Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0007239

Physical Location & Seq

Genomic Coordinates Forward (+)

29772545 .. 29773371

Gene Structure 827 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG273900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGGTTTCTATGTATACCAAGCATGGGAAGAGCGAAGAAGCGCTGAAGGTGTTTTCGGAGTTCCATAGGCGTTCCGATGGGAGGCCGAATGAGTATACCTTACCTAGTGCTATTCGGGCTTGTACGCAATTTGGAGGGGTTGATCAAGGTGCCCAAGTGCATTGTTTTGTTGTTAAGACTGGTTTTGATCTGGAAGTCTTTGTGGGTACTTCTTTAATTGATTTTTATGTAAAAATGGGTGATATAGAAGAGGCGAGATTGATTTTTGATGGTTTAAAAGTTAAAAGTGCGGTTACTTGGACTATTGTTATAGCAGGGTATGCGAAAAGTGGAAGAAGTGAAGCGGCTTTGAAGTTGTTTTATCATATGAAAGACACTGATGTTCTTCCTGATAAATATGTGCTCTCTGCTCTTCTGACCGCATGTTCTGCCCTCAAGTTCATTGGAGGCGGCAAGCAAATTCATGCTCATGTGCTGAGAAGGGGAACAGAAATGGATGTTTCAGTGGTCAATGTACTAATAGATTTCTACACAAAGTGCGGTCAAGTCCAGGCAGGACATAAACTATTTGATAAGATGGTAGATAAGGACCTTATTTCATGGACCACAATGATAGCAGGGTACATGCAAAACTCGATGCACATGGAGGCCGTTAAGCTATTTTCTGAAATGACCAGAATGGGTTGGAAGGCAGATGGATATGGGTGCAGTAGCATTCTTACTTCATGTGGTTCACTTGAGGCTCTGAAACATGGGAGAGAAGTGCACGCTTATACTATCAGGTTTGATTGA

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

263

Amino Acids

29.3

Weight (kDa)

8.14

Isoelectric Point (pI)

37.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	96 - 142	1e-10	PPR repeat family
PPR	PF01535	98 - 125	4.1e-07	PPR repeat
PPR_2	PF13041	197 - 243	7e-09	PPR repeat family
PPR	PF01535	199 - 228	2e-07	PPR repeat

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

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Publication-ready

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Orthologous Genes (Group: OG0007239)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G39530
fragaria_vesca	FvH4_1g22400 FvH4_1g22550
malus_domestica	MD01G1019600.v1.1
prunus_persica	Prupe.6G172600_v2.0.a1
pyrus_communis	pycom01g04910
rosa_chinensis	RchiOBHm_Chr2g0116541
rosa_laevigata	RLG00000018286
rosa_multiflora	Rmu_sc0001287.1_g000020 Rmu_sc0001287.1_g000021 Rmu_sc0003255.1_g000001 Rmu_sc0003255.1_g000019 Rmu_sc0004191.1_g000031
rosa_roxburghii	Rroxscaffold_2G00127080 Rroxscaffold_2G00127100
rosa_rugosa	Rorug02G0207400 Rorug02G0207500
rosa_samantha	Rh2AG262400 Rh2BG273600 Rh2BG273900 Rh2BG274000 Rh2DG265300 Rh2DG270600 Rh2DG289100
rosa_wichuraiana	Rw2G020660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	149
AccI	GTMKAC	2 cut(s)	14, 95
AciI	CCGC	5 cut(s)	290, 344, 420, 450, 540
AcsI	RAATTY	1 cut(s)	459
AcuI	CTGAAG	1 cut(s)	65
AdeI	CACNNNGTG	1 cut(s)	537
AfaI	GTAC	4 cut(s)	124, 208, 516, 623
AfeI	AGCGCT	1 cut(s)	42
AfiI	CCNNNNNNNGG	2 cut(s)	24, 81
AgsI	TTSAA	1 cut(s)	352
AjnI	CCWGG	1 cut(s)	549
AluBI	AGCT	1 cut(s)	658
AluI	AGCT	1 cut(s)	658
Alw21I	GWGCWC	2 cut(s)	405, 768
Alw44I	GTGCAC	1 cut(s)	764
Aor51HI	AGCGCT	1 cut(s)	42
AoxI	GGCC	2 cut(s)	83, 648
ApaLI	GTGCAC	1 cut(s)	764
ApoI	RAATTY	1 cut(s)	459
AspLEI	GCGC	1 cut(s)	43
AspS9I	GGNCC	2 cut(s)	589, 603
AsuHPI	GGTGA	1 cut(s)	251
AvaII	GGWCC	2 cut(s)	589, 603
BaeGI	GKGCMC	2 cut(s)	154, 768
BanI	GGYRCC	1 cut(s)	149
Bbv12I	GWGCWC	2 cut(s)	405, 768
BccI	CCATC	4 cut(s)	71, 263, 571, 689
BceAI	ACGGC	1 cut(s)	635
BciT130I	CCWGG	1 cut(s)	551
BclI	TGATCA	1 cut(s)	142
BfaI	CTAG	1 cut(s)	105
BfoI	RGCGCY	1 cut(s)	44
BisI	GCNGC	2 cut(s)	345, 451
BlsI	GCNGC	2 cut(s)	346, 452
Bme1390I	CCNGG	1 cut(s)	551
Bme18I	GGWCC	2 cut(s)	589, 603
BmgT120I	GGNCC	2 cut(s)	589, 603
BmiI	GGNNCC	1 cut(s)	151
BmrFI	CCNGG	1 cut(s)	551
BmsI	GCATC	1 cut(s)	627
BpuEI	CTTGAG	2 cut(s)	419, 758
Bsc4I	CCNNNNNNNGG	2 cut(s)	24, 81
Bse1I	ACTGG	1 cut(s)	184
BseBI	CCWGG	1 cut(s)	551
BseGI	GGATG	1 cut(s)	502
BseLI	CCNNNNNNNGG	2 cut(s)	24, 81
BseMII	CTCAG	1 cut(s)	467
BseNI	ACTGG	1 cut(s)	184
BseSI	GKGCMC	2 cut(s)	154, 768
BsgI	GTGCAG	1 cut(s)	727
BshFI	GGCC	2 cut(s)	85, 650
BshNI	GGYRCC	1 cut(s)	149
BsiHKAI	GWGCWC	2 cut(s)	405, 768
BslI	CCNNNNNNNGG	2 cut(s)	24, 81
BsmI	GAATGC	1 cut(s)	714
BsnI	GGCC	2 cut(s)	85, 650
Bsp1286I	GDGCHC	3 cut(s)	154, 405, 768
Bsp143I	GATC	2 cut(s)	142, 187
BspACI	CCGC	5 cut(s)	290, 344, 420, 450, 540
BspANI	GGCC	2 cut(s)	85, 650
BspCNI	CTCAG	1 cut(s)	468
BspLI	GGNNCC	1 cut(s)	151
BspQI	GCTCTTC	2 cut(s)	23, 417
BspT107I	GGYRCC	1 cut(s)	149
BsrI	ACTGG	1 cut(s)	184
BssMI	GATC	2 cut(s)	142, 187
BssNAI	GTATAC	2 cut(s)	15, 96
Bst1107I	GTATAC	2 cut(s)	15, 96
Bst2UI	CCWGG	1 cut(s)	551
Bst6I	CTCTTC	3 cut(s)	23, 243, 417
BstAPI	GCANNNNNTGC	2 cut(s)	320, 428
BstC8I	GCNNGC	2 cut(s)	455, 768
BstDEI	CTNAG	1 cut(s)	476
BstF5I	GGATG	1 cut(s)	502
BstH2I	RGCGCY	1 cut(s)	44
BstHHI	GCGC	1 cut(s)	43
BstKTI	GATC	2 cut(s)	145, 190
BstMBI	GATC	2 cut(s)	142, 187
BstMWI	GCNNNNNNNGC	3 cut(s)	116, 320, 428
BstNI	CCWGG	1 cut(s)	551
BstNSI	RCATGY	2 cut(s)	426, 628
BstSCI	CCNGG	1 cut(s)	549
BstSLI	GKGCMC	2 cut(s)	154, 768
BstZ17I	GTATAC	2 cut(s)	15, 96
BsuRI	GGCC	2 cut(s)	85, 650
BtsCI	GGATG	1 cut(s)	502
BtsIMutI	CAGTG	2 cut(s)	375, 510
Cac8I	GCNNGC	2 cut(s)	455, 768
CfoI	GCGC	1 cut(s)	43
Cfr13I	GGNCC	2 cut(s)	589, 603
Csp6I	GTAC	4 cut(s)	123, 207, 515, 622
CviAII	CATG	9 cut(s)	23, 423, 464, 470, 600, 625, 643, 726, 752
CviJI	RGCY	6 cut(s)	85, 119, 347, 650, 658, 743
CviKI_1	RGCY	6 cut(s)	85, 119, 347, 650, 658, 743
CviQI	GTAC	4 cut(s)	123, 207, 515, 622
DdeI	CTNAG	1 cut(s)	476
DpnI	GATC	2 cut(s)	144, 189
DpnII	GATC	2 cut(s)	142, 187
DraI	TTTAAA	1 cut(s)	276
DraIII	CACNNNGTG	1 cut(s)	537
Eam1104I	CTCTTC	3 cut(s)	23, 243, 417
EarI	CTCTTC	3 cut(s)	23, 243, 417
Eco47I	GGWCC	2 cut(s)	589, 603
Eco47III	AGCGCT	1 cut(s)	42
Eco57I	CTGAAG	1 cut(s)	65
EcoO109I	RGGNCCY	1 cut(s)	589
EcoRII	CCWGG	1 cut(s)	549
FaeI	CATG	9 cut(s)	26, 426, 467, 473, 603, 628, 646, 729, 755
FatI	CATG	9 cut(s)	22, 422, 463, 469, 599, 624, 642, 725, 751
FauNDI	CATATG	1 cut(s)	366
FbaI	TGATCA	1 cut(s)	142
FblI	GTMKAC	2 cut(s)	14, 95
Fnu4HI	GCNGC	2 cut(s)	345, 451
FokI	GGATG	1 cut(s)	509
Fsp4HI	GCNGC	2 cut(s)	345, 451
FspBI	CTAG	1 cut(s)	105
GlaI	GCGC	1 cut(s)	42
GluI	GCNGC	2 cut(s)	345, 451
HaeII	RGCGCY	1 cut(s)	44
HaeIII	GGCC	2 cut(s)	85, 650
HhaI	GCGC	1 cut(s)	43
Hin1II	CATG	9 cut(s)	26, 426, 467, 473, 603, 628, 646, 729, 755
Hin6I	GCGC	1 cut(s)	41
HinP1I	GCGC	1 cut(s)	41
HphI	GGTGA	1 cut(s)	251
Hpy166II	GTNNAC	4 cut(s)	15, 96, 734, 766
Hpy188I	TCNGA	5 cut(s)	58, 76, 417, 667, 747
Hpy188III	TCNNGA	2 cut(s)	191, 389
Hpy8I	GTNNAC	4 cut(s)	15, 96, 734, 766
HpyAV	CCTTC	3 cut(s)	40, 474, 682
HpyCH4V	TGCA	5 cut(s)	160, 628, 640, 708, 766
HpyF10VI	GCNNNNNNNGC	3 cut(s)	116, 320, 428
HpyF3I	CTNAG	1 cut(s)	476
Hsp92II	CATG	9 cut(s)	26, 426, 467, 473, 603, 628, 646, 729, 755
HspAI	GCGC	1 cut(s)	41
Ksp22I	TGATCA	1 cut(s)	142
Kzo9I	GATC	2 cut(s)	142, 187
LguI	GCTCTTC	2 cut(s)	23, 417
LweI	GCATC	1 cut(s)	627
MaeI	CTAG	1 cut(s)	105
MaeIII	GTNAC	1 cut(s)	292
MalI	GATC	2 cut(s)	144, 189
MboI	GATC	2 cut(s)	142, 187
MboII	GAAGA	6 cut(s)	40, 47, 260, 345, 377, 404
MhlI	GDGCHC	3 cut(s)	154, 405, 768
MluCI	AATT	3 cut(s)	128, 216, 459
MmeI	TCCRAC	1 cut(s)	665
MnlI	CCTC	7 cut(s)	75, 128, 244, 440, 443, 640, 733
MseI	TTAA	5 cut(s)	174, 215, 275, 282, 654
MslI	CAYNNNNRTG	1 cut(s)	468
MspR9I	CCNGG	1 cut(s)	551
Mva1269I	GAATGC	1 cut(s)	714
MvaI	CCWGG	1 cut(s)	551
MwoI	GCNNNNNNNGC	3 cut(s)	116, 320, 428
NdeI	CATATG	1 cut(s)	366
NdeII	GATC	2 cut(s)	142, 187
NlaIII	CATG	9 cut(s)	26, 426, 467, 473, 603, 628, 646, 729, 755
NlaIV	GGNNCC	1 cut(s)	151
NspI	RCATGY	2 cut(s)	426, 628
PciSI	GCTCTTC	2 cut(s)	23, 417
PctI	GAATGC	1 cut(s)	714
PkrI	GCNGC	2 cut(s)	346, 452
PpuMI	RGGWCCY	1 cut(s)	589
Psp5II	RGGWCCY	1 cut(s)	589
Psp6I	CCWGG	1 cut(s)	549
PspGI	CCWGG	1 cut(s)	549
PspN4I	GGNNCC	1 cut(s)	151
PspPI	GGNCC	2 cut(s)	589, 603
PspPPI	RGGWCCY	1 cut(s)	589
RsaI	GTAC	4 cut(s)	124, 208, 516, 623
RsaNI	GTAC	4 cut(s)	123, 207, 515, 622
RseI	CAYNNNNRTG	1 cut(s)	468
SapI	GCTCTTC	2 cut(s)	23, 417
SaqAI	TTAA	5 cut(s)	174, 215, 275, 282, 654
SatI	GCNGC	2 cut(s)	345, 451
Sau3AI	GATC	2 cut(s)	142, 187
Sau96I	GGNCC	2 cut(s)	589, 603
ScrFI	CCNGG	1 cut(s)	551
SduI	GDGCHC	3 cut(s)	154, 405, 768
SetI	ASST	7 cut(s)	51, 101, 106, 151, 594, 660, 785
SfaNI	GCATC	1 cut(s)	627
SinI	GGWCC	2 cut(s)	589, 603
SmiMI	CAYNNNNRTG	1 cut(s)	468
SmlI	CTYRAG	2 cut(s)	434, 737
SmoI	CTYRAG	2 cut(s)	434, 737
Sse9I	AATT	3 cut(s)	128, 216, 459
SsiI	CCGC	5 cut(s)	290, 344, 420, 450, 540
SspMI	CTAG	1 cut(s)	105
StyD4I	CCNGG	1 cut(s)	549
TaqI	TCGA	1 cut(s)	635
TasI	AATT	3 cut(s)	128, 216, 459
TatI	WGTACW	1 cut(s)	514
TauI	GCSGC	2 cut(s)	347, 453
Tru1I	TTAA	5 cut(s)	174, 215, 275, 282, 654
Tru9I	TTAA	5 cut(s)	174, 215, 275, 282, 654
TscAI	CASTG	2 cut(s)	382, 510
TspDTI	ATGAA	5 cut(s)	383, 430, 452, 588, 714
TspRI	CASTG	2 cut(s)	382, 510
VneI	GTGCAC	1 cut(s)	764
VpaK11BI	GGWCC	2 cut(s)	589, 603
XapI	RAATTY	1 cut(s)	459
XceI	RCATGY	2 cut(s)	426, 628
XmiI	GTMKAC	2 cut(s)	14, 95
XspI	CTAG	1 cut(s)	105

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