Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0007178

Physical Location & Seq

Genomic Coordinates Reverse (-)

50100974 .. 50101985

Gene Structure 1012 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00429940.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGCAGACAGCAGAAAGAGAAGCCATCGGGCAAAACCTCAAACGTGGCGCTGCCGCAACTCTGCAGTCCGCTGCTGCACAGACTCAAAGGGCTGGTCATGTGGGACCAAATGACATGAATATTGTCGAAGATGATGTTACCATAACGGAGACTGATCTTCCCGGCCGCCGTATTTTGACGGAGTCAGTTGGTGGACAGGTTGTTGGTGAATATATCCAGAGAGCTCCTTTGGCAGCACCCTCCACTGTTCAAGTTAGTGGCGGTCAAATCACCATCGGTGAAGCCTTGGAGGCTACTGCTATGACGGCCGGAAAGAAGCCCGTGGAGTGGAGTGACGCTGCTGCAATCCAAGCAGCTGAGATTAGAGCCACCGGGCGGCCCAGCATTGTACCTGGTGGTGTGGCTGCGGAGGCTCAGTCTGCCGCAACCCTCAACGCTCGGACTATGCGCAATGAGGACAAGACCAAACTTGATGATATTCTTGCGGGTGCAACAGCAAAACTACCAGATGACAAACCAGCAACACTGCGAGACGCCGAGGGTGTGACAGATGCAGAGATGCGAAATGATCCATATCTGACTAGCTACACATCCAACAGGTGTGGCAGCTTCGGTGGCTGCAGCTGCTAG

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

209

Amino Acids

21.68

Weight (kDa)

4.82

Isoelectric Point (pI)

32.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SMP	PF04927	90 - 147	5.9e-23	Seed maturation protein
SMP	PF04927	155 - 193	5.5e-09	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)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
Acc16I	TGCGCA	1 cut(s)	449
AciI	CCGC	8 cut(s)	54, 69, 166, 261, 376, 407, 423, 485
AclWI	GGATC	1 cut(s)	563
AcoI	YGGCCR	2 cut(s)	163, 306
AcyI	GRCGYC	1 cut(s)	534
AfaI	GTAC	1 cut(s)	390
AfiI	CCNNNNNNNGG	2 cut(s)	327, 375
AgsI	TTSAA	1 cut(s)	251
AjnI	CCWGG	1 cut(s)	391
AluBI	AGCT	5 cut(s)	224, 356, 585, 609, 624
AluI	AGCT	5 cut(s)	224, 356, 585, 609, 624
Alw21I	GWGCWC	1 cut(s)	226
Alw26I	GTCTC	2 cut(s)	143, 525
AlwI	GGATC	1 cut(s)	563
AoxI	GGCC	3 cut(s)	163, 306, 377
ArsI	GACNNNNNNTTYG	2 cut(s)	79, 111
AspLEI	GCGC	2 cut(s)	50, 450
AspS9I	GGNCC	2 cut(s)	104, 378
AsuC2I	CCSGG	2 cut(s)	162, 373
AsuHPI	GGTGA	3 cut(s)	218, 262, 290
AvaII	GGWCC	1 cut(s)	104
BanII	GRGCYC	1 cut(s)	226
Bbv12I	GWGCWC	1 cut(s)	226
BccI	CCATC	2 cut(s)	32, 281
BceAI	ACGGC	2 cut(s)	153, 321
BciT130I	CCWGG	1 cut(s)	393
BcnI	CCSGG	2 cut(s)	162, 373
BcoDI	GTCTC	2 cut(s)	143, 525
BfaI	CTAG	2 cut(s)	582, 628
BfmI	CTRYAG	2 cut(s)	62, 619
BfoI	RGCGCY	1 cut(s)	51
BglI	GCCNNNNNGGC	1 cut(s)	290
Bme1390I	CCNGG	3 cut(s)	162, 373, 393
Bme18I	GGWCC	1 cut(s)	104
BmgT120I	GGNCC	2 cut(s)	104, 378
BmiI	GGNNCC	1 cut(s)	105
BmrFI	CCNGG	3 cut(s)	162, 373, 393
BmsI	GCATC	2 cut(s)	541, 549
BpuMI	CCSGG	2 cut(s)	162, 373
BsaBI	GATNNNNATC	1 cut(s)	573
BsaHI	GRCGYC	1 cut(s)	534
BsaJI	CCNNGG	3 cut(s)	285, 321, 537
BsaXI	ACNNNNNCTCC	2 cut(s)	401, 431
Bsc4I	CCNNNNNNNGG	2 cut(s)	327, 375
Bse3DI	GCAATG	1 cut(s)	457
Bse8I	GATNNNNATC	1 cut(s)	573
BseBI	CCWGG	1 cut(s)	393
BseDI	CCNNGG	3 cut(s)	285, 321, 537
BseGI	GGATG	1 cut(s)	590
BseJI	GATNNNNATC	1 cut(s)	573
BseLI	CCNNNNNNNGG	2 cut(s)	327, 375
BseMI	GCAATG	1 cut(s)	457
BseMII	CTCAG	2 cut(s)	348, 428
BseX3I	CGGCCG	2 cut(s)	163, 306
BseYI	CCCAGC	1 cut(s)	380
BsgI	GTGCAG	1 cut(s)	60
Bsh1285I	CGRYCG	2 cut(s)	166, 309
BshFI	GGCC	3 cut(s)	165, 308, 379
BsiEI	CGRYCG	2 cut(s)	166, 309
BsiHKAI	GWGCWC	1 cut(s)	226
BsiSI	CCGG	3 cut(s)	162, 309, 372
BslFI	GGGAC	1 cut(s)	117
BslI	CCNNNNNNNGG	2 cut(s)	327, 375
BsmAI	GTCTC	2 cut(s)	143, 525
BsmBI	CGTCTC	1 cut(s)	525
BsmFI	GGGAC	1 cut(s)	117
BsnI	GGCC	3 cut(s)	165, 308, 379
Bsp1286I	GDGCHC	1 cut(s)	226
Bsp143I	GATC	2 cut(s)	154, 568
BspACI	CCGC	8 cut(s)	54, 69, 166, 261, 376, 407, 423, 485
BspANI	GGCC	3 cut(s)	165, 308, 379
BspCNI	CTCAG	2 cut(s)	349, 427
BspLI	GGNNCC	1 cut(s)	105
BspMAI	CTGCAG	2 cut(s)	66, 623
BspPI	GGATC	1 cut(s)	563
BsrDI	GCAATG	1 cut(s)	457
BssECI	CCNNGG	3 cut(s)	285, 321, 537
BssMI	GATC	2 cut(s)	154, 568
BssNI	GRCGYC	1 cut(s)	534
BssT1I	CCWWGG	1 cut(s)	285
Bst2UI	CCWGG	1 cut(s)	393
Bst4CI	ACNGT	1 cut(s)	247
BstACI	GRCGYC	1 cut(s)	534
BstDEI	CTNAG	2 cut(s)	357, 414
BstDSI	CCRYGG	1 cut(s)	321
BstF5I	GGATG	1 cut(s)	590
BstH2I	RGCGCY	1 cut(s)	51
BstHHI	GCGC	2 cut(s)	50, 450
BstKTI	GATC	2 cut(s)	157, 571
BstMAI	GTCTC	2 cut(s)	143, 525
BstMBI	GATC	2 cut(s)	154, 568
BstMCI	CGRYCG	2 cut(s)	166, 309
BstMWI	GCNNNNNNNGC	8 cut(s)	230, 290, 305, 350, 410, 419, 615, 624
BstNI	CCWGG	1 cut(s)	393
BstSCI	CCNGG	3 cut(s)	160, 371, 391
BstSFI	CTRYAG	2 cut(s)	62, 619
BstZI	CGGCCG	2 cut(s)	163, 306
BsuRI	GGCC	3 cut(s)	165, 308, 379
BtgI	CCRYGG	1 cut(s)	321
BtsCI	GGATG	1 cut(s)	590
BtsI	GCAGTG	1 cut(s)	524
BtsIMutI	CAGTG	2 cut(s)	243, 524
CfoI	GCGC	2 cut(s)	50, 450
Cfr13I	GGNCC	2 cut(s)	104, 378
CseI	GACGC	2 cut(s)	344, 542
CsiI	ACCWGGT	1 cut(s)	391
Csp6I	GTAC	1 cut(s)	389
CspCI	CAANNNNNGTGG	2 cut(s)	583, 618
CviAII	CATG	2 cut(s)	98, 115
CviQI	GTAC	1 cut(s)	389
DdeI	CTNAG	2 cut(s)	357, 414
DpnI	GATC	2 cut(s)	156, 570
DpnII	GATC	2 cut(s)	154, 568
EaeI	YGGCCR	2 cut(s)	163, 306
EagI	CGGCCG	2 cut(s)	163, 306
Ecl136II	GAGCTC	1 cut(s)	224
EclXI	CGGCCG	2 cut(s)	163, 306
Eco130I	CCWWGG	1 cut(s)	285
Eco24I	GRGCYC	1 cut(s)	226
Eco47I	GGWCC	1 cut(s)	104
Eco52I	CGGCCG	2 cut(s)	163, 306
Eco53kI	GAGCTC	1 cut(s)	224
EcoICRI	GAGCTC	1 cut(s)	224
EcoRII	CCWGG	1 cut(s)	391
EcoT14I	CCWWGG	1 cut(s)	285
EcoT38I	GRGCYC	1 cut(s)	226
ErhI	CCWWGG	1 cut(s)	285
Esp3I	CGTCTC	1 cut(s)	525
FaeI	CATG	2 cut(s)	101, 118
FaiI	YATR	7 cut(s)	99, 116, 143, 213, 302, 446, 574
FaqI	GGGAC	1 cut(s)	117
FatI	CATG	2 cut(s)	97, 114
FauI	CCCGC	1 cut(s)	478
FokI	GGATG	1 cut(s)	577
FriOI	GRGCYC	1 cut(s)	226
FspBI	CTAG	2 cut(s)	582, 628
FspI	TGCGCA	1 cut(s)	449
GlaI	GCGC	2 cut(s)	49, 449
GsaI	CCCAGC	1 cut(s)	384
HaeII	RGCGCY	1 cut(s)	51
HaeIII	GGCC	3 cut(s)	165, 308, 379
HapII	CCGG	3 cut(s)	162, 309, 372
HgaI	GACGC	2 cut(s)	344, 542
HhaI	GCGC	2 cut(s)	50, 450
Hin1I	GRCGYC	1 cut(s)	534
Hin1II	CATG	2 cut(s)	101, 118
Hin6I	GCGC	2 cut(s)	48, 448
HinP1I	GCGC	2 cut(s)	48, 448
HinfI	GANTC	2 cut(s)	82, 182
HpaII	CCGG	3 cut(s)	162, 309, 372
HphI	GGTGA	3 cut(s)	218, 262, 290
Hpy166II	GTNNAC	1 cut(s)	194
Hpy188I	TCNGA	2 cut(s)	441, 579
Hpy188III	TCNNGA	1 cut(s)	217
Hpy8I	GTNNAC	1 cut(s)	194
HpyCH4III	ACNGT	1 cut(s)	247
HpyCH4IV	ACGT	1 cut(s)	43
HpyCH4V	TGCA	7 cut(s)	4, 64, 77, 344, 491, 554, 621
HpyF10VI	GCNNNNNNNGC	8 cut(s)	230, 290, 305, 350, 410, 419, 615, 624
HpyF3I	CTNAG	2 cut(s)	357, 414
HpySE526I	ACGT	1 cut(s)	43
Hsp92I	GRCGYC	1 cut(s)	534
Hsp92II	CATG	2 cut(s)	101, 118
HspAI	GCGC	2 cut(s)	48, 448
Kzo9I	GATC	2 cut(s)	154, 568
LmnI	GCTCC	1 cut(s)	229
LweI	GCATC	2 cut(s)	541, 549
MabI	ACCWGGT	1 cut(s)	391
MaeI	CTAG	2 cut(s)	582, 628
MaeII	ACGT	1 cut(s)	43
MaeIII	GTNAC	3 cut(s)	136, 332, 544
MalI	GATC	2 cut(s)	156, 570
MboI	GATC	2 cut(s)	154, 568
MboII	GAAGA	2 cut(s)	140, 149
MhlI	GDGCHC	1 cut(s)	226
MlyI	GAGTC	2 cut(s)	76, 191
MmeI	TCCRAC	1 cut(s)	618
MnlI	CCTC	7 cut(s)	47, 250, 283, 403, 440, 448, 532
MspA1I	CMGCKG	3 cut(s)	71, 356, 624
MspI	CCGG	3 cut(s)	162, 309, 372
MspR9I	CCNGG	3 cut(s)	162, 373, 393
MvaI	CCWGG	1 cut(s)	393
MwoI	GCNNNNNNNGC	8 cut(s)	230, 290, 305, 350, 410, 419, 615, 624
NciI	CCSGG	2 cut(s)	162, 373
NdeII	GATC	2 cut(s)	154, 568
NlaIII	CATG	2 cut(s)	101, 118
NlaIV	GGNNCC	1 cut(s)	105
NmeAIII	GCCGAG	1 cut(s)	562
NmuCI	GTSAC	2 cut(s)	332, 544
NsbI	TGCGCA	1 cut(s)	449
PflFI	GACNNNGTC	1 cut(s)	181
PleI	GAGTC	2 cut(s)	76, 190
PpsI	GAGTC	2 cut(s)	76, 190
Psp124BI	GAGCTC	1 cut(s)	226
Psp6I	CCWGG	1 cut(s)	391
PspFI	CCCAGC	1 cut(s)	380
PspGI	CCWGG	1 cut(s)	391
PspN4I	GGNNCC	1 cut(s)	105
PspPI	GGNCC	2 cut(s)	104, 378
PstI	CTGCAG	2 cut(s)	66, 623
PsyI	GACNNNGTC	1 cut(s)	181
PvuII	CAGCTG	2 cut(s)	356, 624
RsaI	GTAC	1 cut(s)	390
RsaNI	GTAC	1 cut(s)	389
SacI	GAGCTC	1 cut(s)	226
Sau3AI	GATC	2 cut(s)	154, 568
Sau96I	GGNCC	2 cut(s)	104, 378
SchI	GAGTC	2 cut(s)	76, 191
ScrFI	CCNGG	3 cut(s)	162, 373, 393
SduI	GDGCHC	1 cut(s)	226
SexAI	ACCWGGT	1 cut(s)	391
SfaNI	GCATC	2 cut(s)	541, 549
SfcI	CTRYAG	2 cut(s)	62, 619
SinI	GGWCC	1 cut(s)	104
SsiI	CCGC	8 cut(s)	54, 69, 166, 261, 376, 407, 423, 485
SspI	AATATT	1 cut(s)	121
SspMI	CTAG	2 cut(s)	582, 628
SstI	GAGCTC	1 cut(s)	226
StyD4I	CCNGG	3 cut(s)	160, 371, 391
StyI	CCWWGG	1 cut(s)	285
TaaI	ACNGT	1 cut(s)	247
TaiI	ACGT	1 cut(s)	46
TaqI	TCGA	1 cut(s)	126
TauI	GCSGC	4 cut(s)	56, 168, 379, 425
TscAI	CASTG	2 cut(s)	250, 531
TseFI	GTSAC	2 cut(s)	332, 544
Tsp45I	GTSAC	2 cut(s)	332, 544
TspDTI	ATGAA	1 cut(s)	131
TspGWI	ACGGA	2 cut(s)	161, 194
TspRI	CASTG	2 cut(s)	250, 531
Tth111I	GACNNNGTC	1 cut(s)	181
VpaK11BI	GGWCC	1 cut(s)	104
XspI	CTAG	2 cut(s)	582, 628

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