Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0008101

Physical Location & Seq

Genomic Coordinates Forward (+)

436350 .. 437844

Gene Structure 1495 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG002600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 864 bp

ATGGGTTCTGCTGAAGATGCGCTAAAGCTGTTTGATGAAATGCCCAACAAGGACTTGGTCTCCCGGAATTCTTTGATTTCTGGGTTTCTGCGAAGAGGTGGAGCTGTTGATGAAGGAATGTACATTCATGGATTTGCACTGAAATTGGGTGTGCTGTGGGAACCAAAGCTTGTTAATTCTCCGATCAATCTTTATGGAAGGTCGGGCTATTTGGATGCAGTTTTTCGATTAGTTGAGACTATGCCGATACAGAATGTAGTGTCATGGAATTTAATGATTGCAGTTTACGCTCAGAATGGATCTGCGGCGGAGGGGTTGAATTGTTTTAATCTCATGAGAAGGGCTGGAGTTTATCCTGATGATGGCACTGTGATGTCTTTGCTTCAAGCTTGTGAGAGCTTAGGTTTAGGAACAGTAGCAGAGTGTCCATGGTTTAATTATCAATTGTGGTCTTACCGCAAATGTCAGAGTTGCAACTGGAGTTCTAGATTTGTATACGAAGTTGGGGAGACTAGATTATTCTCAAGGAGAAATTATATCATGCTATCAAATATGTACTCTGCAGCTGGTTCATGGAGGGATACTTCAAAGTCTCACCCCGAGTCAGATAGGATATATGCCAAGTTGGAAGAAGTGATTGAAAAGATCCGGAAGGCTGGATTTGTGTCTCAAACTGAATTGATTCTACATGATGTTGAAGAGGCAGTGAAAGAAGATATGATCAGTAAGCACAGTGAGAAATTAGCCATTGCATTTGGGCTTTTGGTAATTAATGCTGGCATGCCAATAATTATTACCAAGAACCTTCGAATCTGTGGTGACTGTCATGGCGCTGCAAAGTTTATATCATTGATTGAGAAGTGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

287

Amino Acids

32.17

Weight (kDa)

6.54

Isoelectric Point (pI)

47.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	85 - 131	1.4e-08	PPR repeat family
PPR	PF01535	87 - 117	9.4e-06	PPR repeat
DYW_deaminase	PF14432	220 - 285	5.9e-21	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: OG0008101)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G40410
fragaria_vesca	FvH4_2g00730
malus_domestica	MD05G1003000.v1.1 MD10G1003900.v1.1
prunus_persica	Prupe.8G006400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0251111
rosa_laevigata	RLG00000015483
rosa_multiflora	Rmu_co8188818.1_g000001 Rmu_co8231405.1_g000001 Rmu_sc0002219.1_g000009 Rmu_sc0002219.1_g000010 Rmu_sc0002219.1_g000016 Rmu_sc0002219.1_g000017 Rmu_sc0002960.1_g000013 Rmu_sc0011355.1_g000002
rosa_roxburghii	Rroxscaffold_7G00217030
rosa_rugosa	Rorug05G0500400 Rorug05G0500500
rosa_samantha	Rh6AG008600 Rh6AG008700 Rh6AG009100 Rh6BG002600 Rh6DG006400
rosa_wichuraiana	Rw6G000930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	495
AccIII	TCCGGA	1 cut(s)	648
AciI	CCGC	3 cut(s)	305, 308, 457
AclWI	GGATC	2 cut(s)	307, 640
AcsI	RAATTY	2 cut(s)	67, 268
AcuI	CTGAAG	1 cut(s)	33
AfaI	GTAC	2 cut(s)	122, 557
AfiI	CCNNNNNNNGG	1 cut(s)	362
AgsI	TTSAA	5 cut(s)	319, 386, 588, 641, 698
AluBI	AGCT	6 cut(s)	28, 104, 169, 389, 399, 566
AluI	AGCT	6 cut(s)	28, 104, 169, 389, 399, 566
Alw26I	GTCTC	5 cut(s)	64, 230, 503, 597, 672
AlwI	GGATC	2 cut(s)	307, 640
Ama87I	CYCGRG	1 cut(s)	599
Aor13HI	TCCGGA	1 cut(s)	648
ApeKI	GCWGC	2 cut(s)	563, 833
ApoI	RAATTY	2 cut(s)	67, 268
AseI	ATTAAT	1 cut(s)	771
Asp700I	GAANNNNTTC	1 cut(s)	681
AspLEI	GCGC	2 cut(s)	22, 833
AsuC2I	CCSGG	1 cut(s)	64
AsuHPI	GGTGA	2 cut(s)	587, 830
AsuII	TTCGAA	1 cut(s)	808
AvaI	CYCGRG	1 cut(s)	599
BbvI	GCAGC	2 cut(s)	575, 820
BccI	CCATC	1 cut(s)	356
BciVI	GTATCC	1 cut(s)	574
BclI	TGATCA	1 cut(s)	720
BcnI	CCSGG	1 cut(s)	64
BcoDI	GTCTC	5 cut(s)	64, 230, 503, 597, 672
BfaI	CTAG	2 cut(s)	486, 513
BfmI	CTRYAG	1 cut(s)	561
BfoI	RGCGCY	1 cut(s)	834
BfuI	GTATCC	1 cut(s)	574
BisI	GCNGC	3 cut(s)	306, 564, 834
BlsI	GCNGC	3 cut(s)	307, 565, 835
Bme1390I	CCNGG	1 cut(s)	64
BmeT110I	CYCGRG	1 cut(s)	599
BmiI	GGNNCC	1 cut(s)	162
BmrFI	CCNGG	1 cut(s)	64
BmsI	GCATC	2 cut(s)	7, 205
BpmI	CTGGAG	2 cut(s)	366, 499
Bpu10I	CCTNAGC	1 cut(s)	400
Bpu14I	TTCGAA	1 cut(s)	808
BpuEI	CTTGAG	1 cut(s)	508
BpuMI	CCSGG	1 cut(s)	64
BsaI	GGTCTC	1 cut(s)	64
BsaJI	CCNNGG	1 cut(s)	428
BsaWI	WCCGGW	1 cut(s)	648
BsaXI	ACNNNNNCTCC	2 cut(s)	44, 74
Bsc4I	CCNNNNNNNGG	1 cut(s)	362
Bse1I	ACTGG	1 cut(s)	482
Bse3DI	GCAATG	1 cut(s)	747
BseAI	TCCGGA	1 cut(s)	648
BseDI	CCNNGG	1 cut(s)	428
BseGI	GGATG	1 cut(s)	220
BseLI	CCNNNNNNNGG	1 cut(s)	362
BseMI	GCAATG	1 cut(s)	747
BseMII	CTCAG	1 cut(s)	305
BseNI	ACTGG	1 cut(s)	482
BseXI	GCAGC	2 cut(s)	575, 820
BsiHKCI	CYCGRG	1 cut(s)	599
BsiSI	CCGG	2 cut(s)	64, 649
BslI	CCNNNNNNNGG	1 cut(s)	362
BsmAI	GTCTC	5 cut(s)	64, 230, 503, 597, 672
Bso31I	GGTCTC	1 cut(s)	64
BsoBI	CYCGRG	1 cut(s)	599
Bsp119I	TTCGAA	1 cut(s)	808
Bsp13I	TCCGGA	1 cut(s)	648
Bsp1407I	TGTACA	1 cut(s)	120
Bsp143I	GATC	4 cut(s)	183, 299, 645, 720
Bsp19I	CCATGG	1 cut(s)	428
BspACI	CCGC	3 cut(s)	305, 308, 457
BspCNI	CTCAG	1 cut(s)	304
BspEI	TCCGGA	1 cut(s)	648
BspHI	TCATGA	1 cut(s)	333
BspLI	GGNNCC	1 cut(s)	162
BspMAI	CTGCAG	1 cut(s)	565
BspPI	GGATC	2 cut(s)	307, 640
BspT104I	TTCGAA	1 cut(s)	808
BspTNI	GGTCTC	1 cut(s)	64
BsrDI	GCAATG	1 cut(s)	747
BsrGI	TGTACA	1 cut(s)	120
BsrI	ACTGG	1 cut(s)	482
BssECI	CCNNGG	1 cut(s)	428
BssMI	GATC	4 cut(s)	183, 299, 645, 720
BssNAI	GTATAC	1 cut(s)	496
BssT1I	CCWWGG	1 cut(s)	428
Bst1107I	GTATAC	1 cut(s)	496
Bst4CI	ACNGT	4 cut(s)	370, 415, 734, 824
Bst6I	CTCTTC	2 cut(s)	88, 693
BstAUI	TGTACA	1 cut(s)	120
BstBI	TTCGAA	1 cut(s)	808
BstC8I	GCNNGC	2 cut(s)	778, 782
BstDEI	CTNAG	2 cut(s)	291, 400
BstDSI	CCRYGG	1 cut(s)	428
BstF5I	GGATG	1 cut(s)	220
BstH2I	RGCGCY	1 cut(s)	834
BstHHI	GCGC	2 cut(s)	22, 833
BstKTI	GATC	4 cut(s)	186, 302, 648, 723
BstMAI	GTCTC	5 cut(s)	64, 230, 503, 597, 672
BstMBI	GATC	4 cut(s)	183, 299, 645, 720
BstMWI	GCNNNNNNNGC	2 cut(s)	17, 287
BstNSI	RCATGY	1 cut(s)	784
BstSCI	CCNGG	1 cut(s)	62
BstSFI	CTRYAG	1 cut(s)	561
BstV1I	GCAGC	2 cut(s)	575, 820
BstX2I	RGATCY	2 cut(s)	299, 645
BstYI	RGATCY	2 cut(s)	299, 645
BstZ17I	GTATAC	1 cut(s)	496
BsuI	GTATCC	1 cut(s)	574
BtgI	CCRYGG	1 cut(s)	428
BtsCI	GGATG	1 cut(s)	220
BtsI	GCAGTG	1 cut(s)	711
BtsIMutI	CAGTG	4 cut(s)	137, 366, 711, 739
Cac8I	GCNNGC	2 cut(s)	778, 782
CciI	TCATGA	1 cut(s)	333
CfoI	GCGC	2 cut(s)	22, 833
Csp6I	GTAC	2 cut(s)	121, 556
CviAII	CATG	9 cut(s)	128, 264, 334, 429, 541, 573, 689, 781, 827
CviQI	GTAC	2 cut(s)	121, 556
DdeI	CTNAG	2 cut(s)	291, 400
DpnI	GATC	4 cut(s)	185, 301, 647, 722
DpnII	GATC	4 cut(s)	183, 299, 645, 720
Eam1104I	CTCTTC	2 cut(s)	88, 693
EarI	CTCTTC	2 cut(s)	88, 693
EciI	GGCGGA	1 cut(s)	323
Eco130I	CCWWGG	1 cut(s)	428
Eco31I	GGTCTC	1 cut(s)	64
Eco57I	CTGAAG	1 cut(s)	33
Eco88I	CYCGRG	1 cut(s)	599
EcoRI	GAATTC	1 cut(s)	67
EcoT14I	CCWWGG	1 cut(s)	428
ErhI	CCWWGG	1 cut(s)	428
FaeI	CATG	9 cut(s)	131, 267, 337, 432, 544, 576, 692, 784, 830
FatI	CATG	9 cut(s)	127, 263, 333, 428, 540, 572, 688, 780, 826
FbaI	TGATCA	1 cut(s)	720
FblI	GTMKAC	1 cut(s)	495
Fnu4HI	GCNGC	3 cut(s)	306, 564, 834
FokI	GGATG	1 cut(s)	227
Fsp4HI	GCNGC	3 cut(s)	306, 564, 834
FspBI	CTAG	2 cut(s)	486, 513
GlaI	GCGC	2 cut(s)	21, 832
GluI	GCNGC	3 cut(s)	306, 564, 834
GsuI	CTGGAG	2 cut(s)	366, 499
HaeII	RGCGCY	1 cut(s)	834
HapII	CCGG	2 cut(s)	64, 649
HhaI	GCGC	2 cut(s)	22, 833
Hin1II	CATG	9 cut(s)	131, 267, 337, 432, 544, 576, 692, 784, 830
Hin6I	GCGC	2 cut(s)	20, 831
HinP1I	GCGC	2 cut(s)	20, 831
HindIII	AAGCTT	2 cut(s)	167, 387
HinfI	GANTC	3 cut(s)	602, 682, 810
HpaII	CCGG	2 cut(s)	64, 649
HphI	GGTGA	2 cut(s)	587, 830
Hpy166II	GTNNAC	2 cut(s)	286, 496
Hpy188I	TCNGA	4 cut(s)	183, 294, 468, 607
Hpy188III	TCNNGA	4 cut(s)	334, 356, 486, 649
Hpy8I	GTNNAC	2 cut(s)	286, 496
HpyAV	CCTTC	5 cut(s)	107, 192, 333, 646, 815
HpyCH4III	ACNGT	4 cut(s)	370, 415, 734, 824
HpyCH4V	TGCA	7 cut(s)	137, 218, 281, 474, 563, 752, 836
HpyF10VI	GCNNNNNNNGC	2 cut(s)	17, 287
HpyF3I	CTNAG	2 cut(s)	291, 400
Hsp92II	CATG	9 cut(s)	131, 267, 337, 432, 544, 576, 692, 784, 830
HspAI	GCGC	2 cut(s)	20, 831
Kpn2I	TCCGGA	1 cut(s)	648
Ksp22I	TGATCA	1 cut(s)	720
Kzo9I	GATC	4 cut(s)	183, 299, 645, 720
LmnI	GCTCC	1 cut(s)	101
LpnPI	CCDG	9 cut(s)	66, 77, 330, 369, 463, 552, 642, 662, 762
Lsp1109I	GCAGC	2 cut(s)	575, 820
LweI	GCATC	2 cut(s)	7, 205
MaeI	CTAG	2 cut(s)	486, 513
MaeIII	GTNAC	1 cut(s)	818
MalI	GATC	4 cut(s)	185, 301, 647, 722
MboI	GATC	4 cut(s)	183, 299, 645, 720
MboII	GAAGA	5 cut(s)	26, 105, 641, 710, 725
MfeI	CAATTG	1 cut(s)	443
MflI	RGATCY	2 cut(s)	299, 645
MlyI	GAGTC	1 cut(s)	611
MmeI	TCCRAC	1 cut(s)	606
MnlI	CCTC	4 cut(s)	89, 304, 570, 694
MroI	TCCGGA	1 cut(s)	648
MroXI	GAANNNNTTC	1 cut(s)	681
MseI	TTAA	5 cut(s)	174, 272, 327, 435, 771
MslI	CAYNNNNRTG	1 cut(s)	371
MspA1I	CMGCKG	1 cut(s)	566
MspI	CCGG	2 cut(s)	64, 649
MspR9I	CCNGG	1 cut(s)	64
MunI	CAATTG	1 cut(s)	443
MwoI	GCNNNNNNNGC	2 cut(s)	17, 287
NciI	CCSGG	1 cut(s)	64
NcoI	CCATGG	1 cut(s)	428
NdeII	GATC	4 cut(s)	183, 299, 645, 720
NlaIII	CATG	9 cut(s)	131, 267, 337, 432, 544, 576, 692, 784, 830
NlaIV	GGNNCC	1 cut(s)	162
NmuCI	GTSAC	1 cut(s)	818
NspI	RCATGY	1 cut(s)	784
NspV	TTCGAA	1 cut(s)	808
PaeI	GCATGC	1 cut(s)	784
PagI	TCATGA	1 cut(s)	333
PdmI	GAANNNNTTC	1 cut(s)	681
PfeI	GAWTC	2 cut(s)	682, 810
PflFI	GACNNNGTC	1 cut(s)	56
PfoI	TCCNGGA	1 cut(s)	62
PkrI	GCNGC	3 cut(s)	307, 565, 835
PleI	GAGTC	1 cut(s)	610
PpsI	GAGTC	1 cut(s)	610
PshBI	ATTAAT	1 cut(s)	771
PspN4I	GGNNCC	1 cut(s)	162
PstI	CTGCAG	1 cut(s)	565
PsuI	RGATCY	2 cut(s)	299, 645
PsyI	GACNNNGTC	1 cut(s)	56
PvuII	CAGCTG	1 cut(s)	566
RsaI	GTAC	2 cut(s)	122, 557
RsaNI	GTAC	2 cut(s)	121, 556
RseI	CAYNNNNRTG	1 cut(s)	371
SaqAI	TTAA	5 cut(s)	174, 272, 327, 435, 771
SatI	GCNGC	3 cut(s)	306, 564, 834
Sau3AI	GATC	4 cut(s)	183, 299, 645, 720
SchI	GAGTC	1 cut(s)	611
ScrFI	CCNGG	1 cut(s)	64
SfaNI	GCATC	2 cut(s)	7, 205
SfcI	CTRYAG	1 cut(s)	561
SfuI	TTCGAA	1 cut(s)	808
SmiMI	CAYNNNNRTG	1 cut(s)	371
SmlI	CTYRAG	1 cut(s)	523
SmoI	CTYRAG	1 cut(s)	523
SphI	GCATGC	1 cut(s)	784
SsiI	CCGC	3 cut(s)	305, 308, 457
SspMI	CTAG	2 cut(s)	486, 513
StyD4I	CCNGG	1 cut(s)	62
StyI	CCWWGG	1 cut(s)	428
TaaI	ACNGT	4 cut(s)	370, 415, 734, 824
TaqI	TCGA	2 cut(s)	226, 808
TatI	WGTACW	2 cut(s)	120, 555
TauI	GCSGC	1 cut(s)	308
TfiI	GAWTC	2 cut(s)	682, 810
Tru1I	TTAA	5 cut(s)	174, 272, 327, 435, 771
Tru9I	TTAA	5 cut(s)	174, 272, 327, 435, 771
TscAI	CASTG	4 cut(s)	144, 373, 711, 739
TseFI	GTSAC	1 cut(s)	818
TseI	GCWGC	2 cut(s)	563, 833
Tsp45I	GTSAC	1 cut(s)	818
TspDTI	ATGAA	4 cut(s)	51, 116, 126, 561
TspRI	CASTG	4 cut(s)	144, 373, 711, 739
Tth111I	GACNNNGTC	1 cut(s)	56
VspI	ATTAAT	1 cut(s)	771
XapI	RAATTY	2 cut(s)	67, 268
XbaI	TCTAGA	1 cut(s)	485
XceI	RCATGY	1 cut(s)	784
XcmI	CCANNNNNNNNNTGG	1 cut(s)	52
XmiI	GTMKAC	1 cut(s)	495
XmnI	GAANNNNTTC	1 cut(s)	681
XspI	CTAG	2 cut(s)	486, 513

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