Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0001315

Physical Location & Seq

Genomic Coordinates Forward (+)

34214907 .. 34222495

Gene Structure 7589 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG299400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1440 bp

ATGGCTTTTCACGGTGCTTCATGTCGTGTCTTATCATTGCTGCCGTCTCTCAGCAGCAGAGCCAGGTACTACCCATTGATTCACCTTCATTCACCAATTTCTTCATCTCTCTTTTCAACTCTTAATGCTCAATCCCAACATGAATATGTTAAATTCAATCCCAACCAGTCTTCTTCTCTTGATGAACCTTCTGTTCTTCACCAGCTCTCTGTTCTGTTACCAATCCCCCATCAAATTTCACCTCCAAAACAATTTGACCCCACTGATTCGAATAAGAAGATAGAATCTGTTAGGGCTGTGGATGGGTTTTTAATGCCCGATGAGAAATTACGTGGGGTTTTTCTTCAGAAATTGAAGGGTATAGCTGTAATTGAGCATGCGCTCGATAATGTTGGTGTGGATTTGAGCATTGATGTTGTTGCACAAGTAGTGAATAGAGGTTGTTTAGGCGCTGAAGCAATGCTTGTGTTTTTTAATTGGGCGATTAAGAAGCCAAATGTAGCTAAGCATGTTCATACATACCATATAATCCTCAAAGCATTGGGTAGAAGAAAGTTCTTTAATTATATGATGCAAGTTTTGAATGACATGAGGAGCAGAGACATACGTCTCGATTTGGAGACTGTGTCGATTGTGATGGATAGTTTTGTGAGGGCTGGACATGTCTCGAAAGCAATACAAGTTATCCGAAACTCGGCAGAGTTCGGGTTGGATTGCGATACTGAGTGTGTGAATGTGCTTCTGCAGTCTCTGTGTCGGCGGTCTCATGTAGTGGCTGCAAATTCGTTTCTTAATTCAGTGAAGGGGAAAGTGCGATTCAATGGCACTACGTATAACATTGTAATTGGTGGGTGGTCAAAATATGGTAGAGTTGGTGAGATGGTGAGGACTTTGGAAGCAATGGTAGCAGATGGGTTTAGTCCTGATAGTGCAACTTTCAGTTACATTCTTGAGGGTCTAGGAAGAGCTGATCGGATTGACGATGCAGTTGAGATTTTTGAGAGCATGAAAGGGAAAGGTTGCGTGCCAGACACCATTACATACAATGCAATGATCTCTAACTTTATCTCTGTTGCGAATATTGATGAATGTGTAAACTACTTCAAGAGTATGTCGAGTAATGCTTGCGATCCAAATGTTGATACTTATACCAAATTGATTGCTGGTTTCCTTAAAGCCCGGAAAGCGGCGGATGCACTGGAGATGTTTGATGAGATGTTAAGTCGAGGATTTGTTCCTACTACGGGGACTATAACCTCTTTTATGGAACCCTTATGTAGCTATGGTCCACCATATGCTGCTATGATGATCTACCAGAAAGCAAGAAAGGTTGGAAAATCTGTGCTGGCGGATTTGGAACTTGGCCAGAAGAAGCAGGCAATCAAGTACCTCTCAGCTGCAGGGTTTGGTGCAAATTTGCTTGAAAATGGAATGGTGTAG

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 PPR_2 PPR_3

Protein Analysis

479

Amino Acids

52.9

Weight (kDa)

8.58

Isoelectric Point (pI)

35.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	270 - 371	3.9e-06	Fungal tetratrico peptide repeats
PPR_2	PF13041	277 - 321	2.7e-08	PPR repeat family
PPR_3	PF13812	298 - 354	5.4e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	304 - 337	2.6e-06	PPR repeat
PPR_2	PF13041	316 - 355	1.8e-09	PPR repeat family
PPR_long	PF17177	324 - 423	3.8e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	343 - 392	5.9e-11	PPR repeat family
PPR_2	PF13041	378 - 426	6.9e-10	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: OG0001315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43820
fragaria_vesca	FvH4_5g24880 FvH4_5g25350 FvH4_5g25520
malus_domestica	MD16G1284000.v1.1
prunus_persica	Prupe.5G009500_v2.0.a1
pyrus_communis	pycom16g26010
rosa_chinensis	RchiOBHm_Chr6g0271861 RchiOBHm_Chr6g0271871 RchiOBHm_Chr6g0271981 RchiOBHm_Chr7g0215761 RchiOBHm_Chr7g0215771 RchiOBHm_Chr7g0215901 RchiOBHm_Chr7g0217231 RchiOBHm_Chr7g0219831
rosa_laevigata	RLG00000002611 RLG00000002625 RLG00000013566
rosa_multiflora	Rmu_sc0000055.1_g000008 Rmu_sc0000055.1_g000009 Rmu_sc0000516.1_g000005 Rmu_sc0000516.1_g000006 Rmu_sc0004379.1_g000016 Rmu_sc0006240.1_g000009 Rmu_sc0007857.1_g000006 Rmu_sc0016364.1_g000002 Rmu_sc0016407.1_g000001 Rmu_sc0023052.1_g000001
rosa_roxburghii	Rroxscaffold_2G00114980 Rroxscaffold_3G00243850 Rroxscaffold_5G00342010 Rroxscaffold_7G00186190
rosa_rugosa	Rorug06G0064100 Rorug07G0156600 Rorug07G0157900 Rorug07G0158000
rosa_samantha	Rh1BG116200 Rh6AG181800 Rh6BG185400 Rh6CG182900 Rh6CG183200 Rh6DG174300 Rh6DG174600 Rh7AG294600 Rh7AG306400 Rh7AG306500 Rh7BG286400 Rh7CG314600 Rh7CG325500 Rh7DG296900 Rh7DG299400 Rh7DG306200
rosa_wichuraiana	Rw6G015640 Rw7G026030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	760, 1187, 1190, 1349
AclWI	GGATC	1 cut(s)	1124
AcoI	YGGCCR	1 cut(s)	1363
AcsI	RAATTY	4 cut(s)	152, 234, 781, 1414
AcuI	CTGAAG	2 cut(s)	329, 474
AfaI	GTAC	2 cut(s)	68, 1388
AfiI	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
AflIII	ACRYGT	1 cut(s)	661
AgsI	TTSAA	7 cut(s)	117, 157, 355, 583, 820, 1105, 1424
AjnI	CCWGG	1 cut(s)	62
AluBI	AGCT	6 cut(s)	205, 365, 503, 968, 1281, 1397
AluI	AGCT	6 cut(s)	205, 365, 503, 968, 1281, 1397
Alw26I	GTCTC	7 cut(s)	51, 594, 614, 614, 670, 753, 768
AlwI	GGATC	1 cut(s)	1124
AlwNI	CAGNNNCTG	1 cut(s)	751
AoxI	GGCC	1 cut(s)	1363
ApeKI	GCWGC	5 cut(s)	40, 54, 776, 1298, 1397
ApoI	RAATTY	4 cut(s)	152, 234, 781, 1414
AspLEI	GCGC	2 cut(s)	382, 452
AspS9I	GGNCC	1 cut(s)	1286
AsuC2I	CCSGG	1 cut(s)	1180
AsuHPI	GGTGA	6 cut(s)	74, 84, 191, 231, 887, 895
AsuII	TTCGAA	1 cut(s)	269
AvaII	GGWCC	1 cut(s)	1286
BalI	TGGCCA	1 cut(s)	1365
BbsI	GAAGAC	1 cut(s)	162
BbvI	GCAGC	5 cut(s)	27, 66, 763, 1285, 1384
BccI	CCATC	5 cut(s)	237, 296, 631, 874, 905
BceAI	ACGGC	1 cut(s)	28
BciT130I	CCWGG	1 cut(s)	64
BcnI	CCSGG	1 cut(s)	1180
BcoDI	GTCTC	7 cut(s)	51, 594, 614, 614, 670, 753, 768
BfaI	CTAG	1 cut(s)	959
BfmI	CTRYAG	2 cut(s)	743, 1398
BfoI	RGCGCY	1 cut(s)	453
BisI	GCNGC	6 cut(s)	41, 55, 777, 1188, 1299, 1398
BlpI	GCTNAGC	1 cut(s)	504
BlsI	GCNGC	6 cut(s)	42, 56, 778, 1189, 1300, 1399
Bme1390I	CCNGG	2 cut(s)	64, 1180
Bme18I	GGWCC	1 cut(s)	1286
BmgT120I	GGNCC	1 cut(s)	1286
BmiI	GGNNCC	1 cut(s)	1269
BmrFI	CCNGG	2 cut(s)	64, 1180
BmsI	GCATC	3 cut(s)	561, 973, 1183
BoxI	GACNNNNGTC	1 cut(s)	606
BpiI	GAAGAC	1 cut(s)	162
BpmI	CTGGAG	1 cut(s)	1220
Bpu1102I	GCTNAGC	1 cut(s)	504
Bpu14I	TTCGAA	1 cut(s)	269
BpuEI	CTTGAG	1 cut(s)	971
BpuMI	CCSGG	1 cut(s)	1180
BsaAI	YACGTR	2 cut(s)	332, 831
BsaI	GGTCTC	1 cut(s)	768
BsaXI	ACNNNNNCTCC	2 cut(s)	611, 641
Bsc4I	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
Bse1I	ACTGG	2 cut(s)	166, 1203
Bse3DI	GCAATG	4 cut(s)	35, 465, 906, 1056
BseBI	CCWGG	1 cut(s)	64
BseGI	GGATG	2 cut(s)	307, 1198
BseLI	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
BseMI	GCAATG	4 cut(s)	35, 465, 906, 1056
BseMII	CTCAG	3 cut(s)	64, 714, 1407
BseNI	ACTGG	2 cut(s)	166, 1203
BseRI	GAGGAG	1 cut(s)	607
BseXI	GCAGC	5 cut(s)	27, 66, 763, 1285, 1384
BshFI	GGCC	1 cut(s)	1365
BsiSI	CCGG	1 cut(s)	1180
BslFI	GGGAC	1 cut(s)	1261
BslI	CCNNNNNNNGG	3 cut(s)	694, 1186, 1244
BsmAI	GTCTC	7 cut(s)	51, 594, 614, 614, 670, 753, 768
BsmBI	CGTCTC	2 cut(s)	51, 614
BsmFI	GGGAC	1 cut(s)	1261
BsnI	GGCC	1 cut(s)	1365
Bso31I	GGTCTC	1 cut(s)	768
Bsp119I	TTCGAA	1 cut(s)	269
Bsp143I	GATC	4 cut(s)	970, 1053, 1129, 1308
Bsp1720I	GCTNAGC	1 cut(s)	504
BspACI	CCGC	4 cut(s)	760, 1187, 1190, 1349
BspANI	GGCC	1 cut(s)	1365
BspCNI	CTCAG	3 cut(s)	63, 715, 1406
BspLI	GGNNCC	1 cut(s)	1269
BspMAI	CTGCAG	2 cut(s)	747, 1402
BspPI	GGATC	1 cut(s)	1124
BspQI	GCTCTTC	1 cut(s)	958
BspT104I	TTCGAA	1 cut(s)	269
BspTNI	GGTCTC	1 cut(s)	768
BsrDI	GCAATG	4 cut(s)	35, 465, 906, 1056
BsrI	ACTGG	2 cut(s)	166, 1203
BssMI	GATC	4 cut(s)	970, 1053, 1129, 1308
Bst2UI	CCWGG	1 cut(s)	64
Bst4CI	ACNGT	2 cut(s)	14, 625
Bst6I	CTCTTC	1 cut(s)	958
BstBAI	YACGTR	2 cut(s)	332, 831
BstBI	TTCGAA	1 cut(s)	269
BstC8I	GCNNGC	5 cut(s)	378, 1025, 1126, 1347, 1377
BstDEI	CTNAG	4 cut(s)	50, 504, 723, 1393
BstF5I	GGATG	2 cut(s)	307, 1198
BstH2I	RGCGCY	1 cut(s)	453
BstHHI	GCGC	2 cut(s)	382, 452
BstKTI	GATC	4 cut(s)	973, 1056, 1132, 1311
BstMAI	GTCTC	7 cut(s)	51, 594, 614, 614, 670, 753, 768
BstMBI	GATC	4 cut(s)	970, 1053, 1129, 1308
BstMWI	GCNNNNNNNGC	3 cut(s)	905, 1184, 1193
BstNI	CCWGG	1 cut(s)	64
BstNSI	RCATGY	3 cut(s)	380, 512, 665
BstPAI	GACNNNNGTC	1 cut(s)	606
BstSCI	CCNGG	2 cut(s)	62, 1178
BstSFI	CTRYAG	2 cut(s)	743, 1398
BstSNI	TACGTA	1 cut(s)	831
BstV1I	GCAGC	5 cut(s)	27, 66, 763, 1285, 1384
BstV2I	GAAGAC	1 cut(s)	162
BsuRI	GGCC	1 cut(s)	1365
BtsCI	GGATG	2 cut(s)	307, 1198
BtsIMutI	CAGTG	3 cut(s)	261, 804, 1196
Cac8I	GCNNGC	5 cut(s)	378, 1025, 1126, 1347, 1377
CaiI	CAGNNNCTG	1 cut(s)	751
CfoI	GCGC	2 cut(s)	382, 452
Cfr13I	GGNCC	1 cut(s)	1286
Csp6I	GTAC	2 cut(s)	67, 1387
CviAII	CATG	8 cut(s)	21, 140, 377, 509, 589, 662, 767, 1006
CviQI	GTAC	2 cut(s)	67, 1387
DdeI	CTNAG	4 cut(s)	50, 504, 723, 1393
DpnI	GATC	4 cut(s)	972, 1055, 1131, 1310
DpnII	GATC	4 cut(s)	970, 1053, 1129, 1308
EaeI	YGGCCR	1 cut(s)	1363
Eam1104I	CTCTTC	1 cut(s)	958
EarI	CTCTTC	1 cut(s)	958
EciI	GGCGGA	2 cut(s)	1205, 1364
Eco105I	TACGTA	1 cut(s)	831
Eco31I	GGTCTC	1 cut(s)	768
Eco47I	GGWCC	1 cut(s)	1286
Eco57I	CTGAAG	2 cut(s)	329, 474
EcoRII	CCWGG	1 cut(s)	62
Esp3I	CGTCTC	2 cut(s)	51, 614
FaeI	CATG	8 cut(s)	24, 143, 380, 512, 592, 665, 770, 1009
FalI	AAGNNNNNCTT	2 cut(s)	447, 479
FaqI	GGGAC	1 cut(s)	1261
FatI	CATG	8 cut(s)	20, 139, 376, 508, 588, 661, 766, 1005
FauNDI	CATATG	1 cut(s)	1294
Fnu4HI	GCNGC	6 cut(s)	41, 55, 777, 1188, 1299, 1398
FokI	GGATG	2 cut(s)	314, 1205
Fsp4HI	GCNGC	6 cut(s)	41, 55, 777, 1188, 1299, 1398
FspBI	CTAG	1 cut(s)	959
GlaI	GCGC	2 cut(s)	381, 451
GluI	GCNGC	6 cut(s)	41, 55, 777, 1188, 1299, 1398
GsuI	CTGGAG	1 cut(s)	1220
HaeII	RGCGCY	1 cut(s)	453
HaeIII	GGCC	1 cut(s)	1365
HapII	CCGG	1 cut(s)	1180
HhaI	GCGC	2 cut(s)	382, 452
Hin1II	CATG	8 cut(s)	24, 143, 380, 512, 592, 665, 770, 1009
Hin6I	GCGC	2 cut(s)	380, 450
HinP1I	GCGC	2 cut(s)	380, 450
HinfI	GANTC	4 cut(s)	79, 266, 284, 816
HpaII	CCGG	1 cut(s)	1180
HphI	GGTGA	6 cut(s)	74, 84, 191, 231, 887, 895
Hpy166II	GTNNAC	2 cut(s)	1096, 1289
Hpy188I	TCNGA	3 cut(s)	348, 689, 975
Hpy188III	TCNNGA	6 cut(s)	179, 611, 667, 923, 950, 1105
Hpy8I	GTNNAC	2 cut(s)	1096, 1289
HpyAV	CCTTC	4 cut(s)	95, 198, 349, 796
HpyCH4III	ACNGT	2 cut(s)	14, 625
HpyCH4IV	ACGT	3 cut(s)	331, 607, 830
HpyF10VI	GCNNNNNNNGC	3 cut(s)	905, 1184, 1193
HpyF3I	CTNAG	4 cut(s)	50, 504, 723, 1393
HpySE526I	ACGT	3 cut(s)	331, 607, 830
Hsp92II	CATG	8 cut(s)	24, 143, 380, 512, 592, 665, 770, 1009
HspAI	GCGC	2 cut(s)	380, 450
Kzo9I	GATC	4 cut(s)	970, 1053, 1129, 1308
LguI	GCTCTTC	1 cut(s)	958
LmnI	GCTCC	1 cut(s)	594
Lsp1109I	GCAGC	5 cut(s)	27, 66, 763, 1285, 1384
LweI	GCATC	3 cut(s)	561, 973, 1183
MaeI	CTAG	1 cut(s)	959
MaeII	ACGT	3 cut(s)	331, 607, 830
MaeIII	GTNAC	2 cut(s)	216, 941
MalI	GATC	4 cut(s)	972, 1055, 1131, 1310
MboI	GATC	4 cut(s)	970, 1053, 1129, 1308
MboII	GAAGA	9 cut(s)	93, 162, 165, 188, 289, 335, 561, 975, 1381
MlsI	TGGCCA	1 cut(s)	1365
MluNI	TGGCCA	1 cut(s)	1365
MmeI	TCCRAC	2 cut(s)	690, 1312
Mox20I	TGGCCA	1 cut(s)	1365
MscI	TGGCCA	1 cut(s)	1365
MseI	TTAA	9 cut(s)	123, 150, 311, 474, 486, 561, 792, 1173, 1220
MslI	CAYNNNNRTG	1 cut(s)	144
Msp20I	TGGCCA	1 cut(s)	1365
MspA1I	CMGCKG	1 cut(s)	1397
MspI	CCGG	1 cut(s)	1180
MspR9I	CCNGG	2 cut(s)	64, 1180
MvaI	CCWGG	1 cut(s)	64
MwoI	GCNNNNNNNGC	3 cut(s)	905, 1184, 1193
NciI	CCSGG	1 cut(s)	1180
NdeI	CATATG	1 cut(s)	1294
NdeII	GATC	4 cut(s)	970, 1053, 1129, 1308
NlaIII	CATG	8 cut(s)	24, 143, 380, 512, 592, 665, 770, 1009
NlaIV	GGNNCC	1 cut(s)	1269
NmeAIII	GCCGAG	1 cut(s)	674
NspI	RCATGY	3 cut(s)	380, 512, 665
NspV	TTCGAA	1 cut(s)	269
PaeI	GCATGC	1 cut(s)	380
PciI	ACATGT	1 cut(s)	661
PciSI	GCTCTTC	1 cut(s)	958
PfeI	GAWTC	4 cut(s)	79, 266, 284, 816
PflFI	GACNNNGTC	1 cut(s)	625
PkrI	GCNGC	6 cut(s)	42, 56, 778, 1189, 1300, 1399
Ppu21I	YACGTR	2 cut(s)	332, 831
PscI	ACATGT	1 cut(s)	661
PshAI	GACNNNNGTC	1 cut(s)	606
Psp6I	CCWGG	1 cut(s)	62
PspGI	CCWGG	1 cut(s)	62
PspN4I	GGNNCC	1 cut(s)	1269
PspPI	GGNCC	1 cut(s)	1286
PstI	CTGCAG	2 cut(s)	747, 1402
PstNI	CAGNNNCTG	1 cut(s)	751
PsyI	GACNNNGTC	1 cut(s)	625
PvuII	CAGCTG	1 cut(s)	1397
RsaI	GTAC	2 cut(s)	68, 1388
RsaNI	GTAC	2 cut(s)	67, 1387
RseI	CAYNNNNRTG	1 cut(s)	144
SapI	GCTCTTC	1 cut(s)	958
SaqAI	TTAA	9 cut(s)	123, 150, 311, 474, 486, 561, 792, 1173, 1220
SatI	GCNGC	6 cut(s)	41, 55, 777, 1188, 1299, 1398
Sau3AI	GATC	4 cut(s)	970, 1053, 1129, 1308
Sau96I	GGNCC	1 cut(s)	1286
ScrFI	CCNGG	2 cut(s)	64, 1180
SfaNI	GCATC	3 cut(s)	561, 973, 1183
SfcI	CTRYAG	2 cut(s)	743, 1398
SfuI	TTCGAA	1 cut(s)	269
SinI	GGWCC	1 cut(s)	1286
SmiMI	CAYNNNNRTG	1 cut(s)	144
SmlI	CTYRAG	1 cut(s)	950
SmoI	CTYRAG	1 cut(s)	950
SnaBI	TACGTA	1 cut(s)	831
SphI	GCATGC	1 cut(s)	380
SsiI	CCGC	4 cut(s)	760, 1187, 1190, 1349
SspI	AATATT	1 cut(s)	1081
SspMI	CTAG	1 cut(s)	959
StyD4I	CCNGG	2 cut(s)	62, 1178
TaaI	ACNGT	2 cut(s)	14, 625
TaiI	ACGT	3 cut(s)	334, 610, 833
TaqI	TCGA	7 cut(s)	269, 384, 612, 629, 668, 1115, 1225
TauI	GCSGC	1 cut(s)	1190
TfiI	GAWTC	4 cut(s)	79, 266, 284, 816
Tru1I	TTAA	9 cut(s)	123, 150, 311, 474, 486, 561, 792, 1173, 1220
Tru9I	TTAA	9 cut(s)	123, 150, 311, 474, 486, 561, 792, 1173, 1220
TscAI	CASTG	3 cut(s)	268, 804, 1203
TseI	GCWGC	5 cut(s)	40, 54, 776, 1298, 1397
TspDTI	ATGAA	8 cut(s)	9, 77, 93, 156, 198, 503, 1022, 1101
TspRI	CASTG	3 cut(s)	268, 804, 1203
Tth111I	GACNNNGTC	1 cut(s)	625
VpaK11BI	GGWCC	1 cut(s)	1286
XapI	RAATTY	4 cut(s)	152, 234, 781, 1414
XceI	RCATGY	3 cut(s)	380, 512, 665
XspI	CTAG	1 cut(s)	959

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