Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0006716

Physical Location & Seq

Genomic Coordinates Forward (+)

66727277 .. 66729998

Gene Structure 2722 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG478500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGGCTATTCGTGCATTTTCAAGATCAAAATTCCCAACTTTCTCTTCAATACTCCTTCAAGGTCTAAAACGAACATCAATCCGAGAGAACCCATTTCCTCCAAAACCTACTTCTCCAGGACTAGAAATCGAACCGTGGAAACCCGTTTGTGGGTTTAGGCTATACCATGATGGGAGGCCTAGAGGTCCCCTTTGGAGGGGTAAGAAGCTGATTGGCAAAGAAGCCCTTTATGTGATTTCGGGTTTGAAGCGGTTTAAGGATGACGAAGAGAGGCTTGGCAAGTTTATAAAGAACCATGTTTTGAGGCTTCTGAAGATGGATGTGATTGCTGTTCTCACTGAGCTTGAGCGCCAAGAAGAGGTCAATTTGGCTATTGAGGTATTTAAGGTGATTCGAAAGCAGGATTGGTACAAGCCTGATGTCTATCTTTATAAGGACTTGATCATTTCATTAGCAAAATCTAAGAAAATGGATGATGTTATGCTGCTGTGGGAGTGCATGAAAAAGGAGGATCTGTTTCCTGATTCACAAACATATACAGAAGTTATCAGGGGATTTTTGAGCTCTGGTTCCCCTGCTGATGCAATGAACATATACGAGGACATGAAACAGTCTCCAGATCCACCAGAGGAGCTACCATTCCGGATTTTGTTAAAGGGACTTTTGCCGCATCCCCTTTTGAGAAACAGAGTCAAGCAAGACTTTGAGGAGCTCTTTCCTGAACAACATGTGTATGACCCTCCGCAAGAGATATTTGGCTCCTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008270 GO:0009451 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046872 GO:0046914 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1990825

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

255

Amino Acids

29.75

Weight (kDa)

8.79

Isoelectric Point (pI)

66.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	139 - 186	1.9e-07	PPR repeat family

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: OG0006716)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G46870 AT3G46870
fragaria_vesca	FvH4_3g37180 FvH4_3g37180
malus_domestica	MD03G1083200.v1.1 MD11G1091300.v1.1 MD11G1091600.v1.1
prunus_persica	Prupe.6G067500_v2.0.a1
pyrus_communis	pycom11g07590 pycom11g07630 pycom14g03070
rosa_chinensis	RchiOBHm_Chr5g0066921
rosa_laevigata	RLG00000035893
rosa_multiflora	Rmu_sc0008378.1_g000009 Rmu_sc0008378.1_g000011
rosa_roxburghii	Rroxscaffold_1G00014200
rosa_rugosa	Rorug05G0379700 Rorug05G0379800 Rorug05G0379900
rosa_samantha	Rh5AG439400 Rh5BG456400 Rh5CG478500 Rh5DG471200 Rh7AG391700 Rh7CG410600
rosa_wichuraiana	Rw5G041090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	287, 432
AccIII	TCCGGA	1 cut(s)	642
AciI	CCGC	3 cut(s)	250, 668, 743
AclWI	GGATC	2 cut(s)	519, 614
AcsI	RAATTY	1 cut(s)	29
AcuI	CTGAAG	1 cut(s)	332
AfaI	GTAC	1 cut(s)	410
AfiI	CCNNNNNNNGG	5 cut(s)	149, 150, 195, 196, 358
AflIII	ACRYGT	1 cut(s)	727
AgsI	TTSAA	4 cut(s)	21, 48, 59, 247
AjnI	CCWGG	1 cut(s)	115
AjuI	GAANNNNNNNTTGG	8 cut(s)	28, 60, 94, 126, 258, 290, 388, 420
AluBI	AGCT	5 cut(s)	208, 343, 564, 634, 712
AluI	AGCT	5 cut(s)	208, 343, 564, 634, 712
Alw21I	GWGCWC	2 cut(s)	566, 714
Alw26I	GTCTC	1 cut(s)	618
AlwI	GGATC	2 cut(s)	519, 614
Aor13HI	TCCGGA	1 cut(s)	642
AoxI	GGCC	1 cut(s)	176
ApeKI	GCWGC	1 cut(s)	484
ApoI	RAATTY	1 cut(s)	29
AspLEI	GCGC	1 cut(s)	351
AspS9I	GGNCC	1 cut(s)	185
AsuHPI	GGTGA	1 cut(s)	400
AsuII	TTCGAA	1 cut(s)	394
AvaII	GGWCC	1 cut(s)	185
BanII	GRGCYC	2 cut(s)	566, 714
Bbv12I	GWGCWC	2 cut(s)	566, 714
BbvI	GCAGC	1 cut(s)	471
BccI	CCATC	2 cut(s)	164, 310
BciT130I	CCWGG	1 cut(s)	117
BclI	TGATCA	1 cut(s)	441
BcoDI	GTCTC	1 cut(s)	618
BfaI	CTAG	2 cut(s)	122, 180
BfoI	RGCGCY	1 cut(s)	352
BisI	GCNGC	2 cut(s)	485, 668
BlsI	GCNGC	2 cut(s)	486, 669
Bme1390I	CCNGG	1 cut(s)	117
Bme18I	GGWCC	1 cut(s)	185
BmgT120I	GGNCC	1 cut(s)	185
BmiI	GGNNCC	3 cut(s)	187, 571, 760
BmrFI	CCNGG	1 cut(s)	117
BmsI	GCATC	2 cut(s)	571, 679
BpmI	CTGGAG	2 cut(s)	99, 600
Bpu14I	TTCGAA	1 cut(s)	394
BpuEI	CTTGAG	1 cut(s)	365
BsaBI	GATNNNNATC	1 cut(s)	423
BsaJI	CCNNGG	1 cut(s)	134
BsaWI	WCCGGW	1 cut(s)	642
BsaXI	ACNNNNNCTCC	2 cut(s)	500, 530
Bsc4I	CCNNNNNNNGG	5 cut(s)	149, 150, 195, 196, 358
Bse3DI	GCAATG	1 cut(s)	591
Bse8I	GATNNNNATC	1 cut(s)	423
BseAI	TCCGGA	1 cut(s)	642
BseBI	CCWGG	1 cut(s)	117
BseDI	CCNNGG	1 cut(s)	134
BseGI	GGATG	4 cut(s)	265, 325, 478, 670
BseJI	GATNNNNATC	1 cut(s)	423
BseLI	CCNNNNNNNGG	5 cut(s)	149, 150, 195, 196, 358
BseMI	GCAATG	1 cut(s)	591
BseMII	CTCAG	1 cut(s)	330
BseRI	GAGGAG	2 cut(s)	644, 722
BseXI	GCAGC	1 cut(s)	471
BshFI	GGCC	1 cut(s)	178
BsiHKAI	GWGCWC	2 cut(s)	566, 714
BsiSI	CCGG	1 cut(s)	643
BslFI	GGGAC	2 cut(s)	171, 672
BslI	CCNNNNNNNGG	5 cut(s)	149, 150, 195, 196, 358
BsmAI	GTCTC	1 cut(s)	618
BsmFI	GGGAC	2 cut(s)	171, 672
BsnI	GGCC	1 cut(s)	178
Bsp119I	TTCGAA	1 cut(s)	394
Bsp1286I	GDGCHC	2 cut(s)	566, 714
Bsp13I	TCCGGA	1 cut(s)	642
Bsp143I	GATC	4 cut(s)	23, 441, 511, 619
BspACI	CCGC	3 cut(s)	250, 668, 743
BspANI	GGCC	1 cut(s)	178
BspCNI	CTCAG	1 cut(s)	331
BspEI	TCCGGA	1 cut(s)	642
BspLI	GGNNCC	3 cut(s)	187, 571, 760
BspPI	GGATC	2 cut(s)	519, 614
BspT104I	TTCGAA	1 cut(s)	394
BsrDI	GCAATG	1 cut(s)	591
BssECI	CCNNGG	1 cut(s)	134
BssMI	GATC	4 cut(s)	23, 441, 511, 619
Bst2UI	CCWGG	1 cut(s)	117
Bst4CI	ACNGT	2 cut(s)	135, 612
Bst6I	CTCTTC	3 cut(s)	49, 261, 351
BstBI	TTCGAA	1 cut(s)	394
BstDEI	CTNAG	2 cut(s)	339, 462
BstDSI	CCRYGG	1 cut(s)	134
BstF5I	GGATG	4 cut(s)	265, 325, 478, 670
BstH2I	RGCGCY	1 cut(s)	352
BstHHI	GCGC	1 cut(s)	351
BstKTI	GATC	4 cut(s)	26, 444, 514, 622
BstMAI	GTCTC	1 cut(s)	618
BstMBI	GATC	4 cut(s)	23, 441, 511, 619
BstMWI	GCNNNNNNNGC	1 cut(s)	11
BstNI	CCWGG	1 cut(s)	117
BstNSI	RCATGY	1 cut(s)	731
BstSCI	CCNGG	1 cut(s)	115
BstV1I	GCAGC	1 cut(s)	471
BstX2I	RGATCY	2 cut(s)	511, 619
BstYI	RGATCY	2 cut(s)	511, 619
BsuRI	GGCC	1 cut(s)	178
BtgI	CCRYGG	1 cut(s)	134
BtsCI	GGATG	4 cut(s)	265, 325, 478, 670
BtsIMutI	CAGTG	1 cut(s)	336
CfoI	GCGC	1 cut(s)	351
Cfr13I	GGNCC	1 cut(s)	185
Csp6I	GTAC	1 cut(s)	409
CviAII	CATG	5 cut(s)	167, 296, 499, 604, 728
CviQI	GTAC	1 cut(s)	409
DdeI	CTNAG	2 cut(s)	339, 462
DpnI	GATC	4 cut(s)	25, 443, 513, 621
DpnII	GATC	4 cut(s)	23, 441, 511, 619
Eam1104I	CTCTTC	3 cut(s)	49, 261, 351
EarI	CTCTTC	3 cut(s)	49, 261, 351
Ecl136II	GAGCTC	2 cut(s)	564, 712
Eco147I	AGGCCT	1 cut(s)	178
Eco24I	GRGCYC	2 cut(s)	566, 714
Eco47I	GGWCC	1 cut(s)	185
Eco53kI	GAGCTC	2 cut(s)	564, 712
Eco57I	CTGAAG	1 cut(s)	332
EcoICRI	GAGCTC	2 cut(s)	564, 712
EcoO109I	RGGNCCY	1 cut(s)	185
EcoRII	CCWGG	1 cut(s)	115
EcoT38I	GRGCYC	2 cut(s)	566, 714
FaeI	CATG	5 cut(s)	170, 299, 502, 607, 731
FalI	AAGNNNNNCTT	6 cut(s)	210, 242, 258, 290, 686, 718
FaqI	GGGAC	2 cut(s)	171, 672
FatI	CATG	5 cut(s)	166, 295, 498, 603, 727
FbaI	TGATCA	1 cut(s)	441
Fnu4HI	GCNGC	2 cut(s)	485, 668
FokI	GGATG	4 cut(s)	272, 332, 485, 657
FriOI	GRGCYC	2 cut(s)	566, 714
Fsp4HI	GCNGC	2 cut(s)	485, 668
FspBI	CTAG	2 cut(s)	122, 180
GlaI	GCGC	1 cut(s)	350
GluI	GCNGC	2 cut(s)	485, 668
GsuI	CTGGAG	2 cut(s)	99, 600
HaeII	RGCGCY	1 cut(s)	352
HaeIII	GGCC	1 cut(s)	178
HapII	CCGG	1 cut(s)	643
HhaI	GCGC	1 cut(s)	351
Hin1II	CATG	5 cut(s)	170, 299, 502, 607, 731
Hin6I	GCGC	1 cut(s)	349
HinP1I	GCGC	1 cut(s)	349
HinfI	GANTC	3 cut(s)	391, 524, 690
HpaII	CCGG	1 cut(s)	643
HphI	GGTGA	1 cut(s)	400
Hpy188I	TCNGA	2 cut(s)	83, 312
Hpy188III	TCNNGA	5 cut(s)	21, 521, 617, 643, 719
HpyAV	CCTTC	1 cut(s)	65
HpyCH4III	ACNGT	2 cut(s)	135, 612
HpyCH4V	TGCA	3 cut(s)	14, 498, 584
HpyF10VI	GCNNNNNNNGC	1 cut(s)	11
HpyF3I	CTNAG	2 cut(s)	339, 462
Hsp92II	CATG	5 cut(s)	170, 299, 502, 607, 731
HspAI	GCGC	1 cut(s)	349
Kpn2I	TCCGGA	1 cut(s)	642
Ksp22I	TGATCA	1 cut(s)	441
Kzo9I	GATC	4 cut(s)	23, 441, 511, 619
LmnI	GCTCC	3 cut(s)	631, 709, 764
Lsp1109I	GCAGC	1 cut(s)	471
LweI	GCATC	2 cut(s)	571, 679
MaeI	CTAG	2 cut(s)	122, 180
MalI	GATC	4 cut(s)	25, 443, 513, 621
MboI	GATC	4 cut(s)	23, 441, 511, 619
MboII	GAAGA	4 cut(s)	36, 278, 325, 368
MflI	RGATCY	2 cut(s)	511, 619
MhlI	GDGCHC	2 cut(s)	566, 714
MluCI	AATT	2 cut(s)	29, 364
MlyI	GAGTC	1 cut(s)	699
MroI	TCCGGA	1 cut(s)	642
MseI	TTAA	3 cut(s)	255, 384, 653
MslI	CAYNNNNRTG	1 cut(s)	732
MspI	CCGG	1 cut(s)	643
MspR9I	CCNGG	1 cut(s)	117
MvaI	CCWGG	1 cut(s)	117
MwoI	GCNNNNNNNGC	1 cut(s)	11
NdeII	GATC	4 cut(s)	23, 441, 511, 619
NlaIII	CATG	5 cut(s)	170, 299, 502, 607, 731
NlaIV	GGNNCC	3 cut(s)	187, 571, 760
NspI	RCATGY	1 cut(s)	731
NspV	TTCGAA	1 cut(s)	394
PceI	AGGCCT	1 cut(s)	178
PciI	ACATGT	1 cut(s)	727
PfeI	GAWTC	2 cut(s)	391, 524
PfoI	TCCNGGA	1 cut(s)	115
PkrI	GCNGC	2 cut(s)	486, 669
PleI	GAGTC	1 cut(s)	698
PpsI	GAGTC	1 cut(s)	698
PpuMI	RGGWCCY	1 cut(s)	185
PscI	ACATGT	1 cut(s)	727
PsiI	TTATAA	2 cut(s)	287, 432
Psp124BI	GAGCTC	2 cut(s)	566, 714
Psp5II	RGGWCCY	1 cut(s)	185
Psp6I	CCWGG	1 cut(s)	115
PspGI	CCWGG	1 cut(s)	115
PspN4I	GGNNCC	3 cut(s)	187, 571, 760
PspPI	GGNCC	1 cut(s)	185
PspPPI	RGGWCCY	1 cut(s)	185
PsuI	RGATCY	2 cut(s)	511, 619
RsaI	GTAC	1 cut(s)	410
RsaNI	GTAC	1 cut(s)	409
RseI	CAYNNNNRTG	1 cut(s)	732
SacI	GAGCTC	2 cut(s)	566, 714
SaqAI	TTAA	3 cut(s)	255, 384, 653
SatI	GCNGC	2 cut(s)	485, 668
Sau3AI	GATC	4 cut(s)	23, 441, 511, 619
Sau96I	GGNCC	1 cut(s)	185
SchI	GAGTC	1 cut(s)	699
ScrFI	CCNGG	1 cut(s)	117
SduI	GDGCHC	2 cut(s)	566, 714
SfaNI	GCATC	2 cut(s)	571, 679
SfuI	TTCGAA	1 cut(s)	394
SinI	GGWCC	1 cut(s)	185
SmiMI	CAYNNNNRTG	1 cut(s)	732
SmlI	CTYRAG	1 cut(s)	344
SmoI	CTYRAG	1 cut(s)	344
Sse9I	AATT	2 cut(s)	29, 364
SseBI	AGGCCT	1 cut(s)	178
SsiI	CCGC	3 cut(s)	250, 668, 743
SspMI	CTAG	2 cut(s)	122, 180
SstI	GAGCTC	2 cut(s)	566, 714
StuI	AGGCCT	1 cut(s)	178
StyD4I	CCNGG	1 cut(s)	115
TaaI	ACNGT	2 cut(s)	135, 612
TaqI	TCGA	2 cut(s)	129, 394
TasI	AATT	2 cut(s)	29, 364
TauI	GCSGC	1 cut(s)	670
TfiI	GAWTC	2 cut(s)	391, 524
Tru1I	TTAA	3 cut(s)	255, 384, 653
Tru9I	TTAA	3 cut(s)	255, 384, 653
TscAI	CASTG	1 cut(s)	343
TseI	GCWGC	1 cut(s)	484
TspDTI	ATGAA	4 cut(s)	438, 515, 602, 620
TspRI	CASTG	1 cut(s)	343
VpaK11BI	GGWCC	1 cut(s)	185
XapI	RAATTY	1 cut(s)	29
XceI	RCATGY	1 cut(s)	731
XspI	CTAG	2 cut(s)	122, 180

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