Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0015465

Physical Location & Seq

Genomic Coordinates Reverse (-)

38466324 .. 38470130

Gene Structure 3807 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG215300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1311 bp

ATGTATGCGAAATGCGGGGACGTTTCTGAGTCCCGGAAAGTGTTTGATTATATGCCTCAGAGAAATGTGGTAAGTTGGAATGCCATGATTGGTGGGTACTGGAGAAATGGGGATGCAGCATCTGCGTTGGTTTTGTTTGAGGAGATGTCAGTGCGGACGTATGTGACTTGGGCTGAGATGATCACCGGGTTTGCAAGGACTGGAGATACTGTTAGCGCTAGGCGGTTTTTTGATCAGGTTCCACTGGAGTTGAAGAATGTGATTACGTGGACTGTGATGGTTGATGGGTATTGTAGCAACGGGCAGATGGAGATGGCGAGGCAAGTTTTCGAGGCAATGCCCCGGCGCAATCACTTTGTTTGGTCGTCAATGATTTCTGGGTATTGCAAGTTAGGTGATGTTGAGGAGGCTAGGATCGTTTTCGATAGAATCCCAGTCCGGAACTTGGTGAATTGGAATTCGATGATATCTGGATATGCGCAAAATGGGTTTTGCGGGGAAGCTTTGAAAGCGTTTGAGAACATGCAAGCCCAAGGCTTTGAGCCAGATGAATTCACTGTTGTGAGTGTGTTATCTGCATGTGCTCAGTCTGGGCTATTAGATGTTGGCAAGGATATACACAACATGTTGAGTCATAAAAGGATAAAGCTCAATCAGATTGTTCTCAATGCACTTGTAGACATGTATGCAAAATGTGGCGACTTGATCAATGCAAGGTTGGTCTTTGATGAGATGGCTGAGAGGAACAGTGCTTGTTGGAATGCTATGATTTCAAGCATGGCTATTCATGGACAGTGCAAGGAGGCTCTTGAATTGTTTAGCAGAATGGAGGATTCAAATGAAAAGCCTGATGAGATAACCTTTCTTTCTGTTCTGTCAGCTTGTGCGCATGGAGGTTTAGTAGATGAAGGCATGGAACTTTTCTCCAAGATGCAGAAGAAATATGGTTTGGAAGCAGGAATTAAGCATTATGGGTGCTTAGTTGACCTTTTGGGACGGGCTGGAAGGTTAAGAGAAGCTTACGCTTTAGTGAAAAGTATGCCCATGAAACCCAATGACATGGTTTGGGGGGCTGTGCTTGGAGCTTGCCGGATTTATATGGATATGGAAATGACAGAACAGGTAGCCAAGGATATTAGCACCCAAAATTCAGACAATCAGTCGGGCGATAATTCACATTATGTGCTTCTGTCAAATATTTATGCTGCTTCTGATAGATGGGAGAAGGCTGAGAGGACGAGAATGGACTTGGTAAACGTAGGCTTTCAAAAGACACCTGCTCACAGTGCATTTATGCCCTGCGGCGCATAG

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

PPR

Protein Analysis

436

Amino Acids

48.91

Weight (kDa)

5.51

Isoelectric Point (pI)

38.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	21 - 51	1.9e-06	PPR repeat family
PPR	PF01535	24 - 50	3.7e-06	PPR repeat
PPR_2	PF13041	85 - 117	5.5e-08	PPR repeat family
PPR_1	PF12854	86 - 113	2.8e-06	PPR repeat
PPR	PF01535	88 - 117	3.7e-08	PPR repeat
PPR	PF01535	120 - 147	3.1e-07	PPR repeat
PPR_2	PF13041	148 - 195	2.7e-10	PPR repeat family
PPR	PF01535	151 - 180	2.2e-07	PPR repeat
TPR_24	PF23276	186 - 249	4.2e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	249 - 297	1.6e-10	PPR repeat family
PPR	PF01535	252 - 279	1.2e-06	PPR repeat
E_motif	PF20431	387 - 428	3.9e-07	E motif

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: OG0015465)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G21470
fragaria_vesca	FvH4_2g14800 FvH4_7g25011
malus_domestica	MD05G1012400.v1.1
prunus_persica	Prupe.8G017700_v2.0.a1
pyrus_communis	pycom05g00720
rosa_chinensis	RchiOBHm_Chr6g0277371
rosa_laevigata	RLG00000013306 RLG00000029733
rosa_multiflora	Rmu_co8197674.1_g000001 Rmu_sc0000030.1_g000011
rosa_roxburghii	Rroxscaffold_7G00191390
rosa_rugosa	Rorug01G0093200 Rorug06G0107700
rosa_samantha	Rh6AG218600 Rh6DG215300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	1285
Acc16I	TGCGCA	2 cut(s)	480, 888
Acc36I	ACCTGC	1 cut(s)	1285
AccI	GTMKAC	1 cut(s)	678
AccIII	TCCGGA	1 cut(s)	438
AciI	CCGC	5 cut(s)	15, 154, 223, 495, 1302
AclWI	GGATC	1 cut(s)	422
AcsI	RAATTY	3 cut(s)	457, 551, 1147
AfaI	GTAC	1 cut(s)	98
AfeI	AGCGCT	1 cut(s)	217
AfiI	CCNNNNNNNGG	1 cut(s)	445
AflIII	ACRYGT	2 cut(s)	624, 681
AgsI	TTSAA	6 cut(s)	253, 508, 774, 812, 837, 1268
AhdI	GACNNNNNGTC	1 cut(s)	1159
AjuI	GAANNNNNNNTTGG	2 cut(s)	932, 964
AleI	CACNNNNGTG	1 cut(s)	560
AluBI	AGCT	5 cut(s)	503, 649, 881, 1019, 1085
AluI	AGCT	5 cut(s)	503, 649, 881, 1019, 1085
Alw21I	GWGCWC	1 cut(s)	586
AlwI	GGATC	1 cut(s)	422
AlwNI	CAGNNNCTG	1 cut(s)	122
Aor13HI	TCCGGA	1 cut(s)	438
Aor51HI	AGCGCT	1 cut(s)	217
ApeKI	GCWGC	2 cut(s)	116, 1205
ApoI	RAATTY	3 cut(s)	457, 551, 1147
AspLEI	GCGC	5 cut(s)	218, 348, 481, 889, 1307
AsuC2I	CCSGG	3 cut(s)	34, 187, 343
AsuHPI	GGTGA	3 cut(s)	175, 407, 460
Bbv12I	GWGCWC	1 cut(s)	586
BbvI	GCAGC	2 cut(s)	128, 1192
BccI	CCATC	6 cut(s)	271, 278, 301, 307, 727, 1212
BclI	TGATCA	3 cut(s)	180, 232, 705
BcnI	CCSGG	3 cut(s)	34, 187, 343
BfaI	CTAG	2 cut(s)	219, 411
BfoI	RGCGCY	1 cut(s)	219
BfuAI	ACCTGC	1 cut(s)	1285
BisI	GCNGC	3 cut(s)	117, 1206, 1303
BlsI	GCNGC	3 cut(s)	118, 1207, 1304
Bme1390I	CCNGG	3 cut(s)	34, 187, 343
BmeRI	GACNNNNNGTC	1 cut(s)	1159
BmiI	GGNNCC	1 cut(s)	240
BmrFI	CCNGG	3 cut(s)	34, 187, 343
BmrI	ACTGGG	1 cut(s)	428
BmsI	GCATC	3 cut(s)	103, 128, 921
BmuI	ACTGGG	1 cut(s)	428
BpmI	CTGGAG	3 cut(s)	121, 222, 266
BpuMI	CCSGG	3 cut(s)	34, 187, 343
BsaAI	YACGTR	1 cut(s)	267
BsaJI	CCNNGG	3 cut(s)	341, 532, 1128
BsaWI	WCCGGW	1 cut(s)	438
BsaXI	ACNNNNNCTCC	4 cut(s)	195, 225, 885, 915
Bsc4I	CCNNNNNNNGG	1 cut(s)	445
Bse1I	ACTGG	4 cut(s)	104, 205, 249, 434
Bse3DI	GCAATG	1 cut(s)	342
BseAI	TCCGGA	1 cut(s)	438
BseDI	CCNNGG	3 cut(s)	341, 532, 1128
BseGI	GGATG	1 cut(s)	118
BseLI	CCNNNNNNNGG	1 cut(s)	445
BseMI	GCAATG	1 cut(s)	342
BseMII	CTCAG	6 cut(s)	18, 71, 165, 599, 729, 1221
BseNI	ACTGG	4 cut(s)	104, 205, 249, 434
BseRI	GAGGAG	2 cut(s)	155, 419
BseXI	GCAGC	2 cut(s)	128, 1192
BsiHKAI	GWGCWC	1 cut(s)	586
BsiSI	CCGG	5 cut(s)	34, 186, 343, 439, 1090
BslFI	GGGAC	3 cut(s)	16, 32, 1008
BslI	CCNNNNNNNGG	1 cut(s)	445
BsmFI	GGGAC	3 cut(s)	16, 32, 1008
BsmI	GAATGC	2 cut(s)	85, 766
Bsp1286I	GDGCHC	1 cut(s)	586
Bsp13I	TCCGGA	1 cut(s)	438
Bsp143I	GATC	4 cut(s)	180, 232, 414, 705
BspACI	CCGC	5 cut(s)	15, 154, 223, 495, 1302
BspCNI	CTCAG	6 cut(s)	19, 70, 166, 598, 730, 1222
BspEI	TCCGGA	1 cut(s)	438
BspLI	GGNNCC	1 cut(s)	240
BspMI	ACCTGC	1 cut(s)	1285
BspPI	GGATC	1 cut(s)	422
BsrDI	GCAATG	1 cut(s)	342
BsrI	ACTGG	4 cut(s)	104, 205, 249, 434
BssECI	CCNNGG	3 cut(s)	341, 532, 1128
BssMI	GATC	4 cut(s)	180, 232, 414, 705
BssT1I	CCWWGG	2 cut(s)	532, 1128
Bst4CI	ACNGT	6 cut(s)	211, 274, 559, 749, 795, 1286
BstAPI	GCANNNNNTGC	1 cut(s)	122
BstBAI	YACGTR	1 cut(s)	267
BstC8I	GCNNGC	2 cut(s)	528, 1087
BstDEI	CTNAG	7 cut(s)	27, 57, 174, 585, 738, 979, 1230
BstF5I	GGATG	1 cut(s)	118
BstH2I	RGCGCY	1 cut(s)	219
BstHHI	GCGC	5 cut(s)	218, 348, 481, 889, 1307
BstKTI	GATC	4 cut(s)	183, 235, 417, 708
BstMBI	GATC	4 cut(s)	180, 232, 414, 705
BstMWI	GCNNNNNNNGC	3 cut(s)	122, 509, 1286
BstNSI	RCATGY	4 cut(s)	526, 582, 628, 685
BstSCI	CCNGG	3 cut(s)	32, 185, 341
BstV1I	GCAGC	2 cut(s)	128, 1192
BstXI	CCANNNNNNTGG	1 cut(s)	1060
BtsCI	GGATG	1 cut(s)	118
BtsIMutI	CAGTG	6 cut(s)	156, 242, 555, 754, 800, 1291
BveI	ACCTGC	1 cut(s)	1285
Cac8I	GCNNGC	2 cut(s)	528, 1087
CaiI	CAGNNNCTG	1 cut(s)	122
CfoI	GCGC	5 cut(s)	218, 348, 481, 889, 1307
Csp6I	GTAC	1 cut(s)	97
CspCI	CAANNNNNGTGG	2 cut(s)	231, 266
CviQI	GTAC	1 cut(s)	97
DdeI	CTNAG	7 cut(s)	27, 57, 174, 585, 738, 979, 1230
DpnI	GATC	4 cut(s)	182, 234, 416, 707
DpnII	GATC	4 cut(s)	180, 232, 414, 705
DriI	GACNNNNNGTC	1 cut(s)	1159
Eam1105I	GACNNNNNGTC	1 cut(s)	1159
Eco130I	CCWWGG	2 cut(s)	532, 1128
Eco32I	GATATC	1 cut(s)	468
Eco47III	AGCGCT	1 cut(s)	217
EcoRI	GAATTC	2 cut(s)	457, 551
EcoRV	GATATC	1 cut(s)	468
EcoT14I	CCWWGG	2 cut(s)	532, 1128
ErhI	CCWWGG	2 cut(s)	532, 1128
FalI	AAGNNNNNCTT	2 cut(s)	1003, 1035
FaqI	GGGAC	3 cut(s)	16, 32, 1008
FauI	CCCGC	2 cut(s)	8, 488
FbaI	TGATCA	3 cut(s)	180, 232, 705
FblI	GTMKAC	1 cut(s)	678
Fnu4HI	GCNGC	3 cut(s)	117, 1206, 1303
FokI	GGATG	1 cut(s)	125
Fsp4HI	GCNGC	3 cut(s)	117, 1206, 1303
FspAI	RTGCGCAY	1 cut(s)	888
FspBI	CTAG	2 cut(s)	219, 411
FspI	TGCGCA	2 cut(s)	480, 888
GlaI	GCGC	5 cut(s)	217, 347, 480, 888, 1306
GluI	GCNGC	3 cut(s)	117, 1206, 1303
GsuI	CTGGAG	3 cut(s)	121, 222, 266
HaeII	RGCGCY	1 cut(s)	219
HapII	CCGG	5 cut(s)	34, 186, 343, 439, 1090
HhaI	GCGC	5 cut(s)	218, 348, 481, 889, 1307
Hin6I	GCGC	5 cut(s)	216, 346, 479, 887, 1305
HinP1I	GCGC	5 cut(s)	216, 346, 479, 887, 1305
HincII	GTYRAC	1 cut(s)	985
HindII	GTYRAC	1 cut(s)	985
HindIII	AAGCTT	2 cut(s)	501, 1017
HinfI	GANTC	4 cut(s)	29, 429, 631, 833
HpaII	CCGG	5 cut(s)	34, 186, 343, 439, 1090
HphI	GGTGA	3 cut(s)	175, 407, 460
Hpy166II	GTNNAC	4 cut(s)	270, 679, 985, 1255
Hpy188I	TCNGA	5 cut(s)	28, 60, 657, 1153, 1213
Hpy188III	TCNNGA	3 cut(s)	439, 471, 809
Hpy8I	GTNNAC	4 cut(s)	270, 679, 985, 1255
HpyAV	CCTTC	3 cut(s)	902, 999, 1219
HpyCH4III	ACNGT	6 cut(s)	211, 274, 559, 749, 795, 1286
HpyCH4IV	ACGT	4 cut(s)	21, 158, 266, 1257
HpyF10VI	GCNNNNNNNGC	3 cut(s)	122, 509, 1286
HpyF3I	CTNAG	7 cut(s)	27, 57, 174, 585, 738, 979, 1230
HpySE526I	ACGT	4 cut(s)	21, 158, 266, 1257
HspAI	GCGC	5 cut(s)	216, 346, 479, 887, 1305
Kpn2I	TCCGGA	1 cut(s)	438
Ksp22I	TGATCA	3 cut(s)	180, 232, 705
Kzo9I	GATC	4 cut(s)	180, 232, 414, 705
LmnI	GCTCC	1 cut(s)	1082
Lsp1109I	GCAGC	2 cut(s)	128, 1192
LweI	GCATC	3 cut(s)	103, 128, 921
MaeI	CTAG	2 cut(s)	219, 411
MaeII	ACGT	4 cut(s)	21, 158, 266, 1257
MaeIII	GTNAC	1 cut(s)	163
MalI	GATC	4 cut(s)	182, 234, 416, 707
MboI	GATC	4 cut(s)	180, 232, 414, 705
MboII	GAAGA	2 cut(s)	265, 949
MhlI	GDGCHC	1 cut(s)	586
MluCI	AATT	7 cut(s)	451, 457, 551, 812, 960, 1147, 1171
MlyI	GAGTC	2 cut(s)	38, 640
MmeI	TCCRAC	2 cut(s)	56, 737
MroI	TCCGGA	1 cut(s)	438
MseI	TTAA	2 cut(s)	963, 1010
MslI	CAYNNNNRTG	1 cut(s)	560
MspI	CCGG	5 cut(s)	34, 186, 343, 439, 1090
MspR9I	CCNGG	3 cut(s)	34, 187, 343
Mva1269I	GAATGC	2 cut(s)	85, 766
MwoI	GCNNNNNNNGC	3 cut(s)	122, 509, 1286
NciI	CCSGG	3 cut(s)	34, 187, 343
NdeII	GATC	4 cut(s)	180, 232, 414, 705
NlaIV	GGNNCC	1 cut(s)	240
NmuCI	GTSAC	1 cut(s)	163
NsbI	TGCGCA	2 cut(s)	480, 888
NspI	RCATGY	4 cut(s)	526, 582, 628, 685
OliI	CACNNNNGTG	1 cut(s)	560
PaqCI	CACCTGC	1 cut(s)	1285
PciI	ACATGT	2 cut(s)	624, 681
PctI	GAATGC	2 cut(s)	85, 766
PfeI	GAWTC	2 cut(s)	429, 833
PfoI	TCCNGGA	1 cut(s)	32
PkrI	GCNGC	3 cut(s)	118, 1207, 1304
PleI	GAGTC	2 cut(s)	37, 639
PpsI	GAGTC	2 cut(s)	37, 639
Ppu21I	YACGTR	1 cut(s)	267
PscI	ACATGT	2 cut(s)	624, 681
PspN4I	GGNNCC	1 cut(s)	240
PstNI	CAGNNNCTG	1 cut(s)	122
RsaI	GTAC	1 cut(s)	98
RsaNI	GTAC	1 cut(s)	97
RseI	CAYNNNNRTG	1 cut(s)	560
SaqAI	TTAA	2 cut(s)	963, 1010
SatI	GCNGC	3 cut(s)	117, 1206, 1303
Sau3AI	GATC	4 cut(s)	180, 232, 414, 705
SchI	GAGTC	2 cut(s)	38, 640
ScrFI	CCNGG	3 cut(s)	34, 187, 343
SduI	GDGCHC	1 cut(s)	586
SfaNI	GCATC	3 cut(s)	103, 128, 921
SmiMI	CAYNNNNRTG	1 cut(s)	560
Sse9I	AATT	7 cut(s)	451, 457, 551, 812, 960, 1147, 1171
SsiI	CCGC	5 cut(s)	15, 154, 223, 495, 1302
SspI	AATATT	1 cut(s)	1198
SspMI	CTAG	2 cut(s)	219, 411
StyD4I	CCNGG	3 cut(s)	32, 185, 341
StyI	CCWWGG	2 cut(s)	532, 1128
TaaI	ACNGT	6 cut(s)	211, 274, 559, 749, 795, 1286
TaiI	ACGT	4 cut(s)	24, 161, 269, 1260
TaqI	TCGA	3 cut(s)	330, 423, 461
TasI	AATT	7 cut(s)	451, 457, 551, 812, 960, 1147, 1171
TauI	GCSGC	1 cut(s)	1305
TfiI	GAWTC	2 cut(s)	429, 833
Tru1I	TTAA	2 cut(s)	963, 1010
Tru9I	TTAA	2 cut(s)	963, 1010
TscAI	CASTG	6 cut(s)	156, 249, 562, 754, 800, 1291
TseFI	GTSAC	1 cut(s)	163
TseI	GCWGC	2 cut(s)	116, 1205
Tsp45I	GTSAC	1 cut(s)	163
TspDTI	ATGAA	5 cut(s)	564, 776, 855, 921, 1061
TspRI	CASTG	6 cut(s)	156, 249, 562, 754, 800, 1291
XapI	RAATTY	3 cut(s)	457, 551, 1147
XceI	RCATGY	4 cut(s)	526, 582, 628, 685
XmiI	GTMKAC	1 cut(s)	678
XspI	CTAG	2 cut(s)	219, 411

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