Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0011921

Physical Location & Seq

Genomic Coordinates Forward (+)

19077016 .. 19078650

Gene Structure 1635 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG195600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1101 bp

ATGCCTAGTGTGCGCGTAGCTTCAGCCTCAATCGCCACATTACTCAAAGCCTGCAAAACCCAGTTCCGTCTTGAACAAATCCACGCCCAGATCATCCACAAGGGTCTAGAGCAAGACCACTTCCTCATCACCCAATTCATCTGCCTCTCCAACGCTCTCTCCTCCCTCCCTTACTCCACCGCCGTCTTCCGCCGCGTCAACAACCCCAGCAGCCATCTCTGGAACTCACTACTCAAAGGCCACTGCGAAAGATCCAGTTTTTCCGCCACCGTCTCTCTCTTCATTCGCATGAAGAGGGAGGATGGCGCGGCGGATGAGTACACGTACCCGTCGGTTGTGAAGGCCTGTGCCGGCGAGGGAAGGGTCCGGGAGGGAAGGGCGGTTCATGGGTCGGCGGTGAGGTGTGGGGTTGATGGGAATGTGTTTGTGGGGACTAGCTTGGTTGACTTGTATGGCAAATGTAGGGAGGTTGTGTGTGCACGGAAGGTGTTTGATGGAATGTGTGAGAGAAATGTGGTGTCTTGGACTGCTATGGTTGTTGGGTATGCCGGTGTTGGGGATATGGTGGGGGCGAGTAAGGTGTTCGGTGAAATGCCGGAGAGGAATGCTGTGTCGTGGAATGTGGTTATTAGTGGGTTTGTTAGGTTGGGTGATTTGGGGAATGCGAGGAGGGTGTTTGAGGAGATGCCGGGGAAAGATGTGGTTTCTTTTACTACTATGATTGATGGATATGCAAAGTCCGGGGATATGGCTTCGGCCAGGTTTTTGTTTGAGCAGGCTCCCGTTAAGGATATTGTTATGTGGTCGGCGTTGATATCGGGGTATGCTCAAAATGGTTTTCCCAATCAGGCTGTGAAAATATTTCTTGAGATGAGTAGTAGGAATGTGGAACCTGATGAGTTTATAATGCTACATTGCAATGTTGAGTTTGGGGAGTTGGTTGCTAATCGACTCTTTGTGCTTGAACCAAAAAGTGCTGGTAGTTATGTGCTCCTCTCCGACATATATGCTGCATTCCACCGCTGGTTGGATGTTTCTGTTGTGAGGAACAAAATGCAGGAGAGAGGCCTTAAAAAGATACCTGGTATCAGTTCAATTTAG

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

366

Amino Acids

40.36

Weight (kDa)

8.67

Isoelectric Point (pI)

34.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	69 - 117	2.8e-07	PPR repeat family
PPR	PF01535	204 - 233	2.7e-06	PPR repeat
PPR_2	PF13041	263 - 301	1.8e-08	PPR repeat family
PPR	PF01535	266 - 296	2.1e-07	PPR repeat
E_motif	PF20431	305 - 366	3.2e-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)	905
AccII	CGCG	3 cut(s)	15, 195, 308
AciI	CCGC	9 cut(s)	180, 190, 193, 264, 308, 311, 380, 395, 1021
AclWI	GGATC	1 cut(s)	246
AcoI	YGGCCR	1 cut(s)	756
AcuI	CTGAAG	1 cut(s)	6
AfaI	GTAC	2 cut(s)	320, 326
AfiI	CCNNNNNNNGG	2 cut(s)	555, 1027
AflIII	ACRYGT	1 cut(s)	321
AgsI	TTSAA	3 cut(s)	74, 965, 1095
AjnI	CCWGG	2 cut(s)	758, 1081
AloI	GAACNNNNNNTCC	2 cut(s)	366, 398
AluBI	AGCT	2 cut(s)	20, 438
AluI	AGCT	2 cut(s)	20, 438
Alw21I	GWGCWC	2 cut(s)	481, 993
Alw26I	GTCTC	1 cut(s)	277
Alw44I	GTGCAC	1 cut(s)	477
AlwI	GGATC	1 cut(s)	246
AoxI	GGCC	4 cut(s)	238, 342, 756, 1066
ApaLI	GTGCAC	1 cut(s)	477
ApeKI	GCWGC	2 cut(s)	210, 1010
AspLEI	GCGC	2 cut(s)	15, 308
AspS9I	GGNCC	1 cut(s)	364
AsuC2I	CCSGG	3 cut(s)	368, 690, 742
AsuHPI	GGTGA	4 cut(s)	121, 409, 599, 662
AvaII	GGWCC	1 cut(s)	364
BaeGI	GKGCMC	1 cut(s)	481
BbsI	GAAGAC	1 cut(s)	178
Bbv12I	GWGCWC	2 cut(s)	481, 993
BbvI	GCAGC	2 cut(s)	222, 997
BccI	CCATC	5 cut(s)	222, 296, 407, 488, 719
BceAI	ACGGC	1 cut(s)	167
BcgI	CGANNNNNNTGC	2 cut(s)	989, 1023
BciT130I	CCWGG	2 cut(s)	760, 1083
BcnI	CCSGG	3 cut(s)	368, 690, 742
BcoDI	GTCTC	1 cut(s)	277
BfaI	CTAG	3 cut(s)	6, 107, 435
BisI	GCNGC	4 cut(s)	193, 211, 309, 1011
BlsI	GCNGC	4 cut(s)	194, 212, 310, 1012
Bme1390I	CCNGG	5 cut(s)	368, 690, 742, 760, 1083
Bme18I	GGWCC	1 cut(s)	364
BmgT120I	GGNCC	1 cut(s)	364
BmiI	GGNNCC	3 cut(s)	365, 780, 891
BmrFI	CCNGG	5 cut(s)	368, 690, 742, 760, 1083
BmrI	ACTGGG	1 cut(s)	55
BmsI	GCATC	1 cut(s)	675
BmuI	ACTGGG	1 cut(s)	55
BpiI	GAAGAC	1 cut(s)	178
BpuEI	CTTGAG	1 cut(s)	887
BpuMI	CCSGG	3 cut(s)	368, 690, 742
BsaAI	YACGTR	1 cut(s)	324
BsaJI	CCNNGG	2 cut(s)	689, 741
BsaXI	ACNNNNNCTCC	4 cut(s)	143, 173, 458, 488
Bsc4I	CCNNNNNNNGG	2 cut(s)	555, 1027
Bse118I	RCCGGY	2 cut(s)	350, 548
Bse1I	ACTGG	2 cut(s)	61, 255
Bse3DI	GCAATG	2 cut(s)	913, 925
BseBI	CCWGG	2 cut(s)	760, 1083
BseDI	CCNNGG	2 cut(s)	689, 741
BseGI	GGATG	4 cut(s)	93, 307, 319, 1036
BseLI	CCNNNNNNNGG	2 cut(s)	555, 1027
BseMI	GCAATG	2 cut(s)	913, 925
BseNI	ACTGG	2 cut(s)	61, 255
BseRI	GAGGAG	4 cut(s)	151, 682, 695, 983
BseSI	GKGCMC	1 cut(s)	481
BseXI	GCAGC	2 cut(s)	222, 997
BseYI	CCCAGC	1 cut(s)	206
Bsh1236I	CGCG	3 cut(s)	15, 195, 308
BshFI	GGCC	4 cut(s)	240, 344, 758, 1068
BsiHKAI	GWGCWC	2 cut(s)	481, 993
BsiSI	CCGG	6 cut(s)	351, 367, 549, 596, 689, 741
BslFI	GGGAC	1 cut(s)	445
BslI	CCNNNNNNNGG	2 cut(s)	555, 1027
BsmAI	GTCTC	1 cut(s)	277
BsmBI	CGTCTC	1 cut(s)	277
BsmFI	GGGAC	1 cut(s)	445
BsmI	GAATGC	3 cut(s)	610, 667, 1013
BsnI	GGCC	4 cut(s)	240, 344, 758, 1068
Bsp1286I	GDGCHC	2 cut(s)	481, 993
Bsp143I	GATC	2 cut(s)	90, 251
BspACI	CCGC	9 cut(s)	180, 190, 193, 264, 308, 311, 380, 395, 1021
BspANI	GGCC	4 cut(s)	240, 344, 758, 1068
BspFNI	CGCG	3 cut(s)	15, 195, 308
BspLI	GGNNCC	3 cut(s)	365, 780, 891
BspPI	GGATC	1 cut(s)	246
BsrDI	GCAATG	2 cut(s)	913, 925
BsrFI	RCCGGY	2 cut(s)	350, 548
BsrI	ACTGG	2 cut(s)	61, 255
BssAI	RCCGGY	2 cut(s)	350, 548
BssECI	CCNNGG	2 cut(s)	689, 741
BssMI	GATC	2 cut(s)	90, 251
Bst2UI	CCWGG	2 cut(s)	760, 1083
Bst4CI	ACNGT	1 cut(s)	271
Bst6I	CTCTTC	2 cut(s)	284, 287
BstBAI	YACGTR	1 cut(s)	324
BstC8I	GCNNGC	3 cut(s)	52, 352, 777
BstF5I	GGATG	4 cut(s)	93, 307, 319, 1036
BstFNI	CGCG	3 cut(s)	15, 195, 308
BstHHI	GCGC	2 cut(s)	15, 308
BstKTI	GATC	2 cut(s)	93, 254
BstMAI	GTCTC	1 cut(s)	277
BstMBI	GATC	2 cut(s)	90, 251
BstMWI	GCNNNNNNNGC	2 cut(s)	10, 32
BstNI	CCWGG	2 cut(s)	760, 1083
BstSCI	CCNGG	5 cut(s)	366, 688, 740, 758, 1081
BstSLI	GKGCMC	1 cut(s)	481
BstUI	CGCG	3 cut(s)	15, 195, 308
BstV1I	GCAGC	2 cut(s)	222, 997
BstV2I	GAAGAC	1 cut(s)	178
BstX2I	RGATCY	1 cut(s)	251
BstYI	RGATCY	1 cut(s)	251
BsuRI	GGCC	4 cut(s)	240, 344, 758, 1068
BtsCI	GGATG	4 cut(s)	93, 307, 319, 1036
BtsI	GCAGTG	1 cut(s)	241
BtsIMutI	CAGTG	1 cut(s)	241
Cac8I	GCNNGC	3 cut(s)	52, 352, 777
CfoI	GCGC	2 cut(s)	15, 308
Cfr10I	RCCGGY	2 cut(s)	350, 548
Cfr13I	GGNCC	1 cut(s)	364
CseI	GACGC	1 cut(s)	184
CsiI	ACCWGGT	1 cut(s)	1081
Csp6I	GTAC	2 cut(s)	319, 325
CviAII	CATG	2 cut(s)	289, 386
CviQI	GTAC	2 cut(s)	319, 325
DpnI	GATC	2 cut(s)	92, 253
DpnII	GATC	2 cut(s)	90, 251
EaeI	YGGCCR	1 cut(s)	756
Eam1104I	CTCTTC	2 cut(s)	284, 287
EarI	CTCTTC	2 cut(s)	284, 287
EciI	GGCGGA	3 cut(s)	179, 253, 326
Eco147I	AGGCCT	2 cut(s)	344, 1068
Eco32I	GATATC	1 cut(s)	816
Eco47I	GGWCC	1 cut(s)	364
Eco57I	CTGAAG	1 cut(s)	6
EcoRII	CCWGG	2 cut(s)	758, 1081
EcoRV	GATATC	1 cut(s)	816
Esp3I	CGTCTC	1 cut(s)	277
FaeI	CATG	2 cut(s)	292, 389
FaqI	GGGAC	1 cut(s)	445
FatI	CATG	2 cut(s)	288, 385
Fnu4HI	GCNGC	4 cut(s)	193, 211, 309, 1011
FokI	GGATG	4 cut(s)	80, 314, 326, 1043
Fsp4HI	GCNGC	4 cut(s)	193, 211, 309, 1011
FspBI	CTAG	3 cut(s)	6, 107, 435
GlaI	GCGC	2 cut(s)	14, 307
GluI	GCNGC	4 cut(s)	193, 211, 309, 1011
GsaI	CCCAGC	1 cut(s)	210
HaeIII	GGCC	4 cut(s)	240, 344, 758, 1068
HapII	CCGG	6 cut(s)	351, 367, 549, 596, 689, 741
HgaI	GACGC	1 cut(s)	184
HhaI	GCGC	2 cut(s)	15, 308
Hin1II	CATG	2 cut(s)	292, 389
Hin6I	GCGC	2 cut(s)	13, 306
HinP1I	GCGC	2 cut(s)	13, 306
HincII	GTYRAC	2 cut(s)	199, 445
HindII	GTYRAC	2 cut(s)	199, 445
HinfI	GANTC	1 cut(s)	951
HpaII	CCGG	6 cut(s)	351, 367, 549, 596, 689, 741
HphI	GGTGA	4 cut(s)	121, 409, 599, 662
Hpy166II	GTNNAC	4 cut(s)	199, 321, 445, 479
Hpy188I	TCNGA	1 cut(s)	1000
Hpy188III	TCNNGA	4 cut(s)	71, 107, 220, 866
Hpy8I	GTNNAC	4 cut(s)	199, 321, 445, 479
Hpy99I	CGWCG	1 cut(s)	334
HpyAV	CCTTC	4 cut(s)	334, 354, 369, 478
HpyCH4III	ACNGT	1 cut(s)	271
HpyCH4IV	ACGT	1 cut(s)	323
HpyCH4V	TGCA	6 cut(s)	54, 479, 734, 918, 1013, 1057
HpyF10VI	GCNNNNNNNGC	2 cut(s)	10, 32
HpySE526I	ACGT	1 cut(s)	323
Hsp92II	CATG	2 cut(s)	292, 389
HspAI	GCGC	2 cut(s)	13, 306
KroI	GCCGGC	1 cut(s)	350
KroNI	GCCGGC	1 cut(s)	352
Kzo9I	GATC	2 cut(s)	90, 251
LmnI	GCTCC	2 cut(s)	784, 996
Lsp1109I	GCAGC	2 cut(s)	222, 997
LweI	GCATC	1 cut(s)	675
MabI	ACCWGGT	1 cut(s)	1081
MaeI	CTAG	3 cut(s)	6, 107, 435
MaeII	ACGT	1 cut(s)	323
MalI	GATC	2 cut(s)	92, 253
MboI	GATC	2 cut(s)	90, 251
MboII	GAAGA	3 cut(s)	178, 271, 304
MflI	RGATCY	1 cut(s)	251
MhlI	GDGCHC	2 cut(s)	481, 993
MluCI	AATT	2 cut(s)	134, 1095
MlyI	GAGTC	1 cut(s)	945
MmeI	TCCRAC	3 cut(s)	174, 1008, 1023
MroNI	GCCGGC	1 cut(s)	350
MseI	TTAA	2 cut(s)	786, 1071
MslI	CAYNNNNRTG	2 cut(s)	287, 918
MspA1I	CMGCKG	1 cut(s)	1023
MspI	CCGG	6 cut(s)	351, 367, 549, 596, 689, 741
MspR9I	CCNGG	5 cut(s)	368, 690, 742, 760, 1083
Mva1269I	GAATGC	3 cut(s)	610, 667, 1013
MvaI	CCWGG	2 cut(s)	760, 1083
MvnI	CGCG	3 cut(s)	15, 195, 308
MwoI	GCNNNNNNNGC	2 cut(s)	10, 32
NaeI	GCCGGC	1 cut(s)	352
NciI	CCSGG	3 cut(s)	368, 690, 742
NdeII	GATC	2 cut(s)	90, 251
NgoMIV	GCCGGC	1 cut(s)	350
NlaIII	CATG	2 cut(s)	292, 389
NlaIV	GGNNCC	3 cut(s)	365, 780, 891
PceI	AGGCCT	2 cut(s)	344, 1068
PctI	GAATGC	3 cut(s)	610, 667, 1013
PdiI	GCCGGC	1 cut(s)	352
PfoI	TCCNGGA	1 cut(s)	366
PkrI	GCNGC	4 cut(s)	194, 212, 310, 1012
PleI	GAGTC	1 cut(s)	945
PpsI	GAGTC	1 cut(s)	945
Ppu21I	YACGTR	1 cut(s)	324
PsiI	TTATAA	1 cut(s)	905
Psp6I	CCWGG	2 cut(s)	758, 1081
PspFI	CCCAGC	1 cut(s)	206
PspGI	CCWGG	2 cut(s)	758, 1081
PspN4I	GGNNCC	3 cut(s)	365, 780, 891
PspPI	GGNCC	1 cut(s)	364
PsuI	RGATCY	1 cut(s)	251
RsaI	GTAC	2 cut(s)	320, 326
RsaNI	GTAC	2 cut(s)	319, 325
RseI	CAYNNNNRTG	2 cut(s)	287, 918
SaqAI	TTAA	2 cut(s)	786, 1071
SatI	GCNGC	4 cut(s)	193, 211, 309, 1011
Sau3AI	GATC	2 cut(s)	90, 251
Sau96I	GGNCC	1 cut(s)	364
SchI	GAGTC	1 cut(s)	945
ScrFI	CCNGG	5 cut(s)	368, 690, 742, 760, 1083
SduI	GDGCHC	2 cut(s)	481, 993
SexAI	ACCWGGT	1 cut(s)	1081
SfaNI	GCATC	1 cut(s)	675
SinI	GGWCC	1 cut(s)	364
SmiMI	CAYNNNNRTG	2 cut(s)	287, 918
SmlI	CTYRAG	1 cut(s)	866
SmoI	CTYRAG	1 cut(s)	866
Sse9I	AATT	2 cut(s)	134, 1095
SseBI	AGGCCT	2 cut(s)	344, 1068
SsiI	CCGC	9 cut(s)	180, 190, 193, 264, 308, 311, 380, 395, 1021
SspI	AATATT	1 cut(s)	861
SspMI	CTAG	3 cut(s)	6, 107, 435
StuI	AGGCCT	2 cut(s)	344, 1068
StyD4I	CCNGG	5 cut(s)	366, 688, 740, 758, 1081
TaaI	ACNGT	1 cut(s)	271
TaiI	ACGT	1 cut(s)	326
TaqI	TCGA	1 cut(s)	949
TasI	AATT	2 cut(s)	134, 1095
TatI	WGTACW	1 cut(s)	318
TauI	GCSGC	2 cut(s)	195, 311
Tru1I	TTAA	2 cut(s)	786, 1071
Tru9I	TTAA	2 cut(s)	786, 1071
TscAI	CASTG	1 cut(s)	248
TseI	GCWGC	2 cut(s)	210, 1010
TspDTI	ATGAA	4 cut(s)	127, 271, 305, 374
TspGWI	ACGGA	2 cut(s)	56, 496
TspRI	CASTG	1 cut(s)	248
VneI	GTGCAC	1 cut(s)	477
VpaK11BI	GGWCC	1 cut(s)	364
XbaI	TCTAGA	1 cut(s)	106
XspI	CTAG	3 cut(s)	6, 107, 435

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