Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0015335

Physical Location & Seq

Genomic Coordinates Forward (+)

19755165 .. 19756301

Gene Structure 1137 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG219500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1137 bp

ATGGAATATTGTGGTGTTTGCCCTGATCCTGTGACGCTTGTTGGCGTTCTATCGTCGTGTACTCACCTTGGTGCGCATGGCGTTGGACGTGAGGTAGAAAGACGGATAGAGTCTAGTGGATTTGGTTCCAATCCGTATTTGAAAAATGCTCTGATCAATATGTACGCTAGGTGTGGTAATTTGGTGAAGGCTCATGCTATTTTTGATGTCATGCCTGAAAAAAGCTTAGTTTCTTGGACAGCGATTATCGGTGGGTATGGGATGCACGGACATGGAGAGATTGCATTGGAGCTCTTCGAGGAAATGATCGCGACTGGAATCAGGCCTGACAAAGCCATGTTTGTGACTGTTTTGTCTGCCTGTAGCCATGCAGGATTGACTGATGAGGGACTGGAGTGTTTTGCTGCAATGGAGAAAAACTATAGGTTGCAGCCTGGTCCAGAGCATTATTCTTGCATGGTGGATCTTTTAGGGCGCGCAGGTCGGCTTAAAGAAGCAAAAGAGCTAATTGACTCGATGCAGGTAAAGCCTGATGGTGGAGTATGGGGAGCCCTTTTGGGTGCCTGTAAAATACATAAAAATGTAGAACTAGCAGAGATAGCTTTTGAACATGTCATCGAGCTAGAACCAACTAATAGTGGTTATTATGTGTTGATGTCAAATATATACTCTGATGCAAATAATCTAGAAGGGGTTTTAAAGGTTCGGGTTATGATGAAGGAGAGGCAGCTCAAAAAGGAGCCAGGGTGTAGCTATGTTGAGTGTAAAGGAAGAGTTCATGTTTTCTTGGCTGGGGATAGAAGCCATTGTCAGACAGAAGATATATACAGCATATTGGAGGAGTTAGAAAATTTAGCCCGGGAACCTGGCGCGTCCAATGAGAATGAAGGAGAAAGAAACAAAGAGCAAGTAATTGGTGTTGGTGTTCACAGTGAAAAATTGGCAATTGCATTTGGGCTCTTGAACACTGAACCAGGGACTGAGATCGTAGTGATAAAGAACCTAAGGGTGTGTGGAGACTGCCACTTGTTTATCAAGTCGATTAGCAAGATTGTGGATCGTCAGTTTGTGGTCAGAGATGCTACTCGTTTTCACCATTTCAGAAATGGGATTTGTTCTTGTAAAGACTACTGGTGA

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:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016553 GO:0016554 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:0044444 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

378

Amino Acids

41.82

Weight (kDa)

5.86

Isoelectric Point (pI)

36.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	75 - 122	2.4e-08	PPR repeat family
PPR	PF01535	77 - 106	1.8e-06	PPR repeat
E_motif	PF20431	192 - 254	1.4e-20	E motif
DYW_deaminase	PF14432	301 - 378	2.3e-33	DYW family of nucleic acid deaminases

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: OG0015335)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G11460
fragaria_vesca	FvH4_6g19130
malus_domestica	MD14G1027300.v1.1
prunus_persica	Prupe.7G104400_v2.0.a1
pyrus_communis	pycom14g02600
rosa_chinensis	RchiOBHm_Chr3g0474241
rosa_laevigata	RLG00000023936 RLG00000023939
rosa_multiflora	Rmu_sc0004507.1_g000021 Rmu_sc0015051.1_g000006
rosa_roxburghii	Rroxscaffold_6G00407410
rosa_rugosa	Rorug03G0139800
rosa_samantha	Rh3AG190200 Rh3BG219500 Rh3DG215000
rosa_wichuraiana	Rw3G017350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	352
Acc16I	TGCGCA	1 cut(s)	75
Acc36I	ACCTGC	2 cut(s)	470, 511
AccB1I	GGYRCC	1 cut(s)	560
AccII	CGCG	3 cut(s)	311, 477, 872
AclWI	GGATC	3 cut(s)	20, 471, 1065
AcsI	RAATTY	1 cut(s)	850
AfaI	GTAC	2 cut(s)	61, 164
AfiI	CCNNNNNNNGG	1 cut(s)	536
AflIII	ACRYGT	1 cut(s)	610
AgsI	TTSAA	3 cut(s)	142, 608, 964
AjiI	CACGTC	1 cut(s)	89
AjnI	CCWGG	4 cut(s)	433, 742, 865, 973
AleI	CACNNNNGTG	1 cut(s)	69
AluBI	AGCT	7 cut(s)	225, 292, 505, 602, 622, 730, 753
AluI	AGCT	7 cut(s)	225, 292, 505, 602, 622, 730, 753
Alw21I	GWGCWC	1 cut(s)	294
Alw26I	GTCTC	1 cut(s)	1011
AlwI	GGATC	3 cut(s)	20, 471, 1065
AlwNI	CAGNNNCTG	1 cut(s)	980
Ama87I	CYCGRG	1 cut(s)	858
AoxI	GGCC	1 cut(s)	323
ApeKI	GCWGC	3 cut(s)	404, 430, 727
ApoI	RAATTY	1 cut(s)	850
AspLEI	GCGC	4 cut(s)	76, 477, 479, 872
AspS9I	GGNCC	1 cut(s)	437
AsuC2I	CCSGG	2 cut(s)	859, 860
AsuHPI	GGTGA	3 cut(s)	56, 196, 1085
AvaI	CYCGRG	1 cut(s)	858
AvaII	GGWCC	1 cut(s)	437
AxyI	CCTNAGG	1 cut(s)	1004
BanI	GGYRCC	1 cut(s)	560
BanII	GRGCYC	3 cut(s)	294, 553, 960
Bbv12I	GWGCWC	1 cut(s)	294
BbvI	GCAGC	3 cut(s)	391, 442, 739
BccI	CCATC	1 cut(s)	527
BciT130I	CCWGG	4 cut(s)	435, 744, 867, 975
BclI	TGATCA	1 cut(s)	153
BcnI	CCSGG	2 cut(s)	859, 860
BcoDI	GTCTC	1 cut(s)	1011
BfaI	CTAG	5 cut(s)	114, 168, 590, 623, 686
BfmI	CTRYAG	2 cut(s)	361, 421
BfuAI	ACCTGC	2 cut(s)	470, 511
BisI	GCNGC	3 cut(s)	405, 431, 728
BlsI	GCNGC	3 cut(s)	406, 432, 729
Bme1390I	CCNGG	6 cut(s)	435, 744, 859, 860, 867, 975
Bme18I	GGWCC	1 cut(s)	437
BmeT110I	CYCGRG	1 cut(s)	858
BmgBI	CACGTC	1 cut(s)	89
BmgT120I	GGNCC	1 cut(s)	437
BmiI	GGNNCC	5 cut(s)	127, 550, 562, 741, 864
BmrFI	CCNGG	6 cut(s)	435, 744, 859, 860, 867, 975
BmsI	GCATC	4 cut(s)	252, 507, 664, 1069
BpmI	CTGGAG	1 cut(s)	413
BpuMI	CCSGG	2 cut(s)	859, 860
BsaJI	CCNNGG	4 cut(s)	67, 743, 858, 974
BsaXI	ACNNNNNCTCC	2 cut(s)	731, 761
Bsc4I	CCNNNNNNNGG	1 cut(s)	536
Bse1I	ACTGG	3 cut(s)	319, 396, 1136
Bse21I	CCTNAGG	1 cut(s)	1004
Bse3DI	GCAATG	1 cut(s)	414
BseBI	CCWGG	4 cut(s)	435, 744, 867, 975
BseDI	CCNNGG	4 cut(s)	67, 743, 858, 974
BseGI	GGATG	1 cut(s)	267
BseLI	CCNNNNNNNGG	1 cut(s)	536
BseMI	GCAATG	1 cut(s)	414
BseMII	CTCAG	1 cut(s)	972
BseNI	ACTGG	3 cut(s)	319, 396, 1136
BsePI	GCGCGC	1 cut(s)	475
BseRI	GAGGAG	1 cut(s)	854
BseXI	GCAGC	3 cut(s)	391, 442, 739
BseYI	CCCAGC	1 cut(s)	791
Bsh1236I	CGCG	3 cut(s)	311, 477, 872
BshFI	GGCC	1 cut(s)	325
BshNI	GGYRCC	1 cut(s)	560
BsiHKAI	GWGCWC	1 cut(s)	294
BsiHKCI	CYCGRG	1 cut(s)	858
BsiSI	CCGG	1 cut(s)	859
BslFI	GGGAC	2 cut(s)	402, 991
BslI	CCNNNNNNNGG	1 cut(s)	536
BsmAI	GTCTC	1 cut(s)	1011
BsmFI	GGGAC	2 cut(s)	402, 991
BsnI	GGCC	1 cut(s)	325
BsoBI	CYCGRG	1 cut(s)	858
Bsp1286I	GDGCHC	3 cut(s)	294, 553, 960
Bsp143I	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
Bsp68I	TCGCGA	1 cut(s)	311
BspANI	GGCC	1 cut(s)	325
BspCNI	CTCAG	1 cut(s)	973
BspFNI	CGCG	3 cut(s)	311, 477, 872
BspLI	GGNNCC	5 cut(s)	127, 550, 562, 741, 864
BspMI	ACCTGC	2 cut(s)	470, 511
BspPI	GGATC	3 cut(s)	20, 471, 1065
BspQI	GCTCTTC	1 cut(s)	299
BspT107I	GGYRCC	1 cut(s)	560
BsrDI	GCAATG	1 cut(s)	414
BsrI	ACTGG	3 cut(s)	319, 396, 1136
BssECI	CCNNGG	4 cut(s)	67, 743, 858, 974
BssHII	GCGCGC	1 cut(s)	475
BssMI	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
BssT1I	CCWWGG	1 cut(s)	67
Bst2UI	CCWGG	4 cut(s)	435, 744, 867, 975
Bst4CI	ACNGT	2 cut(s)	349, 932
Bst6I	CTCTTC	2 cut(s)	299, 766
BstC8I	GCNNGC	1 cut(s)	477
BstDEI	CTNAG	3 cut(s)	226, 981, 1004
BstF5I	GGATG	1 cut(s)	267
BstFNI	CGCG	3 cut(s)	311, 477, 872
BstHHI	GCGC	4 cut(s)	76, 477, 479, 872
BstKTI	GATC	6 cut(s)	28, 156, 309, 466, 987, 1060
BstMAI	GTCTC	1 cut(s)	1011
BstMBI	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
BstMWI	GCNNNNNNNGC	2 cut(s)	526, 599
BstNI	CCWGG	4 cut(s)	435, 744, 867, 975
BstNSI	RCATGY	1 cut(s)	614
BstSCI	CCNGG	6 cut(s)	433, 742, 857, 858, 865, 973
BstSFI	CTRYAG	2 cut(s)	361, 421
BstUI	CGCG	3 cut(s)	311, 477, 872
BstV1I	GCAGC	3 cut(s)	391, 442, 739
BstX2I	RGATCY	1 cut(s)	463
BstYI	RGATCY	1 cut(s)	463
Bsu36I	CCTNAGG	1 cut(s)	1004
BsuRI	GGCC	1 cut(s)	325
BtrI	CACGTC	1 cut(s)	89
BtsCI	GGATG	1 cut(s)	267
BtsIMutI	CAGTG	2 cut(s)	937, 966
BtuMI	TCGCGA	1 cut(s)	311
BveI	ACCTGC	2 cut(s)	470, 511
Cac8I	GCNNGC	1 cut(s)	477
CaiI	CAGNNNCTG	1 cut(s)	980
CfoI	GCGC	4 cut(s)	76, 477, 479, 872
Cfr13I	GGNCC	1 cut(s)	437
Cfr9I	CCCGGG	1 cut(s)	858
CseI	GACGC	2 cut(s)	43, 861
Csp6I	GTAC	2 cut(s)	60, 163
CviAII	CATG	9 cut(s)	77, 194, 211, 272, 337, 368, 457, 611, 779
CviQI	GTAC	2 cut(s)	60, 163
DdeI	CTNAG	3 cut(s)	226, 981, 1004
DpnI	GATC	6 cut(s)	27, 155, 308, 465, 986, 1059
DpnII	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
DraI	TTTAAA	1 cut(s)	699
DrdI	GACNNNNNNGTC	1 cut(s)	352
DseDI	GACNNNNNNGTC	1 cut(s)	352
Eam1104I	CTCTTC	2 cut(s)	299, 766
EarI	CTCTTC	2 cut(s)	299, 766
Ecl136II	GAGCTC	1 cut(s)	292
Eco130I	CCWWGG	1 cut(s)	67
Eco147I	AGGCCT	1 cut(s)	325
Eco24I	GRGCYC	3 cut(s)	294, 553, 960
Eco47I	GGWCC	1 cut(s)	437
Eco53kI	GAGCTC	1 cut(s)	292
Eco81I	CCTNAGG	1 cut(s)	1004
Eco88I	CYCGRG	1 cut(s)	858
EcoICRI	GAGCTC	1 cut(s)	292
EcoRII	CCWGG	4 cut(s)	433, 742, 865, 973
EcoT14I	CCWWGG	1 cut(s)	67
EcoT38I	GRGCYC	3 cut(s)	294, 553, 960
ErhI	CCWWGG	1 cut(s)	67
FaeI	CATG	9 cut(s)	80, 197, 214, 275, 340, 371, 460, 614, 782
FaqI	GGGAC	2 cut(s)	402, 991
FatI	CATG	9 cut(s)	76, 193, 210, 271, 336, 367, 456, 610, 778
FbaI	TGATCA	1 cut(s)	153
Fnu4HI	GCNGC	3 cut(s)	405, 431, 728
FokI	GGATG	1 cut(s)	274
FriOI	GRGCYC	3 cut(s)	294, 553, 960
Fsp4HI	GCNGC	3 cut(s)	405, 431, 728
FspAI	RTGCGCAY	1 cut(s)	75
FspBI	CTAG	5 cut(s)	114, 168, 590, 623, 686
FspI	TGCGCA	1 cut(s)	75
GlaI	GCGC	4 cut(s)	75, 476, 478, 871
GluI	GCNGC	3 cut(s)	405, 431, 728
GsaI	CCCAGC	1 cut(s)	795
GsuI	CTGGAG	1 cut(s)	413
HaeIII	GGCC	1 cut(s)	325
HapII	CCGG	1 cut(s)	859
HgaI	GACGC	2 cut(s)	43, 861
HhaI	GCGC	4 cut(s)	76, 477, 479, 872
Hin1II	CATG	9 cut(s)	80, 197, 214, 275, 340, 371, 460, 614, 782
Hin6I	GCGC	4 cut(s)	74, 475, 477, 870
HinP1I	GCGC	4 cut(s)	74, 475, 477, 870
HindIII	AAGCTT	1 cut(s)	223
HinfI	GANTC	3 cut(s)	110, 318, 512
HpaII	CCGG	1 cut(s)	859
HphI	GGTGA	3 cut(s)	56, 196, 1085
Hpy166II	GTNNAC	2 cut(s)	60, 928
Hpy188I	TCNGA	5 cut(s)	153, 673, 813, 1076, 1103
Hpy188III	TCNNGA	4 cut(s)	310, 440, 686, 961
Hpy8I	GTNNAC	2 cut(s)	60, 928
Hpy99I	CGWCG	1 cut(s)	58
HpyAV	CCTTC	4 cut(s)	181, 683, 712, 881
HpyCH4III	ACNGT	2 cut(s)	349, 932
HpyCH4IV	ACGT	1 cut(s)	88
HpyCH4V	TGCA	9 cut(s)	265, 284, 371, 407, 430, 456, 520, 677, 950
HpyF10VI	GCNNNNNNNGC	2 cut(s)	526, 599
HpyF3I	CTNAG	3 cut(s)	226, 981, 1004
HpySE526I	ACGT	1 cut(s)	88
Hsp92II	CATG	9 cut(s)	80, 197, 214, 275, 340, 371, 460, 614, 782
HspAI	GCGC	4 cut(s)	74, 475, 477, 870
Ksp22I	TGATCA	1 cut(s)	153
Kzo9I	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
LguI	GCTCTTC	1 cut(s)	299
LmnI	GCTCC	3 cut(s)	289, 548, 739
Lsp1109I	GCAGC	3 cut(s)	391, 442, 739
LweI	GCATC	4 cut(s)	252, 507, 664, 1069
MaeI	CTAG	5 cut(s)	114, 168, 590, 623, 686
MaeII	ACGT	1 cut(s)	88
MaeIII	GTNAC	2 cut(s)	31, 343
MalI	GATC	6 cut(s)	27, 155, 308, 465, 986, 1059
MboI	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
MboII	GAAGA	3 cut(s)	286, 783, 830
MfeI	CAATTG	1 cut(s)	945
MflI	RGATCY	1 cut(s)	463
MhlI	GDGCHC	3 cut(s)	294, 553, 960
MluCI	AATT	6 cut(s)	178, 507, 850, 912, 938, 945
MlyI	GAGTC	2 cut(s)	119, 506
MmeI	TCCRAC	1 cut(s)	64
MnlI	CCTC	5 cut(s)	85, 292, 379, 717, 832
MseI	TTAA	2 cut(s)	489, 698
MslI	CAYNNNNRTG	4 cut(s)	69, 270, 341, 579
MspI	CCGG	1 cut(s)	859
MspR9I	CCNGG	6 cut(s)	435, 744, 859, 860, 867, 975
MunI	CAATTG	1 cut(s)	945
MvaI	CCWGG	4 cut(s)	435, 744, 867, 975
MvnI	CGCG	3 cut(s)	311, 477, 872
MwoI	GCNNNNNNNGC	2 cut(s)	526, 599
NciI	CCSGG	2 cut(s)	859, 860
NdeII	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
NlaIII	CATG	9 cut(s)	80, 197, 214, 275, 340, 371, 460, 614, 782
NlaIV	GGNNCC	5 cut(s)	127, 550, 562, 741, 864
NmuCI	GTSAC	2 cut(s)	31, 343
NruI	TCGCGA	1 cut(s)	311
NsbI	TGCGCA	1 cut(s)	75
NspI	RCATGY	1 cut(s)	614
OliI	CACNNNNGTG	1 cut(s)	69
PauI	GCGCGC	1 cut(s)	475
PceI	AGGCCT	1 cut(s)	325
PciI	ACATGT	1 cut(s)	610
PciSI	GCTCTTC	1 cut(s)	299
PfeI	GAWTC	1 cut(s)	318
PkrI	GCNGC	3 cut(s)	406, 432, 729
PleI	GAGTC	2 cut(s)	118, 506
PpsI	GAGTC	2 cut(s)	118, 506
PscI	ACATGT	1 cut(s)	610
Psp124BI	GAGCTC	1 cut(s)	294
Psp6I	CCWGG	4 cut(s)	433, 742, 865, 973
PspFI	CCCAGC	1 cut(s)	791
PspGI	CCWGG	4 cut(s)	433, 742, 865, 973
PspN4I	GGNNCC	5 cut(s)	127, 550, 562, 741, 864
PspPI	GGNCC	1 cut(s)	437
PstNI	CAGNNNCTG	1 cut(s)	980
PsuI	RGATCY	1 cut(s)	463
PteI	GCGCGC	1 cut(s)	475
RruI	TCGCGA	1 cut(s)	311
RsaI	GTAC	2 cut(s)	61, 164
RsaNI	GTAC	2 cut(s)	60, 163
RseI	CAYNNNNRTG	4 cut(s)	69, 270, 341, 579
SacI	GAGCTC	1 cut(s)	294
SapI	GCTCTTC	1 cut(s)	299
SaqAI	TTAA	2 cut(s)	489, 698
SatI	GCNGC	3 cut(s)	405, 431, 728
Sau3AI	GATC	6 cut(s)	25, 153, 306, 463, 984, 1057
Sau96I	GGNCC	1 cut(s)	437
SchI	GAGTC	2 cut(s)	119, 506
ScrFI	CCNGG	6 cut(s)	435, 744, 859, 860, 867, 975
SduI	GDGCHC	3 cut(s)	294, 553, 960
SfaNI	GCATC	4 cut(s)	252, 507, 664, 1069
SfcI	CTRYAG	2 cut(s)	361, 421
SinI	GGWCC	1 cut(s)	437
SmaI	CCCGGG	1 cut(s)	860
SmiMI	CAYNNNNRTG	4 cut(s)	69, 270, 341, 579
Sse9I	AATT	6 cut(s)	178, 507, 850, 912, 938, 945
SseBI	AGGCCT	1 cut(s)	325
SspI	AATATT	1 cut(s)	8
SspMI	CTAG	5 cut(s)	114, 168, 590, 623, 686
SstI	GAGCTC	1 cut(s)	294
StuI	AGGCCT	1 cut(s)	325
StyD4I	CCNGG	6 cut(s)	433, 742, 857, 858, 865, 973
StyI	CCWWGG	1 cut(s)	67
TaaI	ACNGT	2 cut(s)	349, 932
TaiI	ACGT	1 cut(s)	91
TaqI	TCGA	4 cut(s)	297, 515, 618, 1040
TasI	AATT	6 cut(s)	178, 507, 850, 912, 938, 945
TatI	WGTACW	1 cut(s)	59
TfiI	GAWTC	1 cut(s)	318
Tru1I	TTAA	2 cut(s)	489, 698
Tru9I	TTAA	2 cut(s)	489, 698
TscAI	CASTG	2 cut(s)	937, 973
TseFI	GTSAC	2 cut(s)	31, 343
TseI	GCWGC	3 cut(s)	404, 430, 727
Tsp45I	GTSAC	2 cut(s)	31, 343
TspDTI	ATGAA	3 cut(s)	731, 767, 900
TspGWI	ACGGA	3 cut(s)	118, 123, 282
TspMI	CCCGGG	1 cut(s)	858
TspRI	CASTG	2 cut(s)	937, 973
VpaK11BI	GGWCC	1 cut(s)	437
XapI	RAATTY	1 cut(s)	850
XbaI	TCTAGA	1 cut(s)	685
XceI	RCATGY	1 cut(s)	614
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1103
XmaI	CCCGGG	1 cut(s)	858
XspI	CTAG	5 cut(s)	114, 168, 590, 623, 686

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