Basic Information

Type: Sequence Only

Biological Identity

Species

rosa_samantha

Chromosome

Unknown

Orthogroup ID

OG0003353

Physical Location & Seq

Genomic Coordinates Reverse (-)

0 .. 0

Gene Structure 1 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG141000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1521 bp

ATGAGAACCTTAAGGAGATACAAGGAAGGATTGTTTAACAGTAGCACAGCTCAGATATATTGTAGAAAATTCTCAGCCATTGGCAATGCTAAAGCTGATAGACCCAGAGACCAAGAATGCCTTGTTTGGTGTGGCACAAGTGCCACTCATATATCGCTTTTGCATCAAATCTTGCAAAGCAGTGCAAGAACAGGTGCACCTATGGAAGGAAAGGCCTGCCATGCACAGAGTATTTGTGTTGGATTACAATCGGACACTTTAACGTCTAACATGCTTATTAACATGTATTCAAAATGTGGCTTACATAATTGCGCTAGAAAAGTATTTGATGAAATGCCTGAAAGGAGCTTAGTTTCATGGAATACTATGATTGGGTCACTTGCCCGGAATGGGGAGGAACAAGAAGCTCTCAGTGTTTTCGTACGTATGCAAAGAGAAGAAAACCAATTTAGTGAATTCACTGTTTCAAGTGTTCTTTTCGCTTGTGCTGCGAAATGTGCTGTGTCTGAGTGTAAACAGCTTCATGCTTTTGCTATTAAGGTAGCAATGGTTTTGAATGTCTATGTGGGGACTGCATTGCTTGACGTTTATTCAAAGGCTGGATTGATAAAGGACGCAAGTTTTGTTTTTGAGTCGATGCCAGAGAGGAGTGATGTCACGTGGAGTTCAATGGTTGCTGGGTATGCGCAAAATGGGCTCTATGAAGAGGCTTTGGTGTTGCTCCACAGAGCTCAAATGATAGGACTAGAACATAACCAGTTTACAATCTCTTCTGCTATTTGTGCTTGTGCAGGTCTGGCAGCTTTGATAGAAGGGAAGCAGGTGCATGCCTTGTTGTTTAAAACTGGATTTGGTTTAAATATCTATATCGTTTCCTCTCTGATAGACATGTATTCAAAATGTGGTAGCATTGGAGAAGCATACACCGTGTTTCAAGGTATGGAGGACAGGAACACTATTTTGTGGAATGCCATGATTTCTGGGTTTTCTAGACATGCTTGCTCCCTAGAGGTGATGATCTTATTTGAGAAAATGCAGCAGGCAGCAAATAATAAGTGGGAGGAGGTTGCAAGAACAAGGAAGCTTCTTAAAGAAAGTGAGTTGAAGAAGGAAAGAGGGAAGAGTTGGATTGAAATCAAGGACAAAGTTCACTCATTTATGGTCGGAGAGAGAAAACATCCTAGAATTGCTGAGATATACTCTAAGTTAGACCAATTGGTGGAAAAATTAAGGATGATGGGTTACAAGGCTGAGATTGAACATGATCTTCATTATGTCGAAGAGAGCAGAAAACATGAACTTCTGAGGCACCATAGTGAAAAACTTGCTCTTACTTTTGGGTTGATGTGCTTACCCTCCAATGCACCTATCAGGATCATGAAGAATCTTAGAATTTGTGGGGATTGTCATTCTTTTATGAAGATCGCATCAAGTTGTTTGGGGAGGGAAATCATTGTCAGGGATACTAAAAGGTTTCACCATTTCAAAAATGCTTTTTGCTCTTGTCAGGAATTTTGGTGA

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:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 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: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

506

Amino Acids

57.25

Weight (kDa)

8.64

Isoelectric Point (pI)

46.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	116 - 163	9.8e-07	PPR repeat family
PPR	PF01535	118 - 146	5e-07	PPR repeat
DYW_deaminase	PF14432	414 - 506	2.5e-36	DYW family of nucleic acid deaminases

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G04780
fragaria_vesca	FvH4_7g02270
malus_domestica	MD05G1362900.v1.1 MD05G1363000.v1.1 MD10G1340500.v1.1
prunus_persica	Prupe.2G071000_v2.0.a1 Prupe.2G073400_v2.0.a1
pyrus_communis	pycom05g32940 pycom10g29030
rosa_chinensis	RchiOBHm_Chr1g0319571 RchiOBHm_Chr6g0267541 RchiOBHm_Chr7g0197341
rosa_laevigata	RLG00000030470
rosa_multiflora	Rmu_sc0001522.1_g000010 Rmu_sc0002539.1_g000062 Rmu_sc0031493.1_g000001
rosa_roxburghii	Rroxscaffold_4G00284250 Rroxscaffold_4G00328280 Rroxscaffold_7G00200640
rosa_rugosa	Rorug01G0028300 Rorug01G0028400 Rorug01G0028500 Rorug01G0028600 Rorug06G0033600 Rorug06G0033600
rosa_samantha	Rh1AG040400 Rh1BG037600 Rh1CG041600 Rh1DG028300 Rh6AG155100 Rh6BG155700 Rh6CG150900 Rh6DG141000
rosa_wichuraiana	Rw0G012790 Rw1G003340 Rw6G013310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	811
Acc16I	TGCGCA	1 cut(s)	687
Acc36I	ACCTGC	2 cut(s)	782, 811
AccB1I	GGYRCC	1 cut(s)	1308
AccB7I	CCANNNNNTGG	1 cut(s)	1219
AclWI	GGATC	1 cut(s)	1382
AcsI	RAATTY	4 cut(s)	68, 455, 1392, 1511
AcvI	CACGTG	1 cut(s)	660
AfaI	GTAC	1 cut(s)	423
AfiI	CCNNNNNNNGG	4 cut(s)	206, 390, 391, 1219
AflII	CTTAAG	1 cut(s)	10
AflIII	ACRYGT	2 cut(s)	282, 888
AleI	CACNNNNGTG	1 cut(s)	1314
AluBI	AGCT	8 cut(s)	50, 95, 348, 407, 520, 731, 803, 1084
AluI	AGCT	8 cut(s)	50, 95, 348, 407, 520, 731, 803, 1084
Alw21I	GWGCWC	2 cut(s)	199, 733
Alw26I	GTCTC	1 cut(s)	102
Alw44I	GTGCAC	1 cut(s)	195
AlwI	GGATC	1 cut(s)	1382
AoxI	GGCC	1 cut(s)	213
ApaLI	GTGCAC	1 cut(s)	195
ApeKI	GCWGC	4 cut(s)	488, 800, 1036, 1043
ApoI	RAATTY	4 cut(s)	68, 455, 1392, 1511
ArsI	GACNNNNNNTTYG	2 cut(s)	605, 637
AspLEI	GCGC	2 cut(s)	314, 688
AsuC2I	CCSGG	1 cut(s)	385
AsuHPI	GGTGA	2 cut(s)	1024, 1469
BaeGI	GKGCMC	1 cut(s)	199
BanI	GGYRCC	1 cut(s)	1308
BanII	GRGCYC	2 cut(s)	699, 733
BbrPI	CACGTG	1 cut(s)	660
Bbv12I	GWGCWC	2 cut(s)	199, 733
BbvI	GCAGC	4 cut(s)	475, 812, 1048, 1055
BccI	CCATC	1 cut(s)	1231
BciVI	GTATCC	1 cut(s)	1456
BcnI	CCSGG	1 cut(s)	385
BcoDI	GTCTC	1 cut(s)	102
BfaI	CTAG	5 cut(s)	315, 746, 990, 1007, 1182
BfrI	CTTAAG	1 cut(s)	10
BfuAI	ACCTGC	2 cut(s)	782, 811
BfuI	GTATCC	1 cut(s)	1456
BisI	GCNGC	4 cut(s)	489, 801, 1037, 1044
BlsI	GCNGC	4 cut(s)	490, 802, 1038, 1045
Bme1390I	CCNGG	1 cut(s)	385
BmiI	GGNNCC	1 cut(s)	1310
BmrFI	CCNGG	1 cut(s)	385
BmsI	GCATC	3 cut(s)	172, 627, 1436
BplI	GAGNNNNNCTC	2 cut(s)	1184, 1216
BpuMI	CCSGG	1 cut(s)	385
BsaAI	YACGTR	2 cut(s)	425, 660
BsaBI	GATNNNNATC	2 cut(s)	247, 1133
BsaI	GGTCTC	1 cut(s)	102
Bsc4I	CCNNNNNNNGG	4 cut(s)	206, 390, 391, 1219
Bse1I	ACTGG	2 cut(s)	757, 850
Bse3DI	GCAATG	3 cut(s)	91, 552, 575
Bse8I	GATNNNNATC	2 cut(s)	247, 1133
BseGI	GGATG	2 cut(s)	1177, 1239
BseJI	GATNNNNATC	2 cut(s)	247, 1133
BseLI	CCNNNNNNNGG	4 cut(s)	206, 390, 391, 1219
BseMI	GCAATG	3 cut(s)	91, 552, 575
BseMII	CTCAG	7 cut(s)	65, 87, 424, 498, 1182, 1242, 1295
BseNI	ACTGG	2 cut(s)	757, 850
BseRI	GAGGAG	2 cut(s)	661, 1076
BseSI	GKGCMC	1 cut(s)	199
BseXI	GCAGC	4 cut(s)	475, 812, 1048, 1055
BseYI	CCCAGC	1 cut(s)	677
BsgI	GTGCAG	1 cut(s)	810
BshFI	GGCC	1 cut(s)	215
BshNI	GGYRCC	1 cut(s)	1308
BsiHKAI	GWGCWC	2 cut(s)	199, 733
BsiSI	CCGG	1 cut(s)	385
BsiWI	CGTACG	1 cut(s)	421
BslFI	GGGAC	1 cut(s)	583
BslI	CCNNNNNNNGG	4 cut(s)	206, 390, 391, 1219
BsmAI	GTCTC	1 cut(s)	102
BsmFI	GGGAC	1 cut(s)	583
BsmI	GAATGC	2 cut(s)	122, 973
BsnI	GGCC	1 cut(s)	215
Bso31I	GGTCTC	1 cut(s)	102
Bsp1286I	GDGCHC	3 cut(s)	199, 699, 733
Bsp143I	GATC	4 cut(s)	1017, 1264, 1374, 1422
BspANI	GGCC	1 cut(s)	215
BspCNI	CTCAG	7 cut(s)	64, 86, 423, 499, 1183, 1243, 1296
BspHI	TCATGA	1 cut(s)	1377
BspLI	GGNNCC	1 cut(s)	1310
BspMI	ACCTGC	2 cut(s)	782, 811
BspPI	GGATC	1 cut(s)	1382
BspT107I	GGYRCC	1 cut(s)	1308
BspTI	CTTAAG	1 cut(s)	10
BspTNI	GGTCTC	1 cut(s)	102
BsrDI	GCAATG	3 cut(s)	91, 552, 575
BsrI	ACTGG	2 cut(s)	757, 850
BssMI	GATC	4 cut(s)	1017, 1264, 1374, 1422
Bst4CI	ACNGT	3 cut(s)	41, 463, 928
Bst6I	CTCTTC	4 cut(s)	699, 775, 1115, 1275
BstAFI	CTTAAG	1 cut(s)	10
BstBAI	YACGTR	2 cut(s)	425, 660
BstC8I	GCNNGC	4 cut(s)	217, 828, 1000, 1041
BstENI	CCTNNNNNAGG	1 cut(s)	204
BstF5I	GGATG	2 cut(s)	1177, 1239
BstHHI	GCGC	2 cut(s)	314, 688
BstKTI	GATC	4 cut(s)	1020, 1267, 1377, 1425
BstMAI	GTCTC	1 cut(s)	102
BstMBI	GATC	4 cut(s)	1017, 1264, 1374, 1422
BstMWI	GCNNNNNNNGC	7 cut(s)	221, 488, 497, 683, 694, 782, 797
BstNSI	RCATGY	5 cut(s)	274, 286, 830, 892, 998
BstSCI	CCNGG	1 cut(s)	383
BstSLI	GKGCMC	1 cut(s)	199
BstSNI	TACGTA	1 cut(s)	425
BstV1I	GCAGC	4 cut(s)	475, 812, 1048, 1055
BsuI	GTATCC	1 cut(s)	1456
BsuRI	GGCC	1 cut(s)	215
BtsCI	GGATG	2 cut(s)	1177, 1239
BtsI	GCAGTG	1 cut(s)	187
BtsIMutI	CAGTG	3 cut(s)	187, 418, 459
BveI	ACCTGC	2 cut(s)	782, 811
Cac8I	GCNNGC	4 cut(s)	217, 828, 1000, 1041
CciI	TCATGA	1 cut(s)	1377
CfoI	GCGC	2 cut(s)	314, 688
CseI	GACGC	1 cut(s)	623
Csp6I	GTAC	1 cut(s)	422
CviQI	GTAC	1 cut(s)	422
DpnI	GATC	4 cut(s)	1019, 1266, 1376, 1424
DpnII	GATC	4 cut(s)	1017, 1264, 1374, 1422
DraI	TTTAAA	2 cut(s)	841, 858
Eam1104I	CTCTTC	4 cut(s)	699, 775, 1115, 1275
EarI	CTCTTC	4 cut(s)	699, 775, 1115, 1275
Ecl136II	GAGCTC	1 cut(s)	731
Eco105I	TACGTA	1 cut(s)	425
Eco147I	AGGCCT	1 cut(s)	215
Eco24I	GRGCYC	2 cut(s)	699, 733
Eco31I	GGTCTC	1 cut(s)	102
Eco53kI	GAGCTC	1 cut(s)	731
Eco72I	CACGTG	1 cut(s)	660
EcoICRI	GAGCTC	1 cut(s)	731
EcoNI	CCTNNNNNAGG	1 cut(s)	204
EcoRI	GAATTC	1 cut(s)	455
EcoT38I	GRGCYC	2 cut(s)	699, 733
FalI	AAGNNNNNCTT	2 cut(s)	105, 137
FaqI	GGGAC	1 cut(s)	583
Fnu4HI	GCNGC	4 cut(s)	489, 801, 1037, 1044
FokI	GGATG	2 cut(s)	1164, 1246
FriOI	GRGCYC	2 cut(s)	699, 733
Fsp4HI	GCNGC	4 cut(s)	489, 801, 1037, 1044
FspBI	CTAG	5 cut(s)	315, 746, 990, 1007, 1182
FspI	TGCGCA	1 cut(s)	687
GlaI	GCGC	2 cut(s)	313, 687
GluI	GCNGC	4 cut(s)	489, 801, 1037, 1044
GsaI	CCCAGC	1 cut(s)	681
HaeIII	GGCC	1 cut(s)	215
HapII	CCGG	1 cut(s)	385
HgaI	GACGC	1 cut(s)	623
HhaI	GCGC	2 cut(s)	314, 688
Hin6I	GCGC	2 cut(s)	312, 686
HinP1I	GCGC	2 cut(s)	312, 686
HindIII	AAGCTT	1 cut(s)	1082
HinfI	GANTC	2 cut(s)	632, 1384
HpaII	CCGG	1 cut(s)	385
HphI	GGTGA	2 cut(s)	1024, 1469
Hpy166II	GTNNAC	4 cut(s)	197, 515, 762, 1150
Hpy188I	TCNGA	6 cut(s)	54, 253, 508, 882, 1166, 1305
Hpy188III	TCNNGA	4 cut(s)	990, 1372, 1378, 1508
Hpy8I	GTNNAC	4 cut(s)	197, 515, 762, 1150
HpyAV	CCTTC	4 cut(s)	20, 200, 806, 1102
HpyCH4III	ACNGT	3 cut(s)	41, 463, 928
HpyCH4IV	ACGT	4 cut(s)	263, 424, 585, 659
HpyF10VI	GCNNNNNNNGC	7 cut(s)	221, 488, 497, 683, 694, 782, 797
HpySE526I	ACGT	4 cut(s)	263, 424, 585, 659
HspAI	GCGC	2 cut(s)	312, 686
Kzo9I	GATC	4 cut(s)	1017, 1264, 1374, 1422
LmnI	GCTCC	3 cut(s)	345, 726, 1007
Lsp1109I	GCAGC	4 cut(s)	475, 812, 1048, 1055
LweI	GCATC	3 cut(s)	172, 627, 1436
MaeI	CTAG	5 cut(s)	315, 746, 990, 1007, 1182
MaeII	ACGT	4 cut(s)	263, 424, 585, 659
MaeIII	GTNAC	3 cut(s)	375, 655, 1241
MalI	GATC	4 cut(s)	1019, 1266, 1376, 1424
MboI	GATC	4 cut(s)	1017, 1264, 1374, 1422
MboII	GAAGA	9 cut(s)	449, 716, 762, 1117, 1132, 1259, 1292, 1393, 1432
MfeI	CAATTG	1 cut(s)	1214
MhlI	GDGCHC	3 cut(s)	199, 699, 733
MluCI	AATT	9 cut(s)	68, 307, 446, 455, 1185, 1214, 1226, 1392, 1511
MlyI	GAGTC	1 cut(s)	641
MmeI	TCCRAC	3 cut(s)	220, 1106, 1144
MseI	TTAA	9 cut(s)	11, 36, 260, 279, 537, 840, 857, 1089, 1229
MslI	CAYNNNNRTG	1 cut(s)	1314
MspCI	CTTAAG	1 cut(s)	10
MspI	CCGG	1 cut(s)	385
MspR9I	CCNGG	1 cut(s)	385
MunI	CAATTG	1 cut(s)	1214
Mva1269I	GAATGC	2 cut(s)	122, 973
MwoI	GCNNNNNNNGC	7 cut(s)	221, 488, 497, 683, 694, 782, 797
NciI	CCSGG	1 cut(s)	385
NdeII	GATC	4 cut(s)	1017, 1264, 1374, 1422
NlaIV	GGNNCC	1 cut(s)	1310
NmuCI	GTSAC	2 cut(s)	375, 655
NsbI	TGCGCA	1 cut(s)	687
NspI	RCATGY	5 cut(s)	274, 286, 830, 892, 998
OliI	CACNNNNGTG	1 cut(s)	1314
PaeI	GCATGC	1 cut(s)	830
PagI	TCATGA	1 cut(s)	1377
PaqCI	CACCTGC	1 cut(s)	811
PceI	AGGCCT	1 cut(s)	215
PciI	ACATGT	2 cut(s)	282, 888
PctI	GAATGC	2 cut(s)	122, 973
PfeI	GAWTC	1 cut(s)	1384
Pfl23II	CGTACG	1 cut(s)	421
PflMI	CCANNNNNTGG	1 cut(s)	1219
PkrI	GCNGC	4 cut(s)	490, 802, 1038, 1045
PleI	GAGTC	1 cut(s)	640
PmaCI	CACGTG	1 cut(s)	660
PmlI	CACGTG	1 cut(s)	660
PpsI	GAGTC	1 cut(s)	640
Ppu21I	YACGTR	2 cut(s)	425, 660
PscI	ACATGT	2 cut(s)	282, 888
Psp124BI	GAGCTC	1 cut(s)	733
PspCI	CACGTG	1 cut(s)	660
PspFI	CCCAGC	1 cut(s)	677
PspLI	CGTACG	1 cut(s)	421
PspN4I	GGNNCC	1 cut(s)	1310
RsaI	GTAC	1 cut(s)	423
RsaNI	GTAC	1 cut(s)	422
RseI	CAYNNNNRTG	1 cut(s)	1314
SacI	GAGCTC	1 cut(s)	733
SaqAI	TTAA	9 cut(s)	11, 36, 260, 279, 537, 840, 857, 1089, 1229
SatI	GCNGC	4 cut(s)	489, 801, 1037, 1044
Sau3AI	GATC	4 cut(s)	1017, 1264, 1374, 1422
SchI	GAGTC	1 cut(s)	641
ScrFI	CCNGG	1 cut(s)	385
SduI	GDGCHC	3 cut(s)	199, 699, 733
SfaNI	GCATC	3 cut(s)	172, 627, 1436
SmiMI	CAYNNNNRTG	1 cut(s)	1314
SmlI	CTYRAG	1 cut(s)	10
SmoI	CTYRAG	1 cut(s)	10
SnaBI	TACGTA	1 cut(s)	425
SphI	GCATGC	1 cut(s)	830
Sse9I	AATT	9 cut(s)	68, 307, 446, 455, 1185, 1214, 1226, 1392, 1511
SseBI	AGGCCT	1 cut(s)	215
SspMI	CTAG	5 cut(s)	315, 746, 990, 1007, 1182
SstI	GAGCTC	1 cut(s)	733
StuI	AGGCCT	1 cut(s)	215
StyD4I	CCNGG	1 cut(s)	383
TaaI	ACNGT	3 cut(s)	41, 463, 928
TaiI	ACGT	4 cut(s)	266, 427, 588, 662
TaqI	TCGA	2 cut(s)	635, 1278
TasI	AATT	9 cut(s)	68, 307, 446, 455, 1185, 1214, 1226, 1392, 1511
TfiI	GAWTC	1 cut(s)	1384
Tru1I	TTAA	9 cut(s)	11, 36, 260, 279, 537, 840, 857, 1089, 1229
Tru9I	TTAA	9 cut(s)	11, 36, 260, 279, 537, 840, 857, 1089, 1229
TscAI	CASTG	3 cut(s)	187, 418, 466
TseFI	GTSAC	2 cut(s)	375, 655
TseI	GCWGC	4 cut(s)	488, 800, 1036, 1043
Tsp45I	GTSAC	2 cut(s)	375, 655
TspDTI	ATGAA	8 cut(s)	345, 345, 512, 717, 1259, 1311, 1394, 1433
TspRI	CASTG	3 cut(s)	187, 418, 466
Van91I	CCANNNNNTGG	1 cut(s)	1219
Vha464I	CTTAAG	1 cut(s)	10
VneI	GTGCAC	1 cut(s)	195
XagI	CCTNNNNNAGG	1 cut(s)	204
XapI	RAATTY	4 cut(s)	68, 455, 1392, 1511
XbaI	TCTAGA	1 cut(s)	989
XceI	RCATGY	5 cut(s)	274, 286, 830, 892, 998
XspI	CTAG	5 cut(s)	315, 746, 990, 1007, 1182

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