Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0011738

Physical Location & Seq

Genomic Coordinates Forward (+)

58060194 .. 58063092

Gene Structure 2899 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG413000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1602 bp

ATGGGTTTTTTCCTGCGTCGATTTACACAATCTTTAATTTCCTTGAAACCCATCAATCAGAGAACTCAACTGATCCGCACACACTCAGCACCAAACAATGTTGTCAGAGCCATCTGTGATTCTTTCAGAACCGGTTGGAACTGGGATGCTCTGACATCAAGATTTGATTCTCTCAAATTAGATGGAAAGCTTGTTGAGAGTGTGTTGTTAGAACTGAAGGAACCAGTTGATGCAAAACGTGCTCTGGGTTTCTTCCACTGGGCATCAAACAGGAAAGGGTTTGATCATGGGGTCTGGTCCTACTCCATAGCCATTCATATTTTGGTCAGAGCCAAGATGGTCATGGATGCTAGAGCTTTGATCGAATCGGTTTTGAAGAAGAATGTTGGAAATGAGTTGAAGTTTTCGGTGGTGGATTCGTTACTTAGTAGTTACGAGGTCACTGCTTCGAACCCTTTTGTGTTTGATTTGCTTGTACAGACTTACGCTAAAATGAGAATGTTTGAGACTGGTTTTGATGTTTGTTGCTATTTGAGGGATCGTGGGTTGCCTTTAAGTCTTACAAGTTACAATAGTTTGCTTCGAGTTGTTCAAAGATCGGACCGAAATGGTCTGGTTTGGAAGATTTATGAGCATATTGTGGAAAGGAGGAGTTATCCGAATGATGAGACGGTGAGGATCTTGATTGATGCTTTGTGCAAGGAAGGGGAGTTGCGGAAATGTGCTGACATGTTGGAGAGGATTCATGGGAAGAAATGTTCTCCTTCTGTGATTGTGAATGCTAGTTTGGTTTTTAGGATTTTGGAGGAGGGTAGAGTTGAAGAAGGTGTGGTATTGTTGAAGAGAATGTTGCAGAAGAATATGGTTCTTGATACGATTGCTTACTCATTGATTGTTCATGCTAAAGTTAAACTAGGAAATTTAAGCTCTGCACAGCAGGTGTATGAAGAAATGCTTAAGAGAGGTTTTCGAGCAAACTCTTTTGTTTATACCTTGTTCATTGAGGCTTATTGTAAAGCTGAAAGAATTGATGAAGCACAATCCATGATGAATGAGATGGGAAATATGGATTTGAAGCCATATGCTGAGAGCTATAATTTTCTTATTGAGGGATGTGCTAGAGCTGGTAGAGTGGAAGAAAGTGTGAGTTACTTGAAGCAGATGGTGGAGAGCAGGTTCATTCCTAGTCTTGGGGCTTTCAATGAGATGGTCGGAAAGCTATGCGAAATTGGGGATGTGGACCAAGCCAATGTGATGTTAACGATACTGTTAGATAAAGGGTTCTTACCGAATGACATTACATACTCTCTTCTGATTGACGGGTATGCGAGAAAAGGGGAGAATGATGAAGTTCTGAAGCTCTATTATGAGATGGAGTCCAGGTCACTTCCTCCTGGAATATTGGTTTTTACATCATTGATAAAAAGCTTTTGCCAATGCGGGAAATTGGAGGAAGCAAAAAAGTATTTCAGAATCATGAAAGATCGATCAATAGCCCCAAGTTTATCTACATATGAGACATTGATTGCAAACCACTTTGAGCAGGGAAATACAGAGAAGGCTGATTGCTTGCCTTGCAATGAAATGGTTTTACAGGACTGA

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

ko05134 map05134

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

533

Amino Acids

60.86

Weight (kDa)

7.85

Isoelectric Point (pI)

35.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	291 - 334	7.2e-06	PPR repeat family
PPR_1	PF12854	321 - 353	8.3e-07	PPR repeat
PPR_2	PF13041	326 - 374	3.4e-09	PPR repeat family
PPR	PF01535	364 - 392	6.2e-06	PPR repeat
PPR_2	PF13041	396 - 444	2.6e-07	PPR repeat family
PPR_1	PF12854	426 - 459	5.4e-06	PPR repeat
PPR	PF01535	433 - 461	1.2e-06	PPR repeat
PPR_3	PF13812	454 - 509	6.4e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	463 - 494	5e-06	PPR repeat
PPR_2	PF13041	465 - 509	1.4e-09	PPR repeat family
PPR	PF01535	469 - 497	1.1e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Orthologous Genes (Group: OG0011738)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G66345
fragaria_vesca	FvH4_5g33100 FvH4_5g33100
prunus_persica	Prupe.4G237400_v2.0.a1
pyrus_communis	pycom11g17530
rosa_chinensis	RchiOBHm_Chr7g0231271 RchiOBHm_Chr7g0231291
rosa_laevigata	RLG00000001422
rosa_multiflora	Rmu_co8271321.1_g000001 Rmu_sc0003396.1_g000009 Rmu_sc0004571.1_g000005
rosa_rugosa	Rorug07G0266200
rosa_samantha	Rh7AG419400 Rh7AG419600 Rh7BG394600 Rh7CG439100 Rh7CG439200 Rh7DG413000
rosa_wichuraiana	Rw7G034670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	928
Acc36I	ACCTGC	2 cut(s)	928, 1164
AciI	CCGC	3 cut(s)	76, 715, 1440
AclWI	GGATC	3 cut(s)	67, 546, 686
AcsI	RAATTY	1 cut(s)	919
AcuI	CTGAAG	2 cut(s)	236, 1376
AfaI	GTAC	1 cut(s)	477
AfiI	CCNNNNNNNGG	1 cut(s)	1190
AflII	CTTAAG	1 cut(s)	956
AflIII	ACRYGT	1 cut(s)	729
AgeI	ACCGGT	1 cut(s)	131
AgsI	TTSAA	9 cut(s)	46, 376, 400, 593, 821, 841, 1075, 1156, 1201
AjnI	CCWGG	2 cut(s)	1379, 1393
AjuI	GAANNNNNNNTTGG	2 cut(s)	770, 802
AloI	GAACNNNNNNTCC	4 cut(s)	742, 774, 1160, 1192
AluBI	AGCT	9 cut(s)	190, 356, 927, 1019, 1092, 1124, 1219, 1360, 1428
AluI	AGCT	9 cut(s)	190, 356, 927, 1019, 1092, 1124, 1219, 1360, 1428
Alw21I	GWGCWC	1 cut(s)	244
Alw26I	GTCTC	3 cut(s)	500, 662, 1511
AlwI	GGATC	3 cut(s)	67, 546, 686
ApoI	RAATTY	1 cut(s)	919
AsiGI	ACCGGT	1 cut(s)	131
AspS9I	GGNCC	3 cut(s)	297, 601, 1240
AsuHPI	GGTGA	1 cut(s)	685
AsuII	TTCGAA	1 cut(s)	449
AvaII	GGWCC	3 cut(s)	297, 601, 1240
Bbv12I	GWGCWC	1 cut(s)	244
BccI	CCATC	8 cut(s)	59, 119, 176, 331, 1051, 1156, 1201, 1366
BcgI	CGANNNNNNTGC	2 cut(s)	425, 459
BciT130I	CCWGG	2 cut(s)	1381, 1395
BclI	TGATCA	1 cut(s)	283
BcoDI	GTCTC	3 cut(s)	500, 662, 1511
BfaI	CTAG	5 cut(s)	351, 783, 914, 1119, 1185
BfrI	CTTAAG	1 cut(s)	956
BfuAI	ACCTGC	2 cut(s)	928, 1164
Bme1390I	CCNGG	2 cut(s)	1381, 1395
Bme18I	GGWCC	3 cut(s)	297, 601, 1240
BmgT120I	GGNCC	3 cut(s)	297, 601, 1240
BmiI	GGNNCC	1 cut(s)	222
BmrFI	CCNGG	2 cut(s)	1381, 1395
BmrI	ACTGGG	2 cut(s)	151, 268
BmsI	GCATC	5 cut(s)	136, 220, 272, 337, 679
BmuI	ACTGGG	2 cut(s)	151, 268
Bpu14I	TTCGAA	1 cut(s)	449
Bsa29I	ATCGAT	1 cut(s)	1486
BsaWI	WCCGGW	1 cut(s)	131
BsaXI	ACNNNNNCTCC	4 cut(s)	1160, 1190, 1367, 1397
Bsc4I	CCNNNNNNNGG	1 cut(s)	1190
Bse118I	RCCGGY	1 cut(s)	131
Bse1I	ACTGG	4 cut(s)	146, 224, 263, 514
Bse3DI	GCAATG	1 cut(s)	1585
BseBI	CCWGG	2 cut(s)	1381, 1395
BseCI	ATCGAT	1 cut(s)	1486
BseGI	GGATG	4 cut(s)	151, 352, 1118, 1240
BseLI	CCNNNNNNNGG	1 cut(s)	1190
BseMI	GCAATG	1 cut(s)	1585
BseMII	CTCAG	2 cut(s)	99, 1077
BseNI	ACTGG	4 cut(s)	146, 224, 263, 514
BseRI	GAGGAG	2 cut(s)	664, 821
BsgI	GTGCAG	1 cut(s)	915
BshTI	ACCGGT	1 cut(s)	131
BshVI	ATCGAT	1 cut(s)	1486
BsiHKAI	GWGCWC	1 cut(s)	244
BsiSI	CCGG	1 cut(s)	132
BslI	CCNNNNNNNGG	1 cut(s)	1190
BsmAI	GTCTC	3 cut(s)	500, 662, 1511
BsmBI	CGTCTC	1 cut(s)	662
BsmI	GAATGC	1 cut(s)	784
Bsp119I	TTCGAA	1 cut(s)	449
Bsp1286I	GDGCHC	1 cut(s)	244
Bsp1407I	TGTACA	1 cut(s)	475
Bsp143I	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
BspACI	CCGC	3 cut(s)	76, 715, 1440
BspCNI	CTCAG	2 cut(s)	98, 1078
BspDI	ATCGAT	1 cut(s)	1486
BspHI	TCATGA	1 cut(s)	1476
BspLI	GGNNCC	1 cut(s)	222
BspMI	ACCTGC	2 cut(s)	928, 1164
BspPI	GGATC	3 cut(s)	67, 546, 686
BspT104I	TTCGAA	1 cut(s)	449
BspTI	CTTAAG	1 cut(s)	956
BsrDI	GCAATG	1 cut(s)	1585
BsrFI	RCCGGY	1 cut(s)	131
BsrGI	TGTACA	1 cut(s)	475
BsrI	ACTGG	4 cut(s)	146, 224, 263, 514
BssAI	RCCGGY	1 cut(s)	131
BssMI	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
Bst2UI	CCWGG	2 cut(s)	1381, 1395
Bst4CI	ACNGT	2 cut(s)	673, 1269
Bst6I	CTCTTC	2 cut(s)	836, 1314
BstAFI	CTTAAG	1 cut(s)	956
BstAPI	GCANNNNNTGC	1 cut(s)	239
BstAUI	TGTACA	1 cut(s)	475
BstBI	TTCGAA	1 cut(s)	449
BstC8I	GCNNGC	1 cut(s)	1571
BstDEI	CTNAG	3 cut(s)	85, 425, 1086
BstF5I	GGATG	4 cut(s)	151, 352, 1118, 1240
BstKTI	GATC	8 cut(s)	75, 286, 363, 541, 599, 681, 1486, 1490
BstMAI	GTCTC	3 cut(s)	500, 662, 1511
BstMBI	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
BstMWI	GCNNNNNNNGC	2 cut(s)	239, 1575
BstNI	CCWGG	2 cut(s)	1381, 1395
BstNSI	RCATGY	1 cut(s)	733
BstSCI	CCNGG	2 cut(s)	1379, 1393
BstX2I	RGATCY	1 cut(s)	678
BstYI	RGATCY	1 cut(s)	678
Bsu15I	ATCGAT	1 cut(s)	1486
BsuTUI	ATCGAT	1 cut(s)	1486
BtsCI	GGATG	4 cut(s)	151, 352, 1118, 1240
BtsI	GCAGTG	1 cut(s)	441
BtsIMutI	CAGTG	2 cut(s)	256, 441
BveI	ACCTGC	2 cut(s)	928, 1164
Cac8I	GCNNGC	1 cut(s)	1571
CciI	TCATGA	1 cut(s)	1476
Cfr10I	RCCGGY	1 cut(s)	131
Cfr13I	GGNCC	3 cut(s)	297, 601, 1240
ClaI	ATCGAT	1 cut(s)	1486
CpoI	CGGWCCG	1 cut(s)	601
CseI	GACGC	1 cut(s)	5
Csp6I	GTAC	1 cut(s)	476
CspAI	ACCGGT	1 cut(s)	131
CspI	CGGWCCG	1 cut(s)	601
CviAII	CATG	7 cut(s)	287, 343, 730, 746, 899, 1045, 1477
CviQI	GTAC	1 cut(s)	476
DdeI	CTNAG	3 cut(s)	85, 425, 1086
DpnI	GATC	8 cut(s)	74, 285, 362, 540, 598, 680, 1485, 1489
DpnII	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
Eam1104I	CTCTTC	2 cut(s)	836, 1314
EarI	CTCTTC	2 cut(s)	836, 1314
Eco47I	GGWCC	3 cut(s)	297, 601, 1240
Eco57I	CTGAAG	2 cut(s)	236, 1376
EcoRII	CCWGG	2 cut(s)	1379, 1393
Esp3I	CGTCTC	1 cut(s)	662
FaeI	CATG	7 cut(s)	290, 346, 733, 749, 902, 1048, 1480
FalI	AAGNNNNNCTT	2 cut(s)	939, 971
FatI	CATG	7 cut(s)	286, 342, 729, 745, 898, 1044, 1476
FauI	CCCGC	1 cut(s)	1433
FauNDI	CATATG	2 cut(s)	1081, 1513
FbaI	TGATCA	1 cut(s)	283
FokI	GGATG	4 cut(s)	158, 359, 1125, 1247
FspBI	CTAG	5 cut(s)	351, 783, 914, 1119, 1185
HapII	CCGG	1 cut(s)	132
HgaI	GACGC	1 cut(s)	5
Hin1II	CATG	7 cut(s)	290, 346, 733, 749, 902, 1048, 1480
HincII	GTYRAC	1 cut(s)	1260
HindII	GTYRAC	1 cut(s)	1260
HindIII	AAGCTT	2 cut(s)	188, 1426
HinfI	GANTC	7 cut(s)	119, 167, 365, 416, 742, 1376, 1473
HpaI	GTTAAC	1 cut(s)	1260
HpaII	CCGG	1 cut(s)	132
HphI	GGTGA	1 cut(s)	685
Hpy166II	GTNNAC	2 cut(s)	1240, 1260
Hpy188III	TCNNGA	4 cut(s)	159, 682, 869, 1477
Hpy8I	GTNNAC	2 cut(s)	1240, 1260
Hpy99I	CGWCG	1 cut(s)	21
HpyAV	CCTTC	5 cut(s)	211, 698, 774, 818, 1552
HpyCH4III	ACNGT	2 cut(s)	673, 1269
HpyCH4IV	ACGT	1 cut(s)	238
HpyCH4V	TGCA	6 cut(s)	233, 699, 853, 932, 1529, 1578
HpyF10VI	GCNNNNNNNGC	2 cut(s)	239, 1575
HpyF3I	CTNAG	3 cut(s)	85, 425, 1086
HpySE526I	ACGT	1 cut(s)	238
Hsp92II	CATG	7 cut(s)	290, 346, 733, 749, 902, 1048, 1480
Ksp22I	TGATCA	1 cut(s)	283
KspAI	GTTAAC	1 cut(s)	1260
Kzo9I	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
LweI	GCATC	5 cut(s)	136, 220, 272, 337, 679
MaeI	CTAG	5 cut(s)	351, 783, 914, 1119, 1185
MaeII	ACGT	1 cut(s)	238
MaeIII	GTNAC	6 cut(s)	420, 431, 439, 566, 1148, 1383
MalI	GATC	8 cut(s)	74, 285, 362, 540, 598, 680, 1485, 1489
MboI	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
MflI	RGATCY	1 cut(s)	678
MhlI	GDGCHC	1 cut(s)	244
MluCI	AATT	7 cut(s)	36, 176, 919, 1026, 1096, 1227, 1445
MlyI	GAGTC	1 cut(s)	1385
MmeI	TCCRAC	4 cut(s)	116, 367, 714, 1192
MseI	TTAA	6 cut(s)	35, 554, 909, 923, 957, 1259
MspCI	CTTAAG	1 cut(s)	956
MspI	CCGG	1 cut(s)	132
MspR9I	CCNGG	2 cut(s)	1381, 1395
Mva1269I	GAATGC	1 cut(s)	784
MvaI	CCWGG	2 cut(s)	1381, 1395
MwoI	GCNNNNNNNGC	2 cut(s)	239, 1575
NdeI	CATATG	2 cut(s)	1081, 1513
NdeII	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
NlaIII	CATG	7 cut(s)	290, 346, 733, 749, 902, 1048, 1480
NlaIV	GGNNCC	1 cut(s)	222
NmuCI	GTSAC	2 cut(s)	439, 1383
NspI	RCATGY	1 cut(s)	733
NspV	TTCGAA	1 cut(s)	449
PagI	TCATGA	1 cut(s)	1476
PaqCI	CACCTGC	1 cut(s)	928
PciI	ACATGT	1 cut(s)	729
PctI	GAATGC	1 cut(s)	784
PfeI	GAWTC	6 cut(s)	119, 167, 365, 416, 742, 1473
PfoI	TCCNGGA	1 cut(s)	1393
PinAI	ACCGGT	1 cut(s)	131
PleI	GAGTC	1 cut(s)	1384
PpsI	GAGTC	1 cut(s)	1384
PscI	ACATGT	1 cut(s)	729
Psp6I	CCWGG	2 cut(s)	1379, 1393
PspGI	CCWGG	2 cut(s)	1379, 1393
PspN4I	GGNNCC	1 cut(s)	222
PspPI	GGNCC	3 cut(s)	297, 601, 1240
PsuI	RGATCY	1 cut(s)	678
RsaI	GTAC	1 cut(s)	477
RsaNI	GTAC	1 cut(s)	476
Rsr2I	CGGWCCG	1 cut(s)	601
RsrII	CGGWCCG	1 cut(s)	601
SaqAI	TTAA	6 cut(s)	35, 554, 909, 923, 957, 1259
Sau3AI	GATC	8 cut(s)	72, 283, 360, 538, 596, 678, 1483, 1487
Sau96I	GGNCC	3 cut(s)	297, 601, 1240
SchI	GAGTC	1 cut(s)	1385
ScrFI	CCNGG	2 cut(s)	1381, 1395
SduI	GDGCHC	1 cut(s)	244
SfaNI	GCATC	5 cut(s)	136, 220, 272, 337, 679
SfuI	TTCGAA	1 cut(s)	449
SinI	GGWCC	3 cut(s)	297, 601, 1240
SmlI	CTYRAG	1 cut(s)	956
SmoI	CTYRAG	1 cut(s)	956
Sse9I	AATT	7 cut(s)	36, 176, 919, 1026, 1096, 1227, 1445
SsiI	CCGC	3 cut(s)	76, 715, 1440
SspI	AATATT	1 cut(s)	1401
SspMI	CTAG	5 cut(s)	351, 783, 914, 1119, 1185
StyD4I	CCNGG	2 cut(s)	1379, 1393
TaaI	ACNGT	2 cut(s)	673, 1269
TaiI	ACGT	1 cut(s)	241
TaqI	TCGA	6 cut(s)	19, 363, 449, 583, 970, 1486
TaqII	GACCGA	1 cut(s)	618
TasI	AATT	7 cut(s)	36, 176, 919, 1026, 1096, 1227, 1445
TatI	WGTACW	1 cut(s)	475
TfiI	GAWTC	6 cut(s)	119, 167, 365, 416, 742, 1473
Tru1I	TTAA	6 cut(s)	35, 554, 909, 923, 957, 1259
Tru9I	TTAA	6 cut(s)	35, 554, 909, 923, 957, 1259
TscAI	CASTG	2 cut(s)	263, 448
TseFI	GTSAC	2 cut(s)	439, 1383
Tsp45I	GTSAC	2 cut(s)	439, 1383
TspRI	CASTG	2 cut(s)	263, 448
Vha464I	CTTAAG	1 cut(s)	956
VpaK11BI	GGWCC	3 cut(s)	297, 601, 1240
XapI	RAATTY	1 cut(s)	919
XceI	RCATGY	1 cut(s)	733
XcmI	CCANNNNNNNNNTGG	2 cut(s)	319, 340
XspI	CTAG	5 cut(s)	351, 783, 914, 1119, 1185

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