Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0011921

Physical Location & Seq

Genomic Coordinates Forward (+)

20659426 .. 20660499

Gene Structure 1074 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG225800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1074 bp

ATGGTGGGGGCGAGTAAGGTGTTCGGTGAAATGCCGGAGAGGAATGCTGTGTCGTGGAATGTGGTTATTAGTGGGTTTGTTAGGTTGGGTGATTTGGGGAATGCGAGGAGGGTGTTTGAGGAGATGCCGGGGAAAGATGTGGTTTCTTTTACTACTATGATTGATGGATATGCAAAGTCCGGGGATATGGCTTCGGCCAGGTTTTTGTTTGAGCAGGCTCCCGTTAAGGATATTGTTATGTGGTCGGCGTTGATATCGGGGTATGCTCAAAATGGTTTTCCCAATCAGGCTGTGAAAATATTTCTTGAGATGAGTAGTAGGAATGTGGAACCTGATGAGTTTATAATGGTGAGCTTGATGTCAGCTTGCTCCCAAGTGGGTTGCTTGGAATTGGCTGAATGGGTTGATTCGTATCTGAGCAATAGCTCAATCGATATTCGACAGCCTCATGTTCTTGCGGCTCTGATTGACATGAATGCAAAGTGTGGGAATATGGAAAGAGCAACGAGTTTGTTTGAAAACATGCCAAAACGGGACCTAATTTCGTATTGTTCAATGATACAAGGGTTGTCTATTCACGGCCGAGGGAATCAAGCTGTTGCCCTTTTCAATAGGATGTTAAGTGAAGGTTTGGCTCCAGATGAGGTAGCTTTTACAGTGATCCTGACAGCTTGTAGCCGTTCCGAGCTTGTTGAGGAGGGTCGGCATTTCTTTGAATTAATGAGACATAAATACAGTATGGTTCCCACTCCTGATCACTATGCATGCATGGTTGATCTTCTTAGCCGGTCAGGATGGTTAGAAGAAGCTTATGAGCTTCTACAATCAATGCCTGTGGAACCTCATGCTGGTGCTTGGGGTGCACTACTTGGTGCATGTAAGCTACATTGCAATGTTGAGTTTGGGGAGTTGGTTGCTAATCGACTCTTTGTGCTTGAACCAAAAAGTGCTGGTAGTTATGTGCTCCTCTCCGACATATATGCTGCATTCCACCGCTGGTTGGATGTTTCTGTTGTGAGGAACAAAATGCAGGAGAGAGGCCTTAAAAAGATACCTGGTATCAGTTCAATTTAG

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

PPR PPR_2

Protein Analysis

357

Amino Acids

39.62

Weight (kDa)

5.46

Isoelectric Point (pI)

48.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	17 - 46	2.7e-06	PPR repeat
PPR_2	PF13041	76 - 123	3.2e-09	PPR repeat family
PPR	PF01535	79 - 109	2e-07	PPR repeat
PPR_2	PF13041	179 - 226	5.5e-10	PPR repeat family
E_motif	PF20431	296 - 357	3.1e-19	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011921)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G37570 AT5G37570
fragaria_vesca	FvH4_6g19660
malus_domestica	MD02G1238600.v1.1 MD07G1078100.v1.1
prunus_persica	Prupe.1G026700_v2.0.a1 Prupe.8G050400_v2.0.a1
pyrus_communis	pycom02g20390 pycom07g06180
rosa_chinensis	RchiOBHm_Chr3g0475001
rosa_laevigata	RLG00000023872
rosa_multiflora	Rmu_sc0003093.1_g000009
rosa_roxburghii	Rroxscaffold_6G00406640
rosa_rugosa	Rorug03G0146000
rosa_samantha	Rh3AG195600 Rh3BG225800 Rh3CG220600 Rh3DG221100
rosa_wichuraiana	Rw3G017810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	344
AciI	CCGC	2 cut(s)	458, 994
AclWI	GGATC	1 cut(s)	655
AcoI	YGGCCR	2 cut(s)	195, 580
AfiI	CCNNNNNNNGG	2 cut(s)	848, 1000
AgsI	TTSAA	6 cut(s)	518, 555, 610, 716, 938, 1068
AjnI	CCWGG	2 cut(s)	197, 1054
Alw21I	GWGCWC	2 cut(s)	865, 966
Alw26I	GTCTC	1 cut(s)	718
Alw44I	GTGCAC	1 cut(s)	861
AlwI	GGATC	1 cut(s)	655
AoxI	GGCC	3 cut(s)	195, 580, 1039
ApaLI	GTGCAC	1 cut(s)	861
ApeKI	GCWGC	1 cut(s)	983
AseI	ATTAAT	1 cut(s)	719
AspS9I	GGNCC	1 cut(s)	535
AsuC2I	CCSGG	2 cut(s)	129, 181
AsuHPI	GGTGA	3 cut(s)	38, 101, 361
AvaII	GGWCC	1 cut(s)	535
BaeGI	GKGCMC	1 cut(s)	865
BaeI	ACNNNNGTAYC	2 cut(s)	551, 584
Bbv12I	GWGCWC	2 cut(s)	865, 966
BbvI	GCAGC	1 cut(s)	970
BccI	CCATC	2 cut(s)	158, 789
BceAI	ACGGC	2 cut(s)	595, 663
BcgI	CGANNNNNNTGC	2 cut(s)	962, 996
BciT130I	CCWGG	2 cut(s)	199, 1056
BclI	TGATCA	1 cut(s)	754
BcnI	CCSGG	2 cut(s)	129, 181
BcoDI	GTCTC	1 cut(s)	718
BisI	GCNGC	2 cut(s)	459, 984
BlsI	GCNGC	2 cut(s)	460, 985
Bme1390I	CCNGG	4 cut(s)	129, 181, 199, 1056
Bme18I	GGWCC	1 cut(s)	535
BmgT120I	GGNCC	1 cut(s)	535
BmiI	GGNNCC	6 cut(s)	219, 330, 536, 636, 744, 840
BmrFI	CCNGG	4 cut(s)	129, 181, 199, 1056
BmsI	GCATC	1 cut(s)	114
BpmI	CTGGAG	1 cut(s)	621
BpuEI	CTTGAG	1 cut(s)	326
BpuMI	CCSGG	2 cut(s)	129, 181
Bsa29I	ATCGAT	1 cut(s)	432
BsaBI	GATNNNNATC	1 cut(s)	411
BsaJI	CCNNGG	3 cut(s)	128, 180, 583
Bsc4I	CCNNNNNNNGG	2 cut(s)	848, 1000
Bse118I	RCCGGY	1 cut(s)	786
Bse3DI	GCAATG	2 cut(s)	886, 898
Bse8I	GATNNNNATC	1 cut(s)	411
BseBI	CCWGG	2 cut(s)	199, 1056
BseCI	ATCGAT	1 cut(s)	432
BseDI	CCNNGG	3 cut(s)	128, 180, 583
BseGI	GGATG	3 cut(s)	621, 800, 1009
BseJI	GATNNNNATC	1 cut(s)	411
BseLI	CCNNNNNNNGG	2 cut(s)	848, 1000
BseMI	GCAATG	2 cut(s)	886, 898
BseMII	CTCAG	1 cut(s)	407
BseRI	GAGGAG	4 cut(s)	121, 134, 710, 956
BseSI	GKGCMC	1 cut(s)	865
BseX3I	CGGCCG	1 cut(s)	580
BseXI	GCAGC	1 cut(s)	970
Bsh1285I	CGRYCG	1 cut(s)	583
BshFI	GGCC	3 cut(s)	197, 582, 1041
BshVI	ATCGAT	1 cut(s)	432
BsiEI	CGRYCG	1 cut(s)	583
BsiHKAI	GWGCWC	2 cut(s)	865, 966
BsiSI	CCGG	4 cut(s)	35, 128, 180, 787
BslFI	GGGAC	1 cut(s)	548
BslI	CCNNNNNNNGG	2 cut(s)	848, 1000
BsmAI	GTCTC	1 cut(s)	718
BsmFI	GGGAC	1 cut(s)	548
BsmI	GAATGC	4 cut(s)	49, 106, 481, 986
BsnI	GGCC	3 cut(s)	197, 582, 1041
Bsp1286I	GDGCHC	2 cut(s)	865, 966
Bsp143I	GATC	3 cut(s)	660, 754, 775
BspACI	CCGC	2 cut(s)	458, 994
BspANI	GGCC	3 cut(s)	197, 582, 1041
BspCNI	CTCAG	1 cut(s)	408
BspDI	ATCGAT	1 cut(s)	432
BspLI	GGNNCC	6 cut(s)	219, 330, 536, 636, 744, 840
BspPI	GGATC	1 cut(s)	655
BsrDI	GCAATG	2 cut(s)	886, 898
BsrFI	RCCGGY	1 cut(s)	786
BssAI	RCCGGY	1 cut(s)	786
BssECI	CCNNGG	3 cut(s)	128, 180, 583
BssMI	GATC	3 cut(s)	660, 754, 775
Bst2UI	CCWGG	2 cut(s)	199, 1056
Bst4CI	ACNGT	2 cut(s)	658, 737
BstC8I	GCNNGC	3 cut(s)	216, 367, 766
BstDEI	CTNAG	2 cut(s)	416, 782
BstF5I	GGATG	3 cut(s)	621, 800, 1009
BstKTI	GATC	3 cut(s)	663, 757, 778
BstMAI	GTCTC	1 cut(s)	718
BstMBI	GATC	3 cut(s)	660, 754, 775
BstMCI	CGRYCG	1 cut(s)	583
BstMWI	GCNNNNNNNGC	1 cut(s)	860
BstNI	CCWGG	2 cut(s)	199, 1056
BstNSI	RCATGY	3 cut(s)	526, 768, 879
BstSCI	CCNGG	4 cut(s)	127, 179, 197, 1054
BstSLI	GKGCMC	1 cut(s)	865
BstV1I	GCAGC	1 cut(s)	970
BstZI	CGGCCG	1 cut(s)	580
Bsu15I	ATCGAT	1 cut(s)	432
BsuRI	GGCC	3 cut(s)	197, 582, 1041
BsuTUI	ATCGAT	1 cut(s)	432
BtsCI	GGATG	3 cut(s)	621, 800, 1009
BtsIMutI	CAGTG	1 cut(s)	663
Cac8I	GCNNGC	3 cut(s)	216, 367, 766
Cfr10I	RCCGGY	1 cut(s)	786
Cfr13I	GGNCC	1 cut(s)	535
ClaI	ATCGAT	1 cut(s)	432
CsiI	ACCWGGT	1 cut(s)	1054
CspCI	CAANNNNNGTGG	2 cut(s)	816, 851
CviAII	CATG	7 cut(s)	449, 472, 523, 765, 769, 845, 876
DdeI	CTNAG	2 cut(s)	416, 782
DpnI	GATC	3 cut(s)	662, 756, 777
DpnII	GATC	3 cut(s)	660, 754, 775
EaeI	YGGCCR	2 cut(s)	195, 580
EagI	CGGCCG	1 cut(s)	580
EclXI	CGGCCG	1 cut(s)	580
Eco147I	AGGCCT	1 cut(s)	1041
Eco32I	GATATC	1 cut(s)	255
Eco47I	GGWCC	1 cut(s)	535
Eco52I	CGGCCG	1 cut(s)	580
EcoO109I	RGGNCCY	1 cut(s)	535
EcoRII	CCWGG	2 cut(s)	197, 1054
EcoRV	GATATC	1 cut(s)	255
EcoT22I	ATGCAT	2 cut(s)	766, 770
FaeI	CATG	7 cut(s)	452, 475, 526, 768, 772, 848, 879
FaqI	GGGAC	1 cut(s)	548
FatI	CATG	7 cut(s)	448, 471, 522, 764, 768, 844, 875
FbaI	TGATCA	1 cut(s)	754
Fnu4HI	GCNGC	2 cut(s)	459, 984
FokI	GGATG	3 cut(s)	628, 807, 1016
Fsp4HI	GCNGC	2 cut(s)	459, 984
GluI	GCNGC	2 cut(s)	459, 984
GsuI	CTGGAG	1 cut(s)	621
HaeIII	GGCC	3 cut(s)	197, 582, 1041
HapII	CCGG	4 cut(s)	35, 128, 180, 787
Hin1II	CATG	7 cut(s)	452, 475, 526, 768, 772, 848, 879
HindIII	AAGCTT	1 cut(s)	807
HinfI	GANTC	3 cut(s)	407, 589, 924
HpaII	CCGG	4 cut(s)	35, 128, 180, 787
HphI	GGTGA	3 cut(s)	38, 101, 361
Hpy166II	GTNNAC	1 cut(s)	863
Hpy188I	TCNGA	4 cut(s)	417, 465, 685, 973
Hpy188III	TCNNGA	5 cut(s)	305, 638, 664, 752, 792
Hpy8I	GTNNAC	1 cut(s)	863
HpyAV	CCTTC	1 cut(s)	620
HpyCH4III	ACNGT	2 cut(s)	658, 737
HpyCH4V	TGCA	9 cut(s)	173, 479, 764, 768, 863, 875, 891, 986, 1030
HpyF10VI	GCNNNNNNNGC	1 cut(s)	860
HpyF3I	CTNAG	2 cut(s)	416, 782
Hsp92II	CATG	7 cut(s)	452, 475, 526, 768, 772, 848, 879
Ksp22I	TGATCA	1 cut(s)	754
Kzo9I	GATC	3 cut(s)	660, 754, 775
LmnI	GCTCC	4 cut(s)	223, 374, 640, 969
Lsp1109I	GCAGC	1 cut(s)	970
LweI	GCATC	1 cut(s)	114
MabI	ACCWGGT	1 cut(s)	1054
MalI	GATC	3 cut(s)	662, 756, 777
MboI	GATC	3 cut(s)	660, 754, 775
MboII	GAAGA	2 cut(s)	770, 815
MhlI	GDGCHC	2 cut(s)	865, 966
MluCI	AATT	4 cut(s)	389, 540, 716, 1068
MlyI	GAGTC	1 cut(s)	918
MmeI	TCCRAC	2 cut(s)	981, 996
Mph1103I	ATGCAT	2 cut(s)	766, 770
MseI	TTAA	4 cut(s)	225, 620, 719, 1044
MslI	CAYNNNNRTG	2 cut(s)	849, 891
MspA1I	CMGCKG	1 cut(s)	996
MspI	CCGG	4 cut(s)	35, 128, 180, 787
MspR9I	CCNGG	4 cut(s)	129, 181, 199, 1056
Mva1269I	GAATGC	4 cut(s)	49, 106, 481, 986
MvaI	CCWGG	2 cut(s)	199, 1056
MwoI	GCNNNNNNNGC	1 cut(s)	860
NciI	CCSGG	2 cut(s)	129, 181
NdeII	GATC	3 cut(s)	660, 754, 775
NlaIII	CATG	7 cut(s)	452, 475, 526, 768, 772, 848, 879
NlaIV	GGNNCC	6 cut(s)	219, 330, 536, 636, 744, 840
NmeAIII	GCCGAG	1 cut(s)	608
NsiI	ATGCAT	2 cut(s)	766, 770
NspI	RCATGY	3 cut(s)	526, 768, 879
PaeI	GCATGC	1 cut(s)	768
PceI	AGGCCT	1 cut(s)	1041
PctI	GAATGC	4 cut(s)	49, 106, 481, 986
PfeI	GAWTC	2 cut(s)	407, 589
PkrI	GCNGC	2 cut(s)	460, 985
PleI	GAGTC	1 cut(s)	918
PpsI	GAGTC	1 cut(s)	918
PpuMI	RGGWCCY	1 cut(s)	535
PshBI	ATTAAT	1 cut(s)	719
PsiI	TTATAA	1 cut(s)	344
Psp5II	RGGWCCY	1 cut(s)	535
Psp6I	CCWGG	2 cut(s)	197, 1054
PspGI	CCWGG	2 cut(s)	197, 1054
PspN4I	GGNNCC	6 cut(s)	219, 330, 536, 636, 744, 840
PspPI	GGNCC	1 cut(s)	535
PspPPI	RGGWCCY	1 cut(s)	535
RseI	CAYNNNNRTG	2 cut(s)	849, 891
SaqAI	TTAA	4 cut(s)	225, 620, 719, 1044
SatI	GCNGC	2 cut(s)	459, 984
Sau3AI	GATC	3 cut(s)	660, 754, 775
Sau96I	GGNCC	1 cut(s)	535
SchI	GAGTC	1 cut(s)	918
ScrFI	CCNGG	4 cut(s)	129, 181, 199, 1056
SduI	GDGCHC	2 cut(s)	865, 966
SexAI	ACCWGGT	1 cut(s)	1054
SfaNI	GCATC	1 cut(s)	114
SinI	GGWCC	1 cut(s)	535
SmiMI	CAYNNNNRTG	2 cut(s)	849, 891
SmlI	CTYRAG	1 cut(s)	305
SmoI	CTYRAG	1 cut(s)	305
SphI	GCATGC	1 cut(s)	768
Sse9I	AATT	4 cut(s)	389, 540, 716, 1068
SseBI	AGGCCT	1 cut(s)	1041
SsiI	CCGC	2 cut(s)	458, 994
SspI	AATATT	1 cut(s)	300
StuI	AGGCCT	1 cut(s)	1041
StyD4I	CCNGG	4 cut(s)	127, 179, 197, 1054
TaaI	ACNGT	2 cut(s)	658, 737
TaqI	TCGA	3 cut(s)	432, 439, 922
TasI	AATT	4 cut(s)	389, 540, 716, 1068
TauI	GCSGC	1 cut(s)	461
TfiI	GAWTC	2 cut(s)	407, 589
Tru1I	TTAA	4 cut(s)	225, 620, 719, 1044
Tru9I	TTAA	4 cut(s)	225, 620, 719, 1044
TscAI	CASTG	1 cut(s)	663
TseI	GCWGC	1 cut(s)	983
TspDTI	ATGAA	1 cut(s)	488
TspRI	CASTG	1 cut(s)	663
VneI	GTGCAC	1 cut(s)	861
VpaK11BI	GGWCC	1 cut(s)	535
VspI	ATTAAT	1 cut(s)	719
XceI	RCATGY	3 cut(s)	526, 768, 879
Zsp2I	ATGCAT	2 cut(s)	766, 770

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