Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0016045

Physical Location & Seq

Genomic Coordinates Forward (+)

7235243 .. 7237427

Gene Structure 2185 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG083800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1491 bp

ATGTTGATGCTCTGCACAGCCTCACCAAACCAGTCATGGGTCTCTCCTTCTTCTTCTTACCATGACATAAAGCCAAAGCCTTTGAAGCCCTGCTTCATCTTCTTCAAACCCAATTCAACAACCTCTCTGTTATTTCTGAATTTCTCTAATTTTCGCTCCAAATTTCGTGTCTCGGCGACCACCCTCGCCGGAACCACTGACCGGAAAACTCCGGACAAGAATGTGAAGATTGGCGAACTCTGTGAATTGGGTAATCTGAAAGAGGCAGTGGAAATGGTGTGCGGGTCTGAAAGCTCCGATCTTGATTTGGTGGCGTACTGCTCCGTGTTGGAGCTCTGTGCCGGAACTAAGTCTCTGAAAGATGGGAAGAGGGTTCACTCTGTTCTTTGTGACCATGGAGTAGATGTTGATGGGTATGTGGGTGCAAAACTTGTGTTCATGTATGTGCATTGTGGGGATTTAAGAGAAGCGAGGCGGGTTTTCGATGAATTATCGAATGCGAAAGTGTTTCTGTGGAACCTTTTAATCAATGAGTATGCGAAGATTCGTAATTTTAGAGAAGATATGTATTCAAAGTGTGGCGATTTGAGTGATGCAGTTCGAGTGTTTGAGAAGATGGGTCAAAGAAGTGTTGTGTCGTGGACTTCGATGATAGCAGGTTATGTTCGTGAAGGTCTTTCGGACAAGGCAATCGAGTTGTTTTGTGAAATGGAAGAGAATGGTGTTAGTCCAGATGGTTATACAATCACAAGCATACTTCATGCATGTGCTTGTAGTGGCTCGTTGGAAAAAGGCAAGGATATACACAAGTATATTAGGGAACATGGCATGGACTCGAGTTTGTTTGTCTGTAATTCGCTCATGGATATGTATGCAAAATGTGGAAGCATGGAAGACGCTGACTCAGTTTTTTCTCATATGCTTAGAAAGGACATTGTGTCATGGAATACCATGATCGGAGGTTACTCCAAAAACTGTCTTCCAAATGAAGCTCTTGAACTCTTTTCTGATATGCAACAGAAATTTAAACCTGACAGCATGACAATTGCTAGTGTCCTTCCCGCTTGTGCAAGCCTAGCAGCTCTAGACAGAGGTCAAGAGATCCATGGTTATTTACTGAGAAATGGATACTTCTTGGATCGATATGTTGCCAATGCACTTGTTGACATGTATGTCAAGTGCGGGGTACTAGTTCTTGCTCGGGTACTGTTTGATATGATTCCGGTGAAGGATCTGATCTCTTGGACTGTGATAATTGCTGGTTATGGGATGCATGGATTTGGAAGGGAAGCTATTGCTGCGTTTAATGAGATGAAAAAGGCTGGAATTGAACCGGACAGCATTTCCTTCATCTCTATACTTTATGCTTGCAGTCATTCTGGATTAGTTCAGGAAGGATGGAGATTCTTTGATATTATGAGAAATGATTACAGAATCGAGCCCATGTTGGAGCATTATGCTTGTATGAGGCAGAAAAGTGGGAAGAGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0007389 GO:0008150 GO:0008152 GO:0009451 GO:0009653 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009965 GO:0009987 GO:0010016 GO:0010051 GO:0010087 GO:0010154 GO:0010305 GO:0010588 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0048316 GO:0048366 GO:0048367 GO:0048598 GO:0048608 GO:0048731 GO:0048825 GO:0048826 GO:0048827 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0090698 GO:0097159 GO:0099402 GO:1900865 GO:1901360 GO:1901363 GO:1905392

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

496

Amino Acids

55.59

Weight (kDa)

6.33

Isoelectric Point (pI)

35.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	210 - 257	4.4e-15	PPR repeat family
PPR	PF01535	212 - 242	2.8e-10	PPR repeat
PPR_3	PF13812	233 - 292	2.7e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	310 - 357	2.9e-10	PPR repeat family
PPR	PF01535	313 - 341	3.6e-08	PPR repeat
PPR_2	PF13041	411 - 458	9.8e-10	PPR repeat family
PPR	PF01535	413 - 443	3.1e-06	PPR repeat

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: OG0016045)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G18750
fragaria_vesca	FvH4_3g36560 FvH4_3g36640
malus_domestica	MD10G1276800.v1.1
prunus_persica	Prupe.4G065400_v2.0.a1
pyrus_communis	pycom10g23110
rosa_chinensis	RchiOBHm_Chr5g0011421
rosa_laevigata	RLG00000031832
rosa_multiflora	Rmu_co8262965.1_g000001 Rmu_sc0009975.1_g000017
rosa_roxburghii	Rroxscaffold_1G00065030
rosa_rugosa	Rorug04G0456900
rosa_samantha	Rh5BG083800 Rh5CG097300
rosa_wichuraiana	Rw5G007710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1172
Acc36I	ACCTGC	1 cut(s)	647
AccIII	TCCGGA	1 cut(s)	211
AciI	CCGC	4 cut(s)	282, 475, 1062, 1182
AclWI	GGATC	3 cut(s)	1096, 1146, 1239
AcsI	RAATTY	3 cut(s)	139, 161, 1022
AfaI	GTAC	3 cut(s)	317, 1188, 1206
AfiI	CCNNNNNNNGG	2 cut(s)	37, 201
AflIII	ACRYGT	1 cut(s)	1167
AgsI	TTSAA	6 cut(s)	85, 106, 117, 573, 998, 1331
AhdI	GACNNNNNGTC	1 cut(s)	937
AhlI	ACTAGT	1 cut(s)	1189
AluBI	AGCT	5 cut(s)	294, 334, 992, 1082, 1292
AluI	AGCT	5 cut(s)	294, 334, 992, 1082, 1292
Alw21I	GWGCWC	1 cut(s)	336
Alw26I	GTCTC	3 cut(s)	46, 175, 357
AlwI	GGATC	3 cut(s)	1096, 1146, 1239
Ama87I	CYCGRG	2 cut(s)	835, 1200
Aor13HI	TCCGGA	1 cut(s)	211
ApeKI	GCWGC	2 cut(s)	1079, 1298
ApoI	RAATTY	3 cut(s)	139, 161, 1022
ArsI	GACNNNNNNTTYG	2 cut(s)	153, 185
AsuHPI	GGTGA	2 cut(s)	15, 1237
AvaI	CYCGRG	2 cut(s)	835, 1200
BanII	GRGCYC	2 cut(s)	336, 1443
BbsI	GAAGAC	2 cut(s)	900, 971
Bbv12I	GWGCWC	1 cut(s)	336
BbvI	GCAGC	2 cut(s)	1091, 1285
BccI	CCATC	5 cut(s)	356, 404, 610, 728, 1392
BciVI	GTATCC	1 cut(s)	1121
BcoDI	GTCTC	3 cut(s)	46, 175, 357
BcuI	ACTAGT	1 cut(s)	1189
BfaI	CTAG	4 cut(s)	1050, 1076, 1085, 1190
BfuAI	ACCTGC	1 cut(s)	647
BfuI	GTATCC	1 cut(s)	1121
BisI	GCNGC	2 cut(s)	1080, 1299
BlsI	GCNGC	2 cut(s)	1081, 1300
BmeRI	GACNNNNNGTC	1 cut(s)	937
BmeT110I	CYCGRG	2 cut(s)	835, 1200
BmiI	GGNNCC	2 cut(s)	193, 518
BmsI	GCATC	2 cut(s)	583, 1260
BoxI	GACNNNNGTC	1 cut(s)	1092
BpiI	GAAGAC	2 cut(s)	900, 971
Bsa29I	ATCGAT	1 cut(s)	1141
BsaI	GGTCTC	1 cut(s)	46
BsaJI	CCNNGG	2 cut(s)	394, 1105
BsaWI	WCCGGW	4 cut(s)	201, 211, 1222, 1333
BsaXI	ACNNNNNCTCC	2 cut(s)	390, 420
Bsc4I	CCNNNNNNNGG	2 cut(s)	37, 201
Bse1I	ACTGG	1 cut(s)	31
BseAI	TCCGGA	1 cut(s)	211
BseCI	ATCGAT	1 cut(s)	1141
BseDI	CCNNGG	2 cut(s)	394, 1105
BseGI	GGATG	2 cut(s)	1275, 1403
BseLI	CCNNNNNNNGG	2 cut(s)	37, 201
BseMII	CTCAG	2 cut(s)	918, 1109
BseNI	ACTGG	1 cut(s)	31
BseXI	GCAGC	2 cut(s)	1091, 1285
BshVI	ATCGAT	1 cut(s)	1141
BsiHKAI	GWGCWC	1 cut(s)	336
BsiHKCI	CYCGRG	2 cut(s)	835, 1200
BsiSI	CCGG	6 cut(s)	189, 202, 212, 342, 1223, 1334
BslI	CCNNNNNNNGG	2 cut(s)	37, 201
BsmAI	GTCTC	3 cut(s)	46, 175, 357
BsmI	GAATGC	1 cut(s)	502
Bso31I	GGTCTC	1 cut(s)	46
BsoBI	CYCGRG	2 cut(s)	835, 1200
Bsp1286I	GDGCHC	2 cut(s)	336, 1443
Bsp13I	TCCGGA	1 cut(s)	211
Bsp143I	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
Bsp19I	CCATGG	2 cut(s)	394, 1105
BspACI	CCGC	4 cut(s)	282, 475, 1062, 1182
BspCNI	CTCAG	2 cut(s)	917, 1110
BspDI	ATCGAT	1 cut(s)	1141
BspEI	TCCGGA	1 cut(s)	211
BspLI	GGNNCC	2 cut(s)	193, 518
BspMI	ACCTGC	1 cut(s)	647
BspPI	GGATC	3 cut(s)	1096, 1146, 1239
BspTNI	GGTCTC	1 cut(s)	46
BsrI	ACTGG	1 cut(s)	31
BssECI	CCNNGG	2 cut(s)	394, 1105
BssMI	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
BssT1I	CCWWGG	2 cut(s)	394, 1105
Bst4CI	ACNGT	3 cut(s)	977, 1209, 1249
Bst6I	CTCTTC	3 cut(s)	362, 708, 1478
BstC8I	GCNNGC	2 cut(s)	1072, 1369
BstDEI	CTNAG	4 cut(s)	348, 904, 923, 1118
BstDSI	CCRYGG	2 cut(s)	394, 1105
BstF5I	GGATG	2 cut(s)	1275, 1403
BstKTI	GATC	6 cut(s)	301, 957, 1104, 1141, 1234, 1239
BstMAI	GTCTC	3 cut(s)	46, 175, 357
BstMBI	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
BstMWI	GCNNNNNNNGC	3 cut(s)	85, 1076, 1298
BstNSI	RCATGY	2 cut(s)	768, 1171
BstPAI	GACNNNNGTC	1 cut(s)	1092
BstV1I	GCAGC	2 cut(s)	1091, 1285
BstV2I	GAAGAC	2 cut(s)	900, 971
BstX2I	RGATCY	2 cut(s)	1101, 1231
BstYI	RGATCY	2 cut(s)	1101, 1231
Bsu15I	ATCGAT	1 cut(s)	1141
BsuI	GTATCC	1 cut(s)	1121
BsuTUI	ATCGAT	1 cut(s)	1141
BtgI	CCRYGG	2 cut(s)	394, 1105
BtsCI	GGATG	2 cut(s)	1275, 1403
BtsI	GCAGTG	1 cut(s)	273
BtsIMutI	CAGTG	2 cut(s)	195, 273
BveI	ACCTGC	1 cut(s)	647
Cac8I	GCNNGC	2 cut(s)	1072, 1369
ClaI	ATCGAT	1 cut(s)	1141
CseI	GACGC	1 cut(s)	905
Csp6I	GTAC	3 cut(s)	316, 1187, 1205
CviQI	GTAC	3 cut(s)	316, 1187, 1205
DdeI	CTNAG	4 cut(s)	348, 904, 923, 1118
DpnI	GATC	6 cut(s)	300, 956, 1103, 1140, 1233, 1238
DpnII	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
DraI	TTTAAA	1 cut(s)	1027
DrdI	GACNNNNNNGTC	1 cut(s)	1172
DriI	GACNNNNNGTC	1 cut(s)	937
DseDI	GACNNNNNNGTC	1 cut(s)	1172
Eam1104I	CTCTTC	3 cut(s)	362, 708, 1478
Eam1105I	GACNNNNNGTC	1 cut(s)	937
EarI	CTCTTC	3 cut(s)	362, 708, 1478
Ecl136II	GAGCTC	1 cut(s)	334
Eco130I	CCWWGG	2 cut(s)	394, 1105
Eco24I	GRGCYC	2 cut(s)	336, 1443
Eco31I	GGTCTC	1 cut(s)	46
Eco53kI	GAGCTC	1 cut(s)	334
Eco88I	CYCGRG	2 cut(s)	835, 1200
EcoICRI	GAGCTC	1 cut(s)	334
EcoT14I	CCWWGG	2 cut(s)	394, 1105
EcoT22I	ATGCAT	2 cut(s)	766, 1275
EcoT38I	GRGCYC	2 cut(s)	336, 1443
ErhI	CCWWGG	2 cut(s)	394, 1105
FalI	AAGNNNNNCTT	2 cut(s)	77, 109
FauI	CCCGC	4 cut(s)	275, 468, 1069, 1175
FauNDI	CATATG	1 cut(s)	918
Fnu4HI	GCNGC	2 cut(s)	1080, 1299
FokI	GGATG	2 cut(s)	1282, 1410
FriOI	GRGCYC	2 cut(s)	336, 1443
Fsp4HI	GCNGC	2 cut(s)	1080, 1299
FspBI	CTAG	4 cut(s)	1050, 1076, 1085, 1190
GluI	GCNGC	2 cut(s)	1080, 1299
HapII	CCGG	6 cut(s)	189, 202, 212, 342, 1223, 1334
HgaI	GACGC	1 cut(s)	905
HincII	GTYRAC	1 cut(s)	1165
HindII	GTYRAC	1 cut(s)	1165
HinfI	GANTC	6 cut(s)	544, 833, 902, 1219, 1404, 1434
HpaII	CCGG	6 cut(s)	189, 202, 212, 342, 1223, 1334
HphI	GGTGA	2 cut(s)	15, 1237
Hpy166II	GTNNAC	3 cut(s)	376, 642, 1165
Hpy188I	TCNGA	9 cut(s)	138, 258, 289, 298, 357, 682, 959, 1009, 1236
Hpy188III	TCNNGA	9 cut(s)	212, 302, 668, 731, 995, 1085, 1097, 1380, 1391
Hpy8I	GTNNAC	3 cut(s)	376, 642, 1165
HpyAV	CCTTC	7 cut(s)	57, 665, 1067, 1222, 1278, 1357, 1388
HpyCH4III	ACNGT	3 cut(s)	977, 1209, 1249
HpyF10VI	GCNNNNNNNGC	3 cut(s)	85, 1076, 1298
HpyF3I	CTNAG	4 cut(s)	348, 904, 923, 1118
Kpn2I	TCCGGA	1 cut(s)	211
Kzo9I	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
LmnI	GCTCC	5 cut(s)	161, 299, 326, 331, 1450
Lsp1109I	GCAGC	2 cut(s)	1091, 1285
LweI	GCATC	2 cut(s)	583, 1260
MaeI	CTAG	4 cut(s)	1050, 1076, 1085, 1190
MaeIII	GTNAC	2 cut(s)	389, 962
MalI	GATC	6 cut(s)	300, 956, 1103, 1140, 1233, 1238
MboI	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
MfeI	CAATTG	1 cut(s)	1044
MflI	RGATCY	2 cut(s)	1101, 1231
MhlI	GDGCHC	2 cut(s)	336, 1443
MlyI	GAGTC	2 cut(s)	827, 896
MmeI	TCCRAC	3 cut(s)	309, 765, 1428
Mph1103I	ATGCAT	2 cut(s)	766, 1275
MroI	TCCGGA	1 cut(s)	211
MseI	TTAA	4 cut(s)	461, 524, 1026, 1305
MslI	CAYNNNNRTG	3 cut(s)	443, 765, 866
MspI	CCGG	6 cut(s)	189, 202, 212, 342, 1223, 1334
MunI	CAATTG	1 cut(s)	1044
Mva1269I	GAATGC	1 cut(s)	502
MwoI	GCNNNNNNNGC	3 cut(s)	85, 1076, 1298
NcoI	CCATGG	2 cut(s)	394, 1105
NdeI	CATATG	1 cut(s)	918
NdeII	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
NlaIV	GGNNCC	2 cut(s)	193, 518
NmeAIII	GCCGAG	1 cut(s)	152
NmuCI	GTSAC	1 cut(s)	389
NsiI	ATGCAT	2 cut(s)	766, 1275
NspI	RCATGY	2 cut(s)	768, 1171
PaeR7I	CTCGAG	1 cut(s)	835
PciI	ACATGT	1 cut(s)	1167
PcsI	WCGNNNNNNNCGW	1 cut(s)	644
PctI	GAATGC	1 cut(s)	502
PfeI	GAWTC	4 cut(s)	544, 1219, 1404, 1434
PkrI	GCNGC	2 cut(s)	1081, 1300
PleI	GAGTC	2 cut(s)	827, 896
PpsI	GAGTC	2 cut(s)	827, 896
PscI	ACATGT	1 cut(s)	1167
PshAI	GACNNNNGTC	1 cut(s)	1092
Psp124BI	GAGCTC	1 cut(s)	336
PspN4I	GGNNCC	2 cut(s)	193, 518
PspXI	VCTCGAGB	1 cut(s)	835
PsuI	RGATCY	2 cut(s)	1101, 1231
RsaI	GTAC	3 cut(s)	317, 1188, 1206
RsaNI	GTAC	3 cut(s)	316, 1187, 1205
RseI	CAYNNNNRTG	3 cut(s)	443, 765, 866
SacI	GAGCTC	1 cut(s)	336
SaqAI	TTAA	4 cut(s)	461, 524, 1026, 1305
SatI	GCNGC	2 cut(s)	1080, 1299
Sau3AI	GATC	6 cut(s)	298, 954, 1101, 1138, 1231, 1236
SchI	GAGTC	2 cut(s)	827, 896
SduI	GDGCHC	2 cut(s)	336, 1443
SfaNI	GCATC	2 cut(s)	583, 1260
Sfr274I	CTCGAG	1 cut(s)	835
SlaI	CTCGAG	1 cut(s)	835
SmiMI	CAYNNNNRTG	3 cut(s)	443, 765, 866
SmlI	CTYRAG	1 cut(s)	835
SmoI	CTYRAG	1 cut(s)	835
SpeI	ACTAGT	1 cut(s)	1189
SsiI	CCGC	4 cut(s)	282, 475, 1062, 1182
SspMI	CTAG	4 cut(s)	1050, 1076, 1085, 1190
SstI	GAGCTC	1 cut(s)	336
StyI	CCWWGG	2 cut(s)	394, 1105
TaaI	ACNGT	3 cut(s)	977, 1209, 1249
TaqI	TCGA	8 cut(s)	483, 494, 601, 647, 693, 836, 1141, 1437
TfiI	GAWTC	4 cut(s)	544, 1219, 1404, 1434
Tru1I	TTAA	4 cut(s)	461, 524, 1026, 1305
Tru9I	TTAA	4 cut(s)	461, 524, 1026, 1305
TscAI	CASTG	2 cut(s)	202, 273
TseFI	GTSAC	1 cut(s)	389
TseI	GCWGC	2 cut(s)	1079, 1298
Tsp45I	GTSAC	1 cut(s)	389
TspDTI	ATGAA	7 cut(s)	85, 427, 501, 749, 1002, 1328, 1339
TspGWI	ACGGA	1 cut(s)	313
TspRI	CASTG	2 cut(s)	202, 273
XapI	RAATTY	3 cut(s)	139, 161, 1022
XbaI	TCTAGA	1 cut(s)	1084
XceI	RCATGY	2 cut(s)	768, 1171
XcmI	CCANNNNNNNNNTGG	1 cut(s)	33
XhoI	CTCGAG	1 cut(s)	835
XspI	CTAG	4 cut(s)	1050, 1076, 1085, 1190
Zsp2I	ATGCAT	2 cut(s)	766, 1275

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