTGCGGTATGA

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

205

Amino Acids

21.34

Weight (kDa)

5.26

Isoelectric Point (pI)

36.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMP	PF04927	17 - 73	3.4e-12	Seed maturation protein
SMP	PF04927	132 - 189	5.7e-23	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)	190
Acc16I	TGCGCA	1 cut(s)	575
AccII	CGCG	1 cut(s)	182
AciI	CCGC	8 cut(s)	59, 92, 180, 195, 387, 533, 549, 611
AcoI	YGGCCR	1 cut(s)	432
AcsI	RAATTY	1 cut(s)	53
AfaI	GTAC	1 cut(s)	516
AfiI	CCNNNNNNNGG	1 cut(s)	453
AgsI	TTSAA	1 cut(s)	377
AjnI	CCWGG	1 cut(s)	517
AluBI	AGCT	1 cut(s)	482
AluI	AGCT	1 cut(s)	482
Alw26I	GTCTC	1 cut(s)	269
AoxI	GGCC	3 cut(s)	45, 105, 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
BceAI	ACGGC	4 cut(s)	32, 134, 150, 447
BciT130I	CCWGG	1 cut(s)	519
BclI	TGATCA	1 cut(s)	31
BcnI	CCSGG	2 cut(s)	288, 499
BcoDI	GTCTC	1 cut(s)	269
BfoI	RGCGCY	1 cut(s)	177
BglI	GCCNNNNNGGC	1 cut(s)	416
Bme1390I	CCNGG	3 cut(s)	288, 499, 519
Bme18I	GGWCC	1 cut(s)	230
BmgT120I	GGNCC	2 cut(s)	106, 230
BmiI	GGNNCC	2 cut(s)	108, 231
BmrFI	CCNGG	3 cut(s)	288, 499, 519
BmsI	GCATC	1 cut(s)	117
BpuMI	CCSGG	2 cut(s)	288, 499
BsaJI	CCNNGG	2 cut(s)	411, 447
BsaXI	ACNNNNNCTCC	2 cut(s)	527, 557
Bsc4I	CCNNNNNNNGG	1 cut(s)	453
Bse3DI	GCAATG	1 cut(s)	583
BseBI	CCWGG	1 cut(s)	519
BseDI	CCNNGG	2 cut(s)	411, 447
BseLI	CCNNNNNNNGG	1 cut(s)	453
BseMI	GCAATG	1 cut(s)	583
BseMII	CTCAG	2 cut(s)	474, 554
BseX3I	CGGCCG	1 cut(s)	432
BseYI	CCCAGC	1 cut(s)	506
BsgI	GTGCAG	1 cut(s)	186
Bsh1236I	CGCG	1 cut(s)	182
Bsh1285I	CGRYCG	1 cut(s)	435
BshFI	GGCC	3 cut(s)	47, 107, 434
BsiEI	CGRYCG	1 cut(s)	435
BsiSI	CCGG	3 cut(s)	288, 435, 498
BslFI	GGGAC	1 cut(s)	243
BslI	CCNNNNNNNGG	1 cut(s)	453
BsmAI	GTCTC	1 cut(s)	269
BsmFI	GGGAC	1 cut(s)	243
BsnI	GGCC	3 cut(s)	47, 107, 434
Bsp143I	GATC	3 cut(s)	31, 280, 393
BspACI	CCGC	8 cut(s)	59, 92, 180, 195, 387, 533, 549, 611
BspANI	GGCC	3 cut(s)	47, 107, 434
BspCNI	CTCAG	2 cut(s)	475, 553
BspFNI	CGCG	1 cut(s)	182
BspHI	TCATGA	1 cut(s)	28
BspLI	GGNNCC	2 cut(s)	108, 231
BsrDI	GCAATG	1 cut(s)	583
BssECI	CCNNGG	2 cut(s)	411, 447
BssMI	GATC	3 cut(s)	31, 280, 393
BssT1I	CCWWGG	1 cut(s)	411
Bst2UI	CCWGG	1 cut(s)	519
Bst4CI	ACNGT	2 cut(s)	15, 373
BstDEI	CTNAG	2 cut(s)	483, 540
BstDSI	CCRYGG	1 cut(s)	447
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, 396
BstMAI	GTCTC	1 cut(s)	269
BstMBI	GATC	3 cut(s)	31, 280, 393
BstMCI	CGRYCG	1 cut(s)	435
BstMWI	GCNNNNNNNGC	5 cut(s)	416, 431, 476, 536, 545
BstNI	CCWGG	1 cut(s)	519
BstSCI	CCNGG	3 cut(s)	286, 497, 517
BstUI	CGCG	1 cut(s)	182
BstZI	CGGCCG	1 cut(s)	432
BsuRI	GGCC	3 cut(s)	47, 107, 434
BtgI	CCRYGG	1 cut(s)	447
BtsIMutI	CAGTG	1 cut(s)	369
CciI	TCATGA	1 cut(s)	28
CfoI	GCGC	2 cut(s)	176, 576
Cfr13I	GGNCC	2 cut(s)	106, 230
CseI	GACGC	1 cut(s)	470
CsiI	ACCWGGT	1 cut(s)	517
Csp6I	GTAC	1 cut(s)	515
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, 395
DpnII	GATC	3 cut(s)	31, 280, 393
DrdI	GACNNNNNNGTC	1 cut(s)	190
DseDI	GACNNNNNNGTC	1 cut(s)	190
EaeI	YGGCCR	1 cut(s)	432
EagI	CGGCCG	1 cut(s)	432
EciI	GGCGGA	1 cut(s)	107
EclXI	CGGCCG	1 cut(s)	432
Eco130I	CCWWGG	1 cut(s)	411
Eco47I	GGWCC	1 cut(s)	230
Eco52I	CGGCCG	1 cut(s)	432
EcoRII	CCWGG	1 cut(s)	517
EcoT14I	CCWWGG	1 cut(s)	411
ErhI	CCWWGG	1 cut(s)	411
FaeI	CATG	3 cut(s)	32, 227, 244
FaqI	GGGAC	1 cut(s)	243
FatI	CATG	3 cut(s)	28, 223, 240
FbaI	TGATCA	1 cut(s)	31
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	3 cut(s)	47, 107, 434
HapII	CCGG	3 cut(s)	288, 435, 498
HgaI	GACGC	1 cut(s)	470
HhaI	GCGC	2 cut(s)	176, 576
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	1 cut(s)	320
Hpy188I	TCNGA	2 cut(s)	393, 567
Hpy188III	TCNNGA	2 cut(s)	29, 343
Hpy8I	GTNNAC	1 cut(s)	320
Hpy99I	CGWCG	1 cut(s)	155
HpyAV	CCTTC	1 cut(s)	37
HpyCH4III	ACNGT	2 cut(s)	15, 373
HpyCH4IV	ACGT	2 cut(s)	169, 261
HpyCH4V	TGCA	4 cut(s)	130, 190, 203, 470
HpyF10VI	GCNNNNNNNGC	5 cut(s)	416, 431, 476, 536, 545
HpyF3I	CTNAG	2 cut(s)	483, 540
HpySE526I	ACGT	2 cut(s)	169, 261
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, 393
LweI	GCATC	1 cut(s)	117
MabI	ACCWGGT	1 cut(s)	517
MaeII	ACGT	2 cut(s)	169, 261
MaeIII	GTNAC	2 cut(s)	262, 458
MalI	GATC	3 cut(s)	33, 282, 395
MboI	GATC	3 cut(s)	31, 280, 393
MboII	GAAGA	1 cut(s)	275
MluCI	AATT	1 cut(s)	53
MlyI	GAGTC	1 cut(s)	317
MnlI	CCTC	8 cut(s)	15, 79, 173, 376, 409, 529, 566, 574
MspA1I	CMGCKG	2 cut(s)	197, 482
MspI	CCGG	3 cut(s)	288, 435, 498
MspR9I	CCNGG	3 cut(s)	288, 499, 519
MvaI	CCWGG	1 cut(s)	519
MvnI	CGCG	1 cut(s)	182
MwoI	GCNNNNNNNGC	5 cut(s)	416, 431, 476, 536, 545
NciI	CCSGG	2 cut(s)	288, 499
NdeII	GATC	3 cut(s)	31, 280, 393
NlaIII	CATG	3 cut(s)	32, 227, 244
NlaIV	GGNNCC	2 cut(s)	108, 231
NmuCI	GTSAC	1 cut(s)	458
NsbI	TGCGCA	1 cut(s)	575
PagI	TCATGA	1 cut(s)	28
PfeI	GAWTC	1 cut(s)	208
PleI	GAGTC	1 cut(s)	316
PpsI	GAGTC	1 cut(s)	316
Psp6I	CCWGG	1 cut(s)	517
PspFI	CCCAGC	1 cut(s)	506
PspGI	CCWGG	1 cut(s)	517
PspN4I	GGNNCC	2 cut(s)	108, 231
PspPI	GGNCC	2 cut(s)	106, 230
PvuII	CAGCTG	1 cut(s)	482
RsaI	GTAC	1 cut(s)	516
RsaNI	GTAC	1 cut(s)	515
Sau3AI	GATC	3 cut(s)	31, 280, 393
Sau96I	GGNCC	2 cut(s)	106, 230
SchI	GAGTC	1 cut(s)	317
ScrFI	CCNGG	3 cut(s)	288, 499, 519
SetI	ASST	8 cut(s)	90, 102, 165, 172, 264, 327, 484, 520
SexAI	ACCWGGT	1 cut(s)	517
SfaNI	GCATC	1 cut(s)	117
SinI	GGWCC	1 cut(s)	230
Sse9I	AATT	1 cut(s)	53
SsiI	CCGC	8 cut(s)	59, 92, 180, 195, 387, 533, 549, 611
SspI	AATATT	1 cut(s)	247
StyD4I	CCNGG	3 cut(s)	286, 497, 517
StyI	CCWWGG	1 cut(s)	411
TaaI	ACNGT	2 cut(s)	15, 373
TaiI	ACGT	2 cut(s)	172, 264
TasI	AATT	1 cut(s)	53
TauI	GCSGC	2 cut(s)	182, 551
TfiI	GAWTC	1 cut(s)	208
TscAI	CASTG	1 cut(s)	376
TseFI	GTSAC	1 cut(s)	458
Tsp45I	GTSAC	1 cut(s)	458
TspDTI	ATGAA	1 cut(s)	257
TspGWI	ACGGA	2 cut(s)	287, 320
TspRI	CASTG	1 cut(s)	376
VpaK11BI	GGWCC	1 cut(s)	230
XapI	RAATTY	1 cut(s)	53

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