Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001257

Physical Location & Seq

Genomic Coordinates Reverse (-)

28451783 .. 28459786

Gene Structure 8004 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG285900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGGGAAATTCTACTGTAGGAAAGGGTGGTGCAAAAACACAGAAGAAAGCTGGGTTTGGTGGAAGGAAACCTCTAGGAGATGTATCGAACACTGGGAAGCCTGATTTTTCCAAGGTGTCGAAAAAGCCTGCTCTTACCAATGTTTCTGAAATCATTGCTGATGCAAGCAACAAGAAAGGCCTTTCTAAAGCCTCGGATAAAGTGCAGACTCGTGGCAGTCGGAAGGCACTATCTGATGTGTCTAACACAGTCAAGCCACCTGTGCATAAGAAGTCAAGTGTTGCGGCACAAACACCTTGTGGTTTTGAGGAGGAAGGTTTCCTGCATGACCATCAACAGTGCATCAAATCTATGAGAAAGGCTAATCACATGGATCAAATGGATTTTTTTATGATGATACAAGGATCAGATTCATCCAAGAAGCTTCTGTCTCCATGTGCAGTTTCTCAGTTTCGTAAAGTTGAGGCAATCTCTGAGAAGGTATGGAAGATTTTAAGGATGGTCATGACACACAGGGCAGAGGCAATCAGAGATCAACCTTCTTTTTCTCTTCTCAACATAAGTGATAATCTTACCATGACCAGCCAGAAGAAAGACTTCAGTTTAGGTGGTAAAGGAAGTTTCCAAAGAATGAACCAAGGGAAATCATCAAAGTTCTCTTGCTTAATTAAGGAAGGAATGAATGAGCTAGCTTTCACACTTTTCCAAATGGAAAAGGAAAGGAAAAACAAACCTGTGGTTGGTGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

249

Amino Acids

27.34

Weight (kDa)

9.89

Isoelectric Point (pI)

22.79

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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: OG0001257)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14190 AT3G14190 AT5G12360 AT5G12360
fragaria_vesca	FvH4_2g09870 FvH4_5g32440 FvH4_6g24000 FvH4_6g24000 FvH4_6g24000 FvH4_6g37300 FvH4_6g37300
malus_domestica	MD07G1041300.v1.1 MD12G1079700.v1.1 MD14G1075900.v1.1
prunus_persica	Prupe.7G043900_v2.0.a1 Prupe.7G043900_v2.0.a1 Prupe.7G058200_v2.0.a1
pyrus_communis	pycom07g02870
rosa_chinensis	RchiOBHm_Chr3g0482351 RchiOBHm_Chr3g0482721 RchiOBHm_Chr3g0482771 RchiOBHm_Chr3g0486201
rosa_laevigata	RLG00000023330
rosa_multiflora	Rmu_co8450015.1_g000001 Rmu_sc0006601.1_g000001 Rmu_sc0008293.1_g000003 Rmu_sc0011602.1_g000006 Rmu_sc0019256.1_g000003 Rmu_ssc0000175.1_g000036
rosa_roxburghii	Rroxscaffold_6G00394010 Rroxscaffold_6G00398970 Rroxscaffold_6G00399400
rosa_rugosa	Rorug03G0195900 Rorug03G0195900 Rorug03G0198600 Rorug03G0198700 Rorug03G0199200 Rorug03G0199200
rosa_samantha	Rh3AG247700 Rh3AG249500 Rh3AG249800 Rh3AG274000 Rh3BG282200 Rh3BG285600 Rh3BG285900 Rh3CG279200 Rh3CG279300 Rh3CG283200 Rh3CG283800 Rh3DG275000 Rh3DG279000 Rh3DG279500
rosa_wichuraiana	Rw3G022210 Rw3G022550 Rw3G022580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	284
AclWI	GGATC	2 cut(s)	381, 412
AcsI	RAATTY	1 cut(s)	7
AcuI	CTGAAG	1 cut(s)	583
AdeI	CACNNNGTG	1 cut(s)	299
AfiI	CCNNNNNNNGG	1 cut(s)	740
AluBI	AGCT	4 cut(s)	50, 424, 688, 692
AluI	AGCT	4 cut(s)	50, 424, 688, 692
Alw26I	GTCTC	1 cut(s)	435
AlwI	GGATC	2 cut(s)	381, 412
AoxI	GGCC	1 cut(s)	178
ApoI	RAATTY	1 cut(s)	7
Asp700I	GAANNNNTTC	1 cut(s)	596
AsuNHI	GCTAGC	1 cut(s)	688
BauI	CACGAG	1 cut(s)	210
BccI	CCATC	2 cut(s)	339, 493
BcoDI	GTCTC	1 cut(s)	435
BfaI	CTAG	2 cut(s)	74, 689
BfmI	CTRYAG	1 cut(s)	15
BisI	GCNGC	1 cut(s)	285
BlsI	GCNGC	1 cut(s)	286
BmrI	ACTGGG	1 cut(s)	102
BmsI	GCATC	2 cut(s)	151, 351
BmtI	GCTAGC	1 cut(s)	692
BmuI	ACTGGG	1 cut(s)	102
BplI	GAGNNNNNCTC	2 cut(s)	455, 487
BsaJI	CCNNGG	3 cut(s)	111, 192, 637
Bsc4I	CCNNNNNNNGG	1 cut(s)	740
Bse1I	ACTGG	1 cut(s)	97
Bse3DI	GCAATG	1 cut(s)	153
BseDI	CCNNGG	3 cut(s)	111, 192, 637
BseGI	GGATG	2 cut(s)	413, 504
BseLI	CCNNNNNNNGG	1 cut(s)	740
BseMI	GCAATG	1 cut(s)	153
BseMII	CTCAG	2 cut(s)	461, 465
BseNI	ACTGG	1 cut(s)	97
BseRI	GAGGAG	1 cut(s)	323
BseYI	CCCAGC	1 cut(s)	50
BsgI	GTGCAG	2 cut(s)	224, 459
BshFI	GGCC	1 cut(s)	180
BslI	CCNNNNNNNGG	1 cut(s)	740
BsmAI	GTCTC	1 cut(s)	435
BsnI	GGCC	1 cut(s)	180
Bsp143I	GATC	3 cut(s)	373, 404, 532
BspACI	CCGC	1 cut(s)	284
BspANI	GGCC	1 cut(s)	180
BspCNI	CTCAG	2 cut(s)	460, 466
BspHI	TCATGA	1 cut(s)	504
BspOI	GCTAGC	1 cut(s)	692
BspPI	GGATC	2 cut(s)	381, 412
BsrDI	GCAATG	1 cut(s)	153
BsrI	ACTGG	1 cut(s)	97
BssECI	CCNNGG	3 cut(s)	111, 192, 637
BssMI	GATC	3 cut(s)	373, 404, 532
BssSI	CACGAG	1 cut(s)	210
BssT1I	CCWWGG	2 cut(s)	111, 637
Bst2BI	CACGAG	1 cut(s)	210
Bst4CI	ACNGT	3 cut(s)	16, 250, 339
Bst6I	CTCTTC	1 cut(s)	555
BstC8I	GCNNGC	3 cut(s)	129, 166, 690
BstDEI	CTNAG	2 cut(s)	447, 474
BstF5I	GGATG	2 cut(s)	413, 504
BstKTI	GATC	3 cut(s)	376, 407, 535
BstMAI	GTCTC	1 cut(s)	435
BstMBI	GATC	3 cut(s)	373, 404, 532
BstMWI	GCNNNNNNNGC	1 cut(s)	262
BstSFI	CTRYAG	1 cut(s)	15
BsuRI	GGCC	1 cut(s)	180
BtsCI	GGATG	2 cut(s)	413, 504
BtsIMutI	CAGTG	2 cut(s)	90, 344
Cac8I	GCNNGC	3 cut(s)	129, 166, 690
CciI	TCATGA	1 cut(s)	504
CviAII	CATG	5 cut(s)	326, 370, 435, 505, 577
DdeI	CTNAG	2 cut(s)	447, 474
DpnI	GATC	3 cut(s)	375, 406, 534
DpnII	GATC	3 cut(s)	373, 404, 532
DraIII	CACNNNGTG	1 cut(s)	299
Eam1104I	CTCTTC	1 cut(s)	555
EarI	CTCTTC	1 cut(s)	555
Eco130I	CCWWGG	2 cut(s)	111, 637
Eco147I	AGGCCT	1 cut(s)	180
Eco57I	CTGAAG	1 cut(s)	583
EcoT14I	CCWWGG	2 cut(s)	111, 637
ErhI	CCWWGG	2 cut(s)	111, 637
FaeI	CATG	5 cut(s)	329, 373, 438, 508, 580
FalI	AAGNNNNNCTT	2 cut(s)	581, 613
FatI	CATG	5 cut(s)	325, 369, 434, 504, 576
Fnu4HI	GCNGC	1 cut(s)	285
FokI	GGATG	2 cut(s)	400, 511
Fsp4HI	GCNGC	1 cut(s)	285
FspBI	CTAG	2 cut(s)	74, 689
GluI	GCNGC	1 cut(s)	285
GsaI	CCCAGC	1 cut(s)	54
HaeIII	GGCC	1 cut(s)	180
Hin1II	CATG	5 cut(s)	329, 373, 438, 508, 580
HindIII	AAGCTT	1 cut(s)	422
HinfI	GANTC	2 cut(s)	208, 410
Hpy188I	TCNGA	7 cut(s)	148, 196, 222, 235, 409, 475, 530
Hpy188III	TCNNGA	1 cut(s)	505
HpyAV	CCTTC	6 cut(s)	57, 217, 308, 472, 549, 668
HpyCH4III	ACNGT	3 cut(s)	16, 250, 339
HpyCH4V	TGCA	7 cut(s)	32, 164, 205, 265, 325, 342, 440
HpyF10VI	GCNNNNNNNGC	1 cut(s)	262
HpyF3I	CTNAG	2 cut(s)	447, 474
Hsp92II	CATG	5 cut(s)	329, 373, 438, 508, 580
Kzo9I	GATC	3 cut(s)	373, 404, 532
LpnPI	CCDG	9 cut(s)	36, 78, 114, 141, 273, 335, 499, 595, 599
LweI	GCATC	2 cut(s)	151, 351
MaeI	CTAG	2 cut(s)	74, 689
MaeIII	GTNAC	1 cut(s)	743
MalI	GATC	3 cut(s)	375, 406, 534
MboI	GATC	3 cut(s)	373, 404, 532
MboII	GAAGA	4 cut(s)	55, 499, 542, 601
MluCI	AATT	2 cut(s)	7, 666
MlyI	GAGTC	1 cut(s)	202
MmeI	TCCRAC	1 cut(s)	200
MnlI	CCTC	6 cut(s)	81, 202, 301, 304, 457, 514
MroXI	GAANNNNTTC	1 cut(s)	596
MseI	TTAA	3 cut(s)	494, 665, 669
MwoI	GCNNNNNNNGC	1 cut(s)	262
NdeII	GATC	3 cut(s)	373, 404, 532
NheI	GCTAGC	1 cut(s)	688
NlaIII	CATG	5 cut(s)	329, 373, 438, 508, 580
NmuCI	GTSAC	1 cut(s)	743
PacI	TTAATTAA	1 cut(s)	669
PagI	TCATGA	1 cut(s)	504
PceI	AGGCCT	1 cut(s)	180
PdmI	GAANNNNTTC	1 cut(s)	596
PfeI	GAWTC	1 cut(s)	410
PkrI	GCNGC	1 cut(s)	286
PleI	GAGTC	1 cut(s)	202
PpsI	GAGTC	1 cut(s)	202
PspFI	CCCAGC	1 cut(s)	50
SaqAI	TTAA	3 cut(s)	494, 665, 669
SatI	GCNGC	1 cut(s)	285
Sau3AI	GATC	3 cut(s)	373, 404, 532
SchI	GAGTC	1 cut(s)	202
SfaNI	GCATC	2 cut(s)	151, 351
SfcI	CTRYAG	1 cut(s)	15
Sse9I	AATT	2 cut(s)	7, 666
SseBI	AGGCCT	1 cut(s)	180
SsiI	CCGC	1 cut(s)	284
SspMI	CTAG	2 cut(s)	74, 689
StuI	AGGCCT	1 cut(s)	180
StyI	CCWWGG	2 cut(s)	111, 637
TaaI	ACNGT	3 cut(s)	16, 250, 339
TaqI	TCGA	2 cut(s)	86, 119
TasI	AATT	2 cut(s)	7, 666
TauI	GCSGC	1 cut(s)	287
TfiI	GAWTC	1 cut(s)	410
Tru1I	TTAA	3 cut(s)	494, 665, 669
Tru9I	TTAA	3 cut(s)	494, 665, 669
TscAI	CASTG	2 cut(s)	97, 344
TseFI	GTSAC	1 cut(s)	743
Tsp45I	GTSAC	1 cut(s)	743
TspDTI	ATGAA	3 cut(s)	402, 647, 695
TspRI	CASTG	2 cut(s)	97, 344
XapI	RAATTY	1 cut(s)	7
XmnI	GAANNNNTTC	1 cut(s)	596
XspI	CTAG	2 cut(s)	74, 689

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