Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0002798

Physical Location & Seq

Genomic Coordinates Forward (+)

52687723 .. 52689063

Gene Structure 1341 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG338000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 588 bp

ATGCAGTCGGCGGCTACATACAACGAGCGAGCCGGTCTAGTAGGCCATCGTGACGGCACCTATGCCACTAGTGAGGATGGTGTTACCGTGTCGGAATCAATCAATCTCGATGGTAACAAAGTTATCACCGAAAGAGTTGCTGGGCAGGTTGTGGGACAATATGTGGAGCCACCGCTTGGGGCATCTCCGGCAGCAGTAGTTCTTGAGCACGATGCAATCACAATTGGCGAGGCATTCGAGGCAACTGCTCTCTCTGCCGGTGACAAGCCGGTCGACCAAAGCGACGCAGCTGCCATTCAAGCCGCAGAGATGAGAGCCACCGGGAGTAGTGAGATATCTCCGGGAGGTTTGGCGGCTATAGCTCAGTATGCAGTGTCTGCTAACACAAGGGAGGCTGAGAAGACTAAGCTGGCTGATGTTTTAGAGGATGCCACTCAGAAGATGGGTTGTGACAAACCGGTGACTCGTGAGGATGCGAAGGCCATTATAGGAGCAGAGATAAGGAACAACCCTAATATGAGCACTACTCCTGGTGGAATTGCTGAATCAATGGCTGCTGCAGCTAGGCTTAACCAGAACATATATTGA

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

195

Amino Acids

20.09

Weight (kDa)

4.53

Isoelectric Point (pI)

36.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMP	PF04927	73 - 130	2.8e-22	Seed maturation protein
SMP	PF04927	135 - 193	7.5e-22	Seed maturation protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0002798)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22490
fragaria_vesca	FvH4_2g23290 FvH4_2g23300 FvH4_4g15690
malus_domestica	MD03G1262300.v1.1 MD03G1262400.v1.1 MD11G1283000.v1.1 MD13G1194000.v1.1
prunus_persica	Prupe.1G014800_v2.0.a1 Prupe.8G238700_v2.0.a1
pyrus_communis	pycom03g21000 pycom13g16630
rosa_chinensis	RchiOBHm_Chr4g0416111 RchiOBHm_Chr6g0290671 RchiOBHm_Chr6g0290701
rosa_laevigata	RLG00000008018 RLG00000012186
rosa_multiflora	Rmu_sc0000043.1_g000012 Rmu_sc0000750.1_g000001 Rmu_sc0006791.1_g000002
rosa_roxburghii	Rroxscaffold_5G00359910 Rroxscaffold_7G00176790 Rroxscaffold_7G00176810
rosa_rugosa	Rorug04G0138300 Rorug06G0214100 Rorug06G0214200
rosa_samantha	Rh4AG200800 Rh4BG198000 Rh4CG211900 Rh4DG198100 Rh6AG324600 Rh6AG324700 Rh6BG332300 Rh6CG338000 Rh6DG325300 Rh6DG325500
rosa_wichuraiana	Rw0G019010 Rw6G028180 Rw6G028190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	269
Acc36I	ACCTGC	1 cut(s)	136
AccB1I	GGYRCC	1 cut(s)	56
AccB7I	CCANNNNNTGG	1 cut(s)	176
AccI	GTMKAC	1 cut(s)	273
AciI	CCGC	4 cut(s)	11, 173, 303, 353
AfiI	CCNNNNNNNGG	1 cut(s)	176
AgeI	ACCGGT	1 cut(s)	457
AgsI	TTSAA	1 cut(s)	299
AhlI	ACTAGT	1 cut(s)	68
AjnI	CCWGG	1 cut(s)	529
AluBI	AGCT	4 cut(s)	290, 362, 409, 563
AluI	AGCT	4 cut(s)	290, 362, 409, 563
Alw21I	GWGCWC	2 cut(s)	210, 524
AlwNI	CAGNNNCTG	1 cut(s)	377
AoxI	GGCC	2 cut(s)	43, 480
ApeKI	GCWGC	6 cut(s)	191, 287, 290, 554, 557, 560
AsiGI	ACCGGT	1 cut(s)	457
AsuC2I	CCSGG	2 cut(s)	322, 342
AsuHPI	GGTGA	3 cut(s)	118, 272, 472
BanI	GGYRCC	1 cut(s)	56
BauI	CACGAG	1 cut(s)	465
BbsI	GAAGAC	1 cut(s)	407
Bbv12I	GWGCWC	2 cut(s)	210, 524
BbvI	GCAGC	6 cut(s)	203, 277, 299, 541, 544, 572
BccI	CCATC	4 cut(s)	54, 71, 104, 436
BceAI	ACGGC	1 cut(s)	70
BcgI	CGANNNNNNTGC	6 cut(s)	119, 153, 227, 261, 272, 306
BciT130I	CCWGG	1 cut(s)	531
BcnI	CCSGG	2 cut(s)	322, 342
BcuI	ACTAGT	1 cut(s)	68
BfaI	CTAG	3 cut(s)	38, 69, 564
BfmI	CTRYAG	2 cut(s)	357, 558
BfuAI	ACCTGC	1 cut(s)	136
BisI	GCNGC	9 cut(s)	12, 192, 288, 291, 303, 354, 555, 558, 561
BlsI	GCNGC	9 cut(s)	13, 193, 289, 292, 304, 355, 556, 559, 562
Bme1390I	CCNGG	3 cut(s)	322, 342, 531
BmiI	GGNNCC	2 cut(s)	58, 168
BmrFI	CCNGG	3 cut(s)	322, 342, 531
BmsI	GCATC	4 cut(s)	191, 202, 418, 463
BpiI	GAAGAC	1 cut(s)	407
BplI	GAGNNNNNCTC	2 cut(s)	511, 543
BpuEI	CTTGAG	1 cut(s)	224
BpuMI	CCSGG	2 cut(s)	322, 342
BsaWI	WCCGGW	1 cut(s)	457
Bsc4I	CCNNNNNNNGG	1 cut(s)	176
Bse118I	RCCGGY	4 cut(s)	32, 257, 268, 457
BseBI	CCWGG	1 cut(s)	531
BseGI	GGATG	3 cut(s)	82, 433, 478
BseLI	CCNNNNNNNGG	1 cut(s)	176
BseMII	CTCAG	3 cut(s)	377, 387, 449
BseXI	GCAGC	6 cut(s)	203, 277, 299, 541, 544, 572
BseYI	CCCAGC	1 cut(s)	140
Bsh1285I	CGRYCG	1 cut(s)	273
BshFI	GGCC	2 cut(s)	45, 482
BshNI	GGYRCC	1 cut(s)	56
BshTI	ACCGGT	1 cut(s)	457
BsiEI	CGRYCG	1 cut(s)	273
BsiHKAI	GWGCWC	2 cut(s)	210, 524
BsiSI	CCGG	7 cut(s)	33, 188, 258, 269, 321, 341, 458
BslFI	GGGAC	1 cut(s)	168
BslI	CCNNNNNNNGG	1 cut(s)	176
BsmFI	GGGAC	1 cut(s)	168
BsmI	GAATGC	1 cut(s)	233
BsnI	GGCC	2 cut(s)	45, 482
Bsp1286I	GDGCHC	2 cut(s)	210, 524
BspACI	CCGC	4 cut(s)	11, 173, 303, 353
BspANI	GGCC	2 cut(s)	45, 482
BspCNI	CTCAG	3 cut(s)	376, 388, 448
BspLI	GGNNCC	2 cut(s)	58, 168
BspMAI	CTGCAG	1 cut(s)	562
BspMI	ACCTGC	1 cut(s)	136
BspT107I	GGYRCC	1 cut(s)	56
BsrFI	RCCGGY	4 cut(s)	32, 257, 268, 457
BssAI	RCCGGY	4 cut(s)	32, 257, 268, 457
BssSI	CACGAG	1 cut(s)	465
Bst2BI	CACGAG	1 cut(s)	465
Bst2UI	CCWGG	1 cut(s)	531
Bst4CI	ACNGT	1 cut(s)	88
BstAPI	GCANNNNNTGC	1 cut(s)	377
BstC8I	GCNNGC	2 cut(s)	30, 411
BstDEI	CTNAG	4 cut(s)	363, 396, 405, 435
BstF5I	GGATG	3 cut(s)	82, 433, 478
BstMCI	CGRYCG	1 cut(s)	273
BstMWI	GCNNNNNNNGC	8 cut(s)	188, 239, 254, 299, 359, 368, 377, 560
BstNI	CCWGG	1 cut(s)	531
BstSCI	CCNGG	3 cut(s)	320, 340, 529
BstSFI	CTRYAG	2 cut(s)	357, 558
BstV1I	GCAGC	6 cut(s)	203, 277, 299, 541, 544, 572
BstV2I	GAAGAC	1 cut(s)	407
BsuRI	GGCC	2 cut(s)	45, 482
BtsCI	GGATG	3 cut(s)	82, 433, 478
BtsI	GCAGTG	1 cut(s)	378
BtsIMutI	CAGTG	1 cut(s)	378
BveI	ACCTGC	1 cut(s)	136
Cac8I	GCNNGC	2 cut(s)	30, 411
CaiI	CAGNNNCTG	1 cut(s)	377
Cfr10I	RCCGGY	4 cut(s)	32, 257, 268, 457
CseI	GACGC	1 cut(s)	293
CspAI	ACCGGT	1 cut(s)	457
DdeI	CTNAG	4 cut(s)	363, 396, 405, 435
DrdI	GACNNNNNNGTC	1 cut(s)	269
DseDI	GACNNNNNNGTC	1 cut(s)	269
Eco32I	GATATC	1 cut(s)	336
EcoRII	CCWGG	1 cut(s)	529
EcoRV	GATATC	1 cut(s)	336
FaiI	YATR	9 cut(s)	19, 63, 162, 359, 369, 488, 518, 581, 583
FaqI	GGGAC	1 cut(s)	168
FblI	GTMKAC	1 cut(s)	273
Fnu4HI	GCNGC	9 cut(s)	12, 192, 288, 291, 303, 354, 555, 558, 561
FokI	GGATG	3 cut(s)	89, 440, 485
Fsp4HI	GCNGC	9 cut(s)	12, 192, 288, 291, 303, 354, 555, 558, 561
FspBI	CTAG	3 cut(s)	38, 69, 564
GluI	GCNGC	9 cut(s)	12, 192, 288, 291, 303, 354, 555, 558, 561
GsaI	CCCAGC	1 cut(s)	144
HaeIII	GGCC	2 cut(s)	45, 482
HapII	CCGG	7 cut(s)	33, 188, 258, 269, 321, 341, 458
HgaI	GACGC	1 cut(s)	293
HincII	GTYRAC	1 cut(s)	274
HindII	GTYRAC	1 cut(s)	274
HinfI	GANTC	3 cut(s)	95, 463, 545
HpaII	CCGG	7 cut(s)	33, 188, 258, 269, 321, 341, 458
HphI	GGTGA	3 cut(s)	118, 272, 472
Hpy166II	GTNNAC	1 cut(s)	274
Hpy188I	TCNGA	2 cut(s)	94, 438
Hpy188III	TCNNGA	4 cut(s)	50, 107, 203, 467
Hpy8I	GTNNAC	1 cut(s)	274
Hpy99I	CGWCG	1 cut(s)	287
HpyAV	CCTTC	1 cut(s)	472
HpyCH4III	ACNGT	1 cut(s)	88
HpyCH4V	TGCA	4 cut(s)	4, 215, 371, 560
HpyF10VI	GCNNNNNNNGC	8 cut(s)	188, 239, 254, 299, 359, 368, 377, 560
HpyF3I	CTNAG	4 cut(s)	363, 396, 405, 435
LmnI	GCTCC	2 cut(s)	166, 491
Lsp1109I	GCAGC	6 cut(s)	203, 277, 299, 541, 544, 572
LweI	GCATC	4 cut(s)	191, 202, 418, 463
MaeI	CTAG	3 cut(s)	38, 69, 564
MaeIII	GTNAC	6 cut(s)	50, 82, 113, 260, 449, 460
MboII	GAAGA	2 cut(s)	412, 451
MfeI	CAATTG	1 cut(s)	222
MhlI	GDGCHC	2 cut(s)	210, 524
MluCI	AATT	2 cut(s)	222, 537
MlyI	GAGTC	1 cut(s)	457
MmeI	TCCRAC	1 cut(s)	72
MnlI	CCTC	7 cut(s)	67, 223, 232, 338, 385, 418, 463
MseI	TTAA	1 cut(s)	570
MspA1I	CMGCKG	1 cut(s)	290
MspI	CCGG	7 cut(s)	33, 188, 258, 269, 321, 341, 458
MspR9I	CCNGG	3 cut(s)	322, 342, 531
MunI	CAATTG	1 cut(s)	222
Mva1269I	GAATGC	1 cut(s)	233
MvaI	CCWGG	1 cut(s)	531
MwoI	GCNNNNNNNGC	8 cut(s)	188, 239, 254, 299, 359, 368, 377, 560
NciI	CCSGG	2 cut(s)	322, 342
NlaIV	GGNNCC	2 cut(s)	58, 168
NmuCI	GTSAC	4 cut(s)	50, 260, 449, 460
PcsI	WCGNNNNNNNCGW	1 cut(s)	279
PctI	GAATGC	1 cut(s)	233
PfeI	GAWTC	2 cut(s)	95, 545
PflMI	CCANNNNNTGG	1 cut(s)	176
PfoI	TCCNGGA	1 cut(s)	340
PinAI	ACCGGT	1 cut(s)	457
PkrI	GCNGC	9 cut(s)	13, 193, 289, 292, 304, 355, 556, 559, 562
PleI	GAGTC	1 cut(s)	457
PpsI	GAGTC	1 cut(s)	457
Psp6I	CCWGG	1 cut(s)	529
PspFI	CCCAGC	1 cut(s)	140
PspGI	CCWGG	1 cut(s)	529
PspN4I	GGNNCC	2 cut(s)	58, 168
PstI	CTGCAG	1 cut(s)	562
PstNI	CAGNNNCTG	1 cut(s)	377
PvuII	CAGCTG	1 cut(s)	290
SalI	GTCGAC	1 cut(s)	272
SaqAI	TTAA	1 cut(s)	570
SatI	GCNGC	9 cut(s)	12, 192, 288, 291, 303, 354, 555, 558, 561
SchI	GAGTC	1 cut(s)	457
ScrFI	CCNGG	3 cut(s)	322, 342, 531
SduI	GDGCHC	2 cut(s)	210, 524
SetI	ASST	7 cut(s)	62, 150, 292, 349, 364, 411, 565
SfaNI	GCATC	4 cut(s)	191, 202, 418, 463
SfcI	CTRYAG	2 cut(s)	357, 558
SmlI	CTYRAG	1 cut(s)	203
SmoI	CTYRAG	1 cut(s)	203
SpeI	ACTAGT	1 cut(s)	68
Sse9I	AATT	2 cut(s)	222, 537
SsiI	CCGC	4 cut(s)	11, 173, 303, 353
SspMI	CTAG	3 cut(s)	38, 69, 564
StyD4I	CCNGG	3 cut(s)	320, 340, 529
TaaI	ACNGT	1 cut(s)	88
TaqI	TCGA	3 cut(s)	108, 237, 273
TasI	AATT	2 cut(s)	222, 537
TauI	GCSGC	3 cut(s)	14, 305, 356
TfiI	GAWTC	2 cut(s)	95, 545
Tru1I	TTAA	1 cut(s)	570
Tru9I	TTAA	1 cut(s)	570
TscAI	CASTG	1 cut(s)	378
TseFI	GTSAC	4 cut(s)	50, 260, 449, 460
TseI	GCWGC	6 cut(s)	191, 287, 290, 554, 557, 560
Tsp45I	GTSAC	4 cut(s)	50, 260, 449, 460
TspRI	CASTG	1 cut(s)	378
Van91I	CCANNNNNTGG	1 cut(s)	176
XcmI	CCANNNNNNNNNTGG	1 cut(s)	439
XmiI	GTMKAC	1 cut(s)	273
XspI	CTAG	3 cut(s)	38, 69, 564

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