Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0013080

Physical Location & Seq

Genomic Coordinates Reverse (-)

12168181 .. 12169395

Gene Structure 1215 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG067800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1215 bp

ATGCCCACGAATGGCTTCCTTTGCTCTCCTCAATCCATAACCAGCCTCATCAACATGTACTCCAAGTGCAACCAAATGGGTGATGCCGTCTCTACCTTTTACTATAAGTTCCATGATCACAATGAGTCATTGCCGGGTTCACAGCAAATGGGTTGGCTAAAAAATGGATTTGAATTCTATAAAAGAATGCGGTTGGCAGGTGTTGTGCCAGATAAGTTTACGTTTCCATGTGCTATCAGAGCTTGTTGTGGGGTACTGGAGGTTTTGAAGGTTCATCCCTTGGTGGTTAAACTTGGGTTGGAATTAGATGTATATGTTGGTAGTGCTTTGGTGAATACATATTTGAAATCTGTGTTAGTGGAGGAGGCACAGAAAGTGTTTGAGGAGTTGCCTCCTAGAGATGATGTGCTTTGGAATGAAATGGTTAATGGTTTTGCACAGATTGGATGTTTTGATGAGGCTTTGGTTGTCTTTAGGGTAATGGGTGAGGAAAGGGTTGAGCCTAGCAGGTTTACGGTAACTGGGGTATTGTCGATCTTCGCCATGATGGGAGATTTTGACAATGGGAGAGCAGTGCATGGGTTTGTTTTGAAAATGGCTTATGATTCACATTTTGAGGTTTCAAATGCATTGATCGACATGTATGGAAAATGCAAGCTTACAGAAGATGCATTAGATATTTTCGAGATGATGATTGATAAGTATATATATATATATATATATATATATATATATATATATTCTTGGAACTCAATTATAGCAGTGCATGAACTGTGTGGTTATCATGATGAAACTCTCAAGCTTTTGTATAGAATGTTAGGTGCTGGGGTTCTACCTGATCTGGTGACCATCACGATAGTTGTTCCAGCGTGCTCTTATCTAGCAGCTTTGATGTATGGTAGAGAGATTCATGGATATATGATTAAAAATGAGATTGGTAAGGATGTGAATAAGGAAGATGTTAACGATGTGCTAATGACCAATGCGATCATGGACATGTACACAAAATGTGGGAGCATGAGAAATGCTTATATGGTTTTTTATTTGATGAAATATAAGGATGTGGCGTCATGGAACATCATGATCATGGGTTATGGCATGCACGGCAATGCTAATGAGGCGTTGGATATGTTTTCTCGCACGTGTGGGGCACAGATTGAGGTTGATGAGGTCACTTTTGTTGGGGTTTTGTCTGCATGCAGGGTTAGTGAGTGA

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

404

Amino Acids

45.8

Weight (kDa)

5.08

Isoelectric Point (pI)

35.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	353 - 400	2.2e-06	PPR repeat family

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: OG0013080)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14730
malus_domestica	MD05G1289700.v1.1
prunus_persica	Prupe.4G076000_v2.0.a1
pyrus_communis	pycom05g26680
rosa_chinensis	RchiOBHm_Chr7g0219901
rosa_laevigata	RLG00000009523 RLG00000031996
rosa_multiflora	Rmu_sc0004521.1_g000007
rosa_roxburghii	Rroxscaffold_1G00063400
rosa_rugosa	Rorug05G0007900
rosa_samantha	Rh4BG067800 Rh4CG075700 Rh5AG101900 Rh5AG102300 Rh5BG098600 Rh5CG110800 Rh5DG097900
rosa_wichuraiana	Rw5G008930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	188
Acc36I	ACCTGC	2 cut(s)	188, 498
AciI	CCGC	1 cut(s)	190
AcsI	RAATTY	1 cut(s)	173
AcvI	CACGTG	1 cut(s)	1143
AcyI	GRCGYC	1 cut(s)	1067
AfaI	GTAC	3 cut(s)	59, 255, 1001
AfiI	CCNNNNNNNGG	1 cut(s)	11
AflIII	ACRYGT	4 cut(s)	54, 639, 996, 1142
AgsI	TTSAA	5 cut(s)	173, 268, 346, 592, 624
AluBI	AGCT	4 cut(s)	242, 658, 802, 887
AluI	AGCT	4 cut(s)	242, 658, 802, 887
Alw21I	GWGCWC	1 cut(s)	875
Alw26I	GTCTC	1 cut(s)	94
ApeKI	GCWGC	1 cut(s)	884
ApoI	RAATTY	1 cut(s)	173
Asp700I	GAANNNNTTC	1 cut(s)	14
AsuC2I	CCSGG	1 cut(s)	135
AsuHPI	GGTGA	4 cut(s)	92, 343, 497, 856
BaeGI	GKGCMC	1 cut(s)	1153
BbrPI	CACGTG	1 cut(s)	1143
Bbv12I	GWGCWC	1 cut(s)	875
BbvI	GCAGC	1 cut(s)	896
BccI	CCATC	2 cut(s)	541, 857
BceAI	ACGGC	2 cut(s)	71, 1120
BclI	TGATCA	2 cut(s)	115, 1083
BcnI	CCSGG	1 cut(s)	135
BcoDI	GTCTC	1 cut(s)	94
BfaI	CTAG	3 cut(s)	396, 504, 881
BfuAI	ACCTGC	2 cut(s)	188, 498
BisI	GCNGC	1 cut(s)	885
BlsI	GCNGC	1 cut(s)	886
Bme1390I	CCNGG	1 cut(s)	135
BmrFI	CCNGG	1 cut(s)	135
BmrI	ACTGGG	1 cut(s)	531
BmsI	GCATC	2 cut(s)	73, 658
BmuI	ACTGGG	1 cut(s)	531
BpmI	CTGGAG	1 cut(s)	278
BpuEI	CTTGAG	1 cut(s)	782
BpuMI	CCSGG	1 cut(s)	135
BsaAI	YACGTR	1 cut(s)	1143
BsaHI	GRCGYC	1 cut(s)	1067
BsaJI	CCNNGG	1 cut(s)	279
BsaXI	ACNNNNNCTCC	2 cut(s)	44, 74
Bsc4I	CCNNNNNNNGG	1 cut(s)	11
Bse1I	ACTGG	2 cut(s)	261, 526
Bse3DI	GCAATG	2 cut(s)	128, 1114
BseDI	CCNNGG	1 cut(s)	279
BseGI	GGATG	4 cut(s)	274, 452, 949, 1066
BseLI	CCNNNNNNNGG	1 cut(s)	11
BseMI	GCAATG	2 cut(s)	128, 1114
BseNI	ACTGG	2 cut(s)	261, 526
BseRI	GAGGAG	3 cut(s)	18, 377, 398
BseSI	GKGCMC	1 cut(s)	1153
BseXI	GCAGC	1 cut(s)	896
BseYI	CCCAGC	1 cut(s)	824
BsiHKAI	GWGCWC	1 cut(s)	875
BsiSI	CCGG	1 cut(s)	134
BslI	CCNNNNNNNGG	1 cut(s)	11
BsmAI	GTCTC	1 cut(s)	94
BsmBI	CGTCTC	1 cut(s)	94
BsmI	GAATGC	1 cut(s)	192
Bsp1286I	GDGCHC	2 cut(s)	875, 1153
Bsp1407I	TGTACA	1 cut(s)	999
Bsp143I	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
BspACI	CCGC	1 cut(s)	190
BspHI	TCATGA	2 cut(s)	784, 1080
BspMI	ACCTGC	2 cut(s)	188, 498
BsrDI	GCAATG	2 cut(s)	128, 1114
BsrGI	TGTACA	1 cut(s)	999
BsrI	ACTGG	2 cut(s)	261, 526
BssECI	CCNNGG	1 cut(s)	279
BssMI	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
BssNI	GRCGYC	1 cut(s)	1067
BssT1I	CCWWGG	1 cut(s)	279
Bst4CI	ACNGT	2 cut(s)	517, 774
BstACI	GRCGYC	1 cut(s)	1067
BstAUI	TGTACA	1 cut(s)	999
BstBAI	YACGTR	1 cut(s)	1143
BstC8I	GCNNGC	4 cut(s)	656, 871, 1100, 1198
BstEII	GGTNACC	1 cut(s)	844
BstF5I	GGATG	4 cut(s)	274, 452, 949, 1066
BstKTI	GATC	6 cut(s)	118, 537, 636, 841, 990, 1086
BstMAI	GTCTC	1 cut(s)	94
BstMBI	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
BstMWI	GCNNNNNNNGC	4 cut(s)	21, 239, 1104, 1118
BstNSI	RCATGY	5 cut(s)	58, 643, 1000, 1102, 1200
BstPI	GGTNACC	1 cut(s)	844
BstSCI	CCNGG	1 cut(s)	133
BstSLI	GKGCMC	1 cut(s)	1153
BstV1I	GCAGC	1 cut(s)	896
BtsCI	GGATG	4 cut(s)	274, 452, 949, 1066
BtsI	GCAGTG	2 cut(s)	579, 768
BtsIMutI	CAGTG	2 cut(s)	579, 768
BveI	ACCTGC	2 cut(s)	188, 498
Cac8I	GCNNGC	4 cut(s)	656, 871, 1100, 1198
CciI	TCATGA	2 cut(s)	784, 1080
CseI	GACGC	1 cut(s)	1056
Csp6I	GTAC	3 cut(s)	58, 254, 1000
CviQI	GTAC	3 cut(s)	58, 254, 1000
DpnI	GATC	6 cut(s)	117, 536, 635, 840, 989, 1085
DpnII	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
Eco130I	CCWWGG	1 cut(s)	279
Eco72I	CACGTG	1 cut(s)	1143
Eco91I	GGTNACC	1 cut(s)	844
EcoO65I	GGTNACC	1 cut(s)	844
EcoRI	GAATTC	1 cut(s)	173
EcoT14I	CCWWGG	1 cut(s)	279
EcoT22I	ATGCAT	2 cut(s)	631, 673
ErhI	CCWWGG	1 cut(s)	279
Esp3I	CGTCTC	1 cut(s)	94
FbaI	TGATCA	2 cut(s)	115, 1083
Fnu4HI	GCNGC	1 cut(s)	885
FokI	GGATG	4 cut(s)	261, 459, 956, 1073
Fsp4HI	GCNGC	1 cut(s)	885
FspBI	CTAG	3 cut(s)	396, 504, 881
GluI	GCNGC	1 cut(s)	885
GsaI	CCCAGC	1 cut(s)	828
GsuI	CTGGAG	1 cut(s)	278
HapII	CCGG	1 cut(s)	134
HgaI	GACGC	1 cut(s)	1056
Hin1I	GRCGYC	1 cut(s)	1067
HincII	GTYRAC	1 cut(s)	964
HindII	GTYRAC	1 cut(s)	964
HindIII	AAGCTT	2 cut(s)	656, 800
HinfI	GANTC	3 cut(s)	125, 605, 907
HpaI	GTTAAC	1 cut(s)	964
HpaII	CCGG	1 cut(s)	134
HphI	GGTGA	4 cut(s)	92, 343, 497, 856
Hpy166II	GTNNAC	5 cut(s)	140, 219, 513, 964, 1002
Hpy188I	TCNGA	1 cut(s)	239
Hpy188III	TCNNGA	4 cut(s)	685, 785, 853, 1081
Hpy8I	GTNNAC	5 cut(s)	140, 219, 513, 964, 1002
HpyAV	CCTTC	1 cut(s)	262
HpyCH4III	ACNGT	2 cut(s)	517, 774
HpyCH4IV	ACGT	2 cut(s)	221, 1142
HpyF10VI	GCNNNNNNNGC	4 cut(s)	21, 239, 1104, 1118
HpySE526I	ACGT	2 cut(s)	221, 1142
Hsp92I	GRCGYC	1 cut(s)	1067
Ksp22I	TGATCA	2 cut(s)	115, 1083
KspAI	GTTAAC	1 cut(s)	964
Kzo9I	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
LmnI	GCTCC	1 cut(s)	1014
Lsp1109I	GCAGC	1 cut(s)	896
LweI	GCATC	2 cut(s)	73, 658
MaeI	CTAG	3 cut(s)	396, 504, 881
MaeII	ACGT	2 cut(s)	221, 1142
MaeIII	GTNAC	3 cut(s)	517, 844, 1171
MalI	GATC	6 cut(s)	117, 536, 635, 840, 989, 1085
MboI	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
MboII	GAAGA	3 cut(s)	529, 677, 968
MhlI	GDGCHC	2 cut(s)	875, 1153
MluCI	AATT	3 cut(s)	173, 302, 753
MlyI	GAGTC	1 cut(s)	134
MmeI	TCCRAC	2 cut(s)	279, 1104
Mph1103I	ATGCAT	2 cut(s)	631, 673
MroXI	GAANNNNTTC	1 cut(s)	14
MseI	TTAA	4 cut(s)	288, 426, 924, 963
MslI	CAYNNNNRTG	4 cut(s)	53, 995, 1085, 1107
MspI	CCGG	1 cut(s)	134
MspR9I	CCNGG	1 cut(s)	135
Mva1269I	GAATGC	1 cut(s)	192
MwoI	GCNNNNNNNGC	4 cut(s)	21, 239, 1104, 1118
NciI	CCSGG	1 cut(s)	135
NdeII	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
NmuCI	GTSAC	2 cut(s)	844, 1171
NsiI	ATGCAT	2 cut(s)	631, 673
NspI	RCATGY	5 cut(s)	58, 643, 1000, 1102, 1200
PaeI	GCATGC	2 cut(s)	1102, 1200
PagI	TCATGA	2 cut(s)	784, 1080
PaqCI	CACCTGC	1 cut(s)	188
PciI	ACATGT	3 cut(s)	54, 639, 996
PctI	GAATGC	1 cut(s)	192
PdmI	GAANNNNTTC	1 cut(s)	14
PfeI	GAWTC	2 cut(s)	605, 907
PkrI	GCNGC	1 cut(s)	886
PleI	GAGTC	1 cut(s)	133
PmaCI	CACGTG	1 cut(s)	1143
PmlI	CACGTG	1 cut(s)	1143
PpsI	GAGTC	1 cut(s)	133
Ppu21I	YACGTR	1 cut(s)	1143
PscI	ACATGT	3 cut(s)	54, 639, 996
PspCI	CACGTG	1 cut(s)	1143
PspEI	GGTNACC	1 cut(s)	844
PspFI	CCCAGC	1 cut(s)	824
RsaI	GTAC	3 cut(s)	59, 255, 1001
RsaNI	GTAC	3 cut(s)	58, 254, 1000
RseI	CAYNNNNRTG	4 cut(s)	53, 995, 1085, 1107
SaqAI	TTAA	4 cut(s)	288, 426, 924, 963
SatI	GCNGC	1 cut(s)	885
Sau3AI	GATC	6 cut(s)	115, 534, 633, 838, 987, 1083
SchI	GAGTC	1 cut(s)	134
ScrFI	CCNGG	1 cut(s)	135
SduI	GDGCHC	2 cut(s)	875, 1153
SfaNI	GCATC	2 cut(s)	73, 658
SmiMI	CAYNNNNRTG	4 cut(s)	53, 995, 1085, 1107
SmlI	CTYRAG	1 cut(s)	797
SmoI	CTYRAG	1 cut(s)	797
SphI	GCATGC	2 cut(s)	1102, 1200
Sse9I	AATT	3 cut(s)	173, 302, 753
SsiI	CCGC	1 cut(s)	190
SspMI	CTAG	3 cut(s)	396, 504, 881
StyD4I	CCNGG	1 cut(s)	133
StyI	CCWWGG	1 cut(s)	279
TaaI	ACNGT	2 cut(s)	517, 774
TaiI	ACGT	2 cut(s)	224, 1145
TaqI	TCGA	3 cut(s)	533, 636, 684
TasI	AATT	3 cut(s)	173, 302, 753
TatI	WGTACW	2 cut(s)	57, 999
TfiI	GAWTC	2 cut(s)	605, 907
Tru1I	TTAA	4 cut(s)	288, 426, 924, 963
Tru9I	TTAA	4 cut(s)	288, 426, 924, 963
TscAI	CASTG	2 cut(s)	579, 768
TseFI	GTSAC	2 cut(s)	844, 1171
TseI	GCWGC	1 cut(s)	884
Tsp45I	GTSAC	2 cut(s)	844, 1171
TspDTI	ATGAA	6 cut(s)	263, 432, 783, 804, 899, 1064
TspRI	CASTG	2 cut(s)	579, 768
XapI	RAATTY	1 cut(s)	173
XceI	RCATGY	5 cut(s)	58, 643, 1000, 1102, 1200
XcmI	CCANNNNNNNNNTGG	1 cut(s)	988
XmnI	GAANNNNTTC	1 cut(s)	14
XspI	CTAG	3 cut(s)	396, 504, 881
Zsp2I	ATGCAT	2 cut(s)	631, 673

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