Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0000874

Physical Location & Seq

Genomic Coordinates Forward (+)

14309583 .. 14310368

Gene Structure 786 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG166200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGCGAAGCGAACCAACCACCTCTGTACCAATCCCAATTCCGATCCGAACCAACCACCCCAAGATGACGATTCCCTCATAACCCAAGTCCTCCGACCCAATGAGAAAGACTGGAACTTTGACCAACTCCACACCCTCCTCTTCCCCAACTCAACCTCTCCTTCTTTTCGCTCCCTTTTCCTCATCACTCGCCGCCTCGACGCTCCCTCCAAAGCCCTCAAATTCTTCGATTACGTCACCGAAAACGTGGCCGAAACCCCTCCAGGATCCAAGGCTCTGCTCTCCTCCGCATTCCAGGCCCTTCTGGAGCTCACATTGCGGGAGCCCACCTCGGAAAAGAAGCTCTTTGAGCTTTACAAGATAGCCAAGGACCGGAATGTCCCGCTGAATCTCAAGGCCGCAGGTCTGCTTGTTCGGTCCATGGGCGCGGCTGGGATGGAGGACGAGGCTCTCACAGTGTTTAACGAGCTTCATTTGGGGTTGAAAACTTCTCATATTCGCAATGTGGTGATTGAGTTGTTGCTGAAGATTGGGCGAGTAGATGGTGCACTGAAGGTGCTCGACGAAATGCTTCACCCAGAAGCGAAGTTTCCGGTTGATGACTTTACCGGTGATGTTGTGATCGGCTCATTATTGAGGAGAGAGCAGATAGGGAGGAGTGTCAGTGAGGAAGAAATTGTGGAGTTGGTGTCGAAATTTGGTAAGCATGGTGTGTTTCCTAATAACACAATACTTACAAAATTGGTCACTGTTTTGTGTAGGAATAGGAAGGTTGGTATTGCTTAG

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

ko03018 map03018

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

261

Amino Acids

29.14

Weight (kDa)

7.03

Isoelectric Point (pI)

41.29

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

Species Filter

Style Settings

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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: OG0000874)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61520 AT5G28370 AT5G28460
fragaria_vesca	FvH4_5g03011 FvH4_5g03011 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_7g15360
malus_domestica	MD01G1071400.v1.1 MD07G1131300.v1.1
prunus_persica	Prupe.2G177500_v2.0.a1
pyrus_communis	pycom01g10040 pycom04g02360 pycom07g12830
rosa_chinensis	RchiOBHm_Chr1g0357681 RchiOBHm_Chr3g0468501 RchiOBHm_Chr5g0017031 RchiOBHm_Chr7g0228211 RchiOBHm_Chr7g0228281 RchiOBHm_Chr7g0228291
rosa_laevigata	RLG00000001577 RLG00000005833 RLG00000009015 RLG00000009124 RLG00000012161 RLG00000028007 RLG00000028484
rosa_multiflora	Rmu_sc0001062.1_g000004 Rmu_sc0001626.1_g000014 Rmu_sc0001626.1_g000015 Rmu_sc0002582.1_g000009 Rmu_sc0003490.1_g000025 Rmu_sc0003490.1_g000026 Rmu_sc0004842.1_g000011 Rmu_sc0004842.1_g000012 Rmu_sc0004842.1_g000020 Rmu_ssc0000425.1_g000002
rosa_roxburghii	Rroxscaffold_3G00231300 Rroxscaffold_4G00298600 Rroxscaffold_6G00429570
rosa_rugosa	Rorug01G0257700 Rorug02G0051500 Rorug02G0572600 Rorug07G0246900.1 Rorug07G0247000 Rorug07G0247000
rosa_samantha	Rh1AG271700 Rh1BG238800 Rh1CG255600 Rh1DG267200 Rh3AG143700 Rh3BG166200 Rh3BG166300 Rh5AG043600 Rh7AG400900 Rh7AG401200 Rh7BG382400 Rh7CG420000 Rh7DG396900 Rh7DG397300
rosa_wichuraiana	Rw1G024230 Rw7G033300 Rw7G033330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	377
Acc36I	ACCTGC	1 cut(s)	392
AccII	CGCG	1 cut(s)	428
AciI	CCGC	6 cut(s)	193, 288, 319, 383, 399, 428
AclWI	GGATC	3 cut(s)	38, 261, 274
AcoI	YGGCCR	1 cut(s)	249
AcsI	RAATTY	2 cut(s)	221, 695
AcuI	CTGAAG	2 cut(s)	545, 572
AfaI	GTAC	1 cut(s)	28
AfiI	CCNNNNNNNGG	1 cut(s)	372
AgeI	ACCGGT	1 cut(s)	608
AgsI	TTSAA	1 cut(s)	484
AjnI	CCWGG	2 cut(s)	262, 294
AluBI	AGCT	4 cut(s)	310, 343, 352, 469
AluI	AGCT	4 cut(s)	310, 343, 352, 469
Alw21I	GWGCWC	3 cut(s)	312, 550, 561
Alw44I	GTGCAC	1 cut(s)	546
AlwI	GGATC	3 cut(s)	38, 261, 274
AoxI	GGCC	3 cut(s)	249, 297, 396
ApaLI	GTGCAC	1 cut(s)	546
ApoI	RAATTY	2 cut(s)	221, 695
ArsI	GACNNNNNNTTYG	2 cut(s)	101, 133
AsiGI	ACCGGT	1 cut(s)	608
Asp700I	GAANNNNTTC	1 cut(s)	570
AspLEI	GCGC	1 cut(s)	428
AspS9I	GGNCC	3 cut(s)	298, 370, 417
AsuHPI	GGTGA	4 cut(s)	229, 520, 566, 623
AvaII	GGWCC	2 cut(s)	370, 417
BaeGI	GKGCMC	1 cut(s)	550
BaeI	ACNNNNGTAYC	2 cut(s)	10, 43
BamHI	GGATCC	1 cut(s)	266
BanII	GRGCYC	2 cut(s)	312, 327
Bbv12I	GWGCWC	3 cut(s)	312, 550, 561
BccI	CCATC	2 cut(s)	430, 536
BciT130I	CCWGG	2 cut(s)	264, 296
BfuAI	ACCTGC	1 cut(s)	392
BisI	GCNGC	3 cut(s)	193, 399, 429
BlsI	GCNGC	3 cut(s)	194, 400, 430
Bme1390I	CCNGG	2 cut(s)	264, 296
Bme18I	GGWCC	2 cut(s)	370, 417
BmgT120I	GGNCC	3 cut(s)	298, 370, 417
BmiI	GGNNCC	2 cut(s)	268, 324
BmrFI	CCNGG	2 cut(s)	264, 296
BplI	GAGNNNNNCTC	2 cut(s)	314, 346
BpmI	CTGGAG	2 cut(s)	246, 326
BpuEI	CTTGAG	1 cut(s)	377
BsaJI	CCNNGG	4 cut(s)	270, 330, 366, 420
BsaWI	WCCGGW	3 cut(s)	372, 592, 608
BsaXI	ACNNNNNCTCC	6 cut(s)	191, 221, 649, 674, 679, 704
Bsc4I	CCNNNNNNNGG	1 cut(s)	372
Bse118I	RCCGGY	1 cut(s)	608
Bse1I	ACTGG	1 cut(s)	116
Bse3DI	GCAATG	2 cut(s)	314, 508
BseBI	CCWGG	2 cut(s)	264, 296
BseDI	CCNNGG	4 cut(s)	270, 330, 366, 420
BseGI	GGATG	1 cut(s)	441
BseLI	CCNNNNNNNGG	1 cut(s)	372
BseMI	GCAATG	2 cut(s)	314, 508
BseNI	ACTGG	1 cut(s)	116
BseRI	GAGGAG	4 cut(s)	128, 274, 652, 670
BseSI	GKGCMC	1 cut(s)	550
BseYI	CCCAGC	1 cut(s)	431
Bsh1236I	CGCG	1 cut(s)	428
BshFI	GGCC	3 cut(s)	251, 299, 398
BshTI	ACCGGT	1 cut(s)	608
BsiHKAI	GWGCWC	3 cut(s)	312, 550, 561
BsiSI	CCGG	3 cut(s)	373, 593, 609
BslFI	GGGAC	1 cut(s)	365
BslI	CCNNNNNNNGG	1 cut(s)	372
BsmFI	GGGAC	1 cut(s)	365
BsmI	GAATGC	1 cut(s)	290
BsnI	GGCC	3 cut(s)	251, 299, 398
Bsp1286I	GDGCHC	4 cut(s)	312, 327, 550, 561
Bsp143I	GATC	3 cut(s)	43, 266, 621
Bsp19I	CCATGG	1 cut(s)	420
BspACI	CCGC	6 cut(s)	193, 288, 319, 383, 399, 428
BspANI	GGCC	3 cut(s)	251, 299, 398
BspFNI	CGCG	1 cut(s)	428
BspLI	GGNNCC	2 cut(s)	268, 324
BspMI	ACCTGC	1 cut(s)	392
BspPI	GGATC	3 cut(s)	38, 261, 274
BsrDI	GCAATG	2 cut(s)	314, 508
BsrFI	RCCGGY	1 cut(s)	608
BsrI	ACTGG	1 cut(s)	116
BssAI	RCCGGY	1 cut(s)	608
BssECI	CCNNGG	4 cut(s)	270, 330, 366, 420
BssMI	GATC	3 cut(s)	43, 266, 621
BssT1I	CCWWGG	3 cut(s)	270, 366, 420
Bst2UI	CCWGG	2 cut(s)	264, 296
Bst4CI	ACNGT	2 cut(s)	457, 751
Bst6I	CTCTTC	1 cut(s)	146
BstDEI	CTNAG	1 cut(s)	783
BstDSI	CCRYGG	1 cut(s)	420
BstF5I	GGATG	1 cut(s)	441
BstFNI	CGCG	1 cut(s)	428
BstHHI	GCGC	1 cut(s)	428
BstKTI	GATC	3 cut(s)	46, 269, 624
BstMBI	GATC	3 cut(s)	43, 266, 621
BstMWI	GCNNNNNNNGC	3 cut(s)	296, 316, 349
BstNI	CCWGG	2 cut(s)	264, 296
BstSCI	CCNGG	2 cut(s)	262, 294
BstSLI	GKGCMC	1 cut(s)	550
BstUI	CGCG	1 cut(s)	428
BstX2I	RGATCY	1 cut(s)	266
BstYI	RGATCY	1 cut(s)	266
BsuRI	GGCC	3 cut(s)	251, 299, 398
BtgI	CCRYGG	1 cut(s)	420
BtsCI	GGATG	1 cut(s)	441
BtsIMutI	CAGTG	4 cut(s)	462, 548, 670, 747
BveI	ACCTGC	1 cut(s)	392
CfoI	GCGC	1 cut(s)	428
Cfr10I	RCCGGY	1 cut(s)	608
Cfr13I	GGNCC	3 cut(s)	298, 370, 417
CseI	GACGC	1 cut(s)	209
Csp6I	GTAC	1 cut(s)	27
CspAI	ACCGGT	1 cut(s)	608
CviAII	CATG	2 cut(s)	421, 707
CviQI	GTAC	1 cut(s)	27
DdeI	CTNAG	1 cut(s)	783
DpnI	GATC	3 cut(s)	45, 268, 623
DpnII	GATC	3 cut(s)	43, 266, 621
DrdI	GACNNNNNNGTC	1 cut(s)	377
DseDI	GACNNNNNNGTC	1 cut(s)	377
EaeI	YGGCCR	1 cut(s)	249
Eam1104I	CTCTTC	1 cut(s)	146
EarI	CTCTTC	1 cut(s)	146
Ecl136II	GAGCTC	1 cut(s)	310
Eco130I	CCWWGG	3 cut(s)	270, 366, 420
Eco24I	GRGCYC	2 cut(s)	312, 327
Eco47I	GGWCC	2 cut(s)	370, 417
Eco53kI	GAGCTC	1 cut(s)	310
Eco57I	CTGAAG	2 cut(s)	545, 572
EcoICRI	GAGCTC	1 cut(s)	310
EcoO109I	RGGNCCY	1 cut(s)	298
EcoRII	CCWGG	2 cut(s)	262, 294
EcoT14I	CCWWGG	3 cut(s)	270, 366, 420
EcoT38I	GRGCYC	2 cut(s)	312, 327
ErhI	CCWWGG	3 cut(s)	270, 366, 420
FaeI	CATG	2 cut(s)	424, 710
FaiI	YATR	4 cut(s)	80, 422, 495, 708
FalI	AAGNNNNNCTT	2 cut(s)	329, 361
FaqI	GGGAC	1 cut(s)	365
FatI	CATG	2 cut(s)	420, 706
FauI	CCCGC	2 cut(s)	312, 390
Fnu4HI	GCNGC	3 cut(s)	193, 399, 429
FokI	GGATG	1 cut(s)	448
FriOI	GRGCYC	2 cut(s)	312, 327
Fsp4HI	GCNGC	3 cut(s)	193, 399, 429
GlaI	GCGC	1 cut(s)	427
GluI	GCNGC	3 cut(s)	193, 399, 429
GsaI	CCCAGC	1 cut(s)	435
GsuI	CTGGAG	2 cut(s)	246, 326
HaeIII	GGCC	3 cut(s)	251, 299, 398
HapII	CCGG	3 cut(s)	373, 593, 609
HgaI	GACGC	1 cut(s)	209
HhaI	GCGC	1 cut(s)	428
Hin1II	CATG	2 cut(s)	424, 710
Hin6I	GCGC	1 cut(s)	426
HinP1I	GCGC	1 cut(s)	426
HinfI	GANTC	2 cut(s)	71, 388
HpaII	CCGG	3 cut(s)	373, 593, 609
HphI	GGTGA	4 cut(s)	229, 520, 566, 623
Hpy166II	GTNNAC	1 cut(s)	548
Hpy188I	TCNGA	4 cut(s)	43, 48, 95, 334
Hpy188III	TCNNGA	1 cut(s)	305
Hpy8I	GTNNAC	1 cut(s)	548
Hpy99I	CGWCG	2 cut(s)	203, 566
HpyAV	CCTTC	4 cut(s)	171, 311, 547, 763
HpyCH4III	ACNGT	2 cut(s)	457, 751
HpyCH4IV	ACGT	2 cut(s)	234, 246
HpyCH4V	TGCA	1 cut(s)	548
HpyF10VI	GCNNNNNNNGC	3 cut(s)	296, 316, 349
HpyF3I	CTNAG	1 cut(s)	783
HpySE526I	ACGT	2 cut(s)	234, 246
Hsp92II	CATG	2 cut(s)	424, 710
HspAI	GCGC	1 cut(s)	426
Kzo9I	GATC	3 cut(s)	43, 266, 621
LmnI	GCTCC	4 cut(s)	176, 208, 307, 322
MaeII	ACGT	2 cut(s)	234, 246
MaeIII	GTNAC	2 cut(s)	235, 745
MalI	GATC	3 cut(s)	45, 268, 623
MboI	GATC	3 cut(s)	43, 266, 621
MboII	GAAGA	4 cut(s)	133, 217, 538, 683
MflI	RGATCY	1 cut(s)	266
MhlI	GDGCHC	4 cut(s)	312, 327, 550, 561
MluCI	AATT	5 cut(s)	37, 221, 675, 695, 740
MmeI	TCCRAC	1 cut(s)	118
MroXI	GAANNNNTTC	1 cut(s)	570
MseI	TTAA	1 cut(s)	462
MspA1I	CMGCKG	1 cut(s)	385
MspI	CCGG	3 cut(s)	373, 593, 609
MspR9I	CCNGG	2 cut(s)	264, 296
Mva1269I	GAATGC	1 cut(s)	290
MvaI	CCWGG	2 cut(s)	264, 296
MvnI	CGCG	1 cut(s)	428
MwoI	GCNNNNNNNGC	3 cut(s)	296, 316, 349
NcoI	CCATGG	1 cut(s)	420
NdeII	GATC	3 cut(s)	43, 266, 621
NlaIII	CATG	2 cut(s)	424, 710
NlaIV	GGNNCC	2 cut(s)	268, 324
NmuCI	GTSAC	2 cut(s)	235, 745
PctI	GAATGC	1 cut(s)	290
PdmI	GAANNNNTTC	1 cut(s)	570
PfeI	GAWTC	2 cut(s)	71, 388
PfoI	TCCNGGA	1 cut(s)	262
PinAI	ACCGGT	1 cut(s)	608
PkrI	GCNGC	3 cut(s)	194, 400, 430
Psp124BI	GAGCTC	1 cut(s)	312
Psp6I	CCWGG	2 cut(s)	262, 294
PspFI	CCCAGC	1 cut(s)	431
PspGI	CCWGG	2 cut(s)	262, 294
PspN4I	GGNNCC	2 cut(s)	268, 324
PspPI	GGNCC	3 cut(s)	298, 370, 417
PsuI	RGATCY	1 cut(s)	266
RsaI	GTAC	1 cut(s)	28
RsaNI	GTAC	1 cut(s)	27
SacI	GAGCTC	1 cut(s)	312
SaqAI	TTAA	1 cut(s)	462
SatI	GCNGC	3 cut(s)	193, 399, 429
Sau3AI	GATC	3 cut(s)	43, 266, 621
Sau96I	GGNCC	3 cut(s)	298, 370, 417
ScrFI	CCNGG	2 cut(s)	264, 296
SduI	GDGCHC	4 cut(s)	312, 327, 550, 561
SinI	GGWCC	2 cut(s)	370, 417
SmlI	CTYRAG	1 cut(s)	392
SmoI	CTYRAG	1 cut(s)	392
Sse9I	AATT	5 cut(s)	37, 221, 675, 695, 740
SsiI	CCGC	6 cut(s)	193, 288, 319, 383, 399, 428
SstI	GAGCTC	1 cut(s)	312
StyD4I	CCNGG	2 cut(s)	262, 294
StyI	CCWWGG	3 cut(s)	270, 366, 420
TaaI	ACNGT	2 cut(s)	457, 751
TaiI	ACGT	2 cut(s)	237, 249
TaqI	TCGA	4 cut(s)	198, 228, 561, 692
TaqII	GACCGA	1 cut(s)	405
TasI	AATT	5 cut(s)	37, 221, 675, 695, 740
TauI	GCSGC	3 cut(s)	195, 401, 431
TfiI	GAWTC	2 cut(s)	71, 388
Tru1I	TTAA	1 cut(s)	462
Tru9I	TTAA	1 cut(s)	462
TscAI	CASTG	4 cut(s)	462, 555, 670, 754
TseFI	GTSAC	2 cut(s)	235, 745
Tsp45I	GTSAC	2 cut(s)	235, 745
TspDTI	ATGAA	1 cut(s)	461
TspRI	CASTG	4 cut(s)	462, 555, 670, 754
VneI	GTGCAC	1 cut(s)	546
VpaK11BI	GGWCC	2 cut(s)	370, 417
XapI	RAATTY	2 cut(s)	221, 695
XmnI	GAANNNNTTC	1 cut(s)	570

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