Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0011738

Physical Location & Seq

Genomic Coordinates Forward (+)

43667906 .. 43669507

Gene Structure 1602 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG394600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1602 bp

ATGGGTTTTTTGCTGCGTCGAATTACACAATCTTTAATTTCCTTGAAACCCATCAATCACAGTACTCAACTGATCCACACACACTCAGCACCAAACAATGTTGTCAGAGCCATCTGTGATTCTTTCAGAACCGGTTGGAACTGGGATGCTCTGACATCAAGATTTGATTCTCTTACATTAGATGGAAAGCTTGTTGAGAGTGTGTTGTTGGAACTGAAGGAACCAGTTGATGCAAAACGTGCTCTGGGTTTCTTCCACTGGGCATCAAACAGGAAAGAGTTTGATCATGGGGTCTGGTCCTACTCCATAGCCATTCATATTTTGGTCAGAGCCAAGATGGTCATGGATGCTAGAGCTTTGATCGAATCGGTTTTGAAGAAGAATGTTGGAAATGAGTTGAAGTTTTCGGTTGTGGATTCGTTACTTTGTAGTTACGAGGTTACTGCTTCAAACCCTTTTGTGTTTGATTTGCTTGTACAGACTTACGCTAAAATGAGAATGTTTGAGACTGGTTTTGATGTTTGTTGCTATTTGAGGGAACGTGGGTTGCCTTTAGGTCTTACAAGTTACAATAGTTTGCTTCGAGTCGTTCAAAGATCTGACCGAAATGGTCTGGTTTGGAAGATTTATGAGCATATGGTGGAAAAAAGAAGTTATCCGAATGATGACACGGTGAGGATCTTGATTGATGCTTTGTGCAAGGAAGGGGAGTTGCGGAAGTATGCCGACATGTTGGAGAGGATTCATGGGAAGAGATGTTCTCCTTCTGTGATTGTGAATGCTAGTTTGGTGTTTAGGATATTGGAGGAGGGTAGAGTTGAAGAAGGTGTGGTGTTGTTGAAGAGAATGTTGCAAAAGAATATGGTTCTTGATACGATTGCTTACTCATTGATTGTTCATGCTAGAGTTAAACTAGGAAATTTAGGCTCTGCACAGCAGGTGTATGAAGAAATGCTTAAGAGAGGTTTTCGAGCAAACCCTTTTGTCTATACCTTGTTCATTGAGGCTCATTGTAAAGCCGGAAGAATTGATGAAGCACAATCCATGATGAATGAGATGGGAAATATGGATTTGAAGCCATATGATGAGAGCTATAATTTTCTTATTGAGGGATGTGCTAGAGCTGGTAGAGTGGAAGAAAGTGTGAGTTACTTGAAGCAGATGATGGAGAGCAGGTTCATTCCTAGTCTTGGGGCTTTCAATGAGATGGTTGGAAAGCTATGTGAAATTGGGGATGCGGACCAAGCCAATGCGATGTTAACTATGCTGTTAGATAAAGGGTTCTTACCGAATGACATTACGTACTCTCTTCTGATTGATGGGTATGCGAGAAAGGGGGAGAATGATGAAGTTCTGAAGCTATATTATGAGATGGAGTCCAGGTCACTTTCTCCTGGAATATTGGTTTTTACATCATTGATAAAGAGCTTTTGCCAATGCGGGAAATTGGAGGAAGCAAAAAAGTATTTCAGAATCATGAAAGATCGATCAATAGCCCCAAGTTTATCTACATATGAGACATTGATTGCGAACCACTTTGAGCAGGGAAATACAGAAAGGGCTGATTTCTTGCCTTGCAATGAAATGGATTTGAAGGAATGA

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)

6.63

Isoelectric Point (pI)

33.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	189 - 234	2.9e-07	PPR repeat family
PPR_1	PF12854	321 - 353	4.2e-07	PPR repeat
PPR_2	PF13041	328 - 374	8.2e-09	PPR repeat family
PPR	PF01535	364 - 392	1e-05	PPR repeat
PPR_2	PF13041	396 - 444	5.1e-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	2.9e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	463 - 494	3.2e-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

Species Filter

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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)	715, 1238, 1440
AclWI	GGATC	2 cut(s)	67, 686
AcsI	RAATTY	1 cut(s)	919
AcuI	CTGAAG	2 cut(s)	236, 1376
AfaI	GTAC	3 cut(s)	64, 477, 1304
AfiI	CCNNNNNNNGG	1 cut(s)	1190
AflII	CTTAAG	1 cut(s)	956
AflIII	ACRYGT	1 cut(s)	729
AgeI	ACCGGT	1 cut(s)	131
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	7 cut(s)	190, 356, 1092, 1124, 1219, 1360, 1428
AluI	AGCT	7 cut(s)	190, 356, 1092, 1124, 1219, 1360, 1428
Alw21I	GWGCWC	1 cut(s)	244
Alw26I	GTCTC	2 cut(s)	500, 1511
AlwI	GGATC	2 cut(s)	67, 686
ApeKI	GCWGC	1 cut(s)	13
ApoI	RAATTY	1 cut(s)	919
AsiGI	ACCGGT	1 cut(s)	131
AspS9I	GGNCC	2 cut(s)	297, 1240
AsuHPI	GGTGA	1 cut(s)	685
AvaII	GGWCC	2 cut(s)	297, 1240
Bbv12I	GWGCWC	1 cut(s)	244
BccI	CCATC	9 cut(s)	59, 119, 176, 331, 1051, 1159, 1201, 1313, 1366
BcgI	CGANNNNNNTGC	2 cut(s)	425, 459
BciT130I	CCWGG	2 cut(s)	1381, 1395
BclI	TGATCA	1 cut(s)	283
BcoDI	GTCTC	2 cut(s)	500, 1511
BfaI	CTAG	6 cut(s)	351, 783, 903, 914, 1119, 1185
BfrI	CTTAAG	1 cut(s)	956
BfuAI	ACCTGC	2 cut(s)	928, 1164
BglII	AGATCT	1 cut(s)	596
BisI	GCNGC	1 cut(s)	14
BlsI	GCNGC	1 cut(s)	15
BmcAI	AGTACT	1 cut(s)	64
Bme1390I	CCNGG	2 cut(s)	1381, 1395
Bme18I	GGWCC	2 cut(s)	297, 1240
BmgT120I	GGNCC	2 cut(s)	297, 1240
BmiI	GGNNCC	1 cut(s)	222
BmrFI	CCNGG	2 cut(s)	1381, 1395
BmrI	ACTGGG	2 cut(s)	151, 268
BmsI	GCATC	6 cut(s)	136, 220, 272, 337, 679, 1225
BmuI	ACTGGG	2 cut(s)	151, 268
BplI	GAGNNNNNCTC	2 cut(s)	745, 777
Bsa29I	ATCGAT	1 cut(s)	1486
BsaAI	YACGTR	1 cut(s)	1302
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	1 cut(s)	99
BseNI	ACTGG	4 cut(s)	146, 224, 263, 514
BseRI	GAGGAG	1 cut(s)	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	2 cut(s)	132, 1020
BslI	CCNNNNNNNGG	1 cut(s)	1190
BsmAI	GTCTC	2 cut(s)	500, 1511
BsmI	GAATGC	1 cut(s)	784
Bsp1286I	GDGCHC	1 cut(s)	244
Bsp1407I	TGTACA	1 cut(s)	475
Bsp143I	GATC	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
BspACI	CCGC	3 cut(s)	715, 1238, 1440
BspCNI	CTCAG	1 cut(s)	98
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	2 cut(s)	67, 686
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	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
Bst2UI	CCWGG	2 cut(s)	1381, 1395
Bst4CI	ACNGT	2 cut(s)	62, 673
Bst6I	CTCTTC	3 cut(s)	746, 836, 1314
BstAFI	CTTAAG	1 cut(s)	956
BstAPI	GCANNNNNTGC	1 cut(s)	239
BstAUI	TGTACA	1 cut(s)	475
BstBAI	YACGTR	1 cut(s)	1302
BstDEI	CTNAG	1 cut(s)	85
BstF5I	GGATG	4 cut(s)	151, 352, 1118, 1240
BstKTI	GATC	7 cut(s)	75, 286, 363, 599, 681, 1486, 1490
BstMAI	GTCTC	2 cut(s)	500, 1511
BstMBI	GATC	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
BstMWI	GCNNNNNNNGC	2 cut(s)	239, 1244
BstNI	CCWGG	2 cut(s)	1381, 1395
BstNSI	RCATGY	1 cut(s)	733
BstSCI	CCNGG	2 cut(s)	1379, 1393
BstSNI	TACGTA	1 cut(s)	1302
BstX2I	RGATCY	2 cut(s)	596, 678
BstYI	RGATCY	2 cut(s)	596, 678
Bsu15I	ATCGAT	1 cut(s)	1486
BsuTUI	ATCGAT	1 cut(s)	1486
BtgZI	GCGATG	1 cut(s)	1268
BtsCI	GGATG	4 cut(s)	151, 352, 1118, 1240
BtsIMutI	CAGTG	1 cut(s)	256
BveI	ACCTGC	2 cut(s)	928, 1164
CciI	TCATGA	1 cut(s)	1476
Cfr10I	RCCGGY	1 cut(s)	131
Cfr13I	GGNCC	2 cut(s)	297, 1240
ClaI	ATCGAT	1 cut(s)	1486
CseI	GACGC	1 cut(s)	5
Csp6I	GTAC	3 cut(s)	63, 476, 1303
CspAI	ACCGGT	1 cut(s)	131
CviAII	CATG	7 cut(s)	287, 343, 730, 746, 899, 1045, 1477
CviQI	GTAC	3 cut(s)	63, 476, 1303
DdeI	CTNAG	1 cut(s)	85
DpnI	GATC	7 cut(s)	74, 285, 362, 598, 680, 1485, 1489
DpnII	GATC	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
Eam1104I	CTCTTC	3 cut(s)	746, 836, 1314
EarI	CTCTTC	3 cut(s)	746, 836, 1314
Eco105I	TACGTA	1 cut(s)	1302
Eco47I	GGWCC	2 cut(s)	297, 1240
Eco57I	CTGAAG	2 cut(s)	236, 1376
EcoRII	CCWGG	2 cut(s)	1379, 1393
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	3 cut(s)	636, 1081, 1513
FbaI	TGATCA	1 cut(s)	283
Fnu4HI	GCNGC	1 cut(s)	14
FokI	GGATG	4 cut(s)	158, 359, 1125, 1247
Fsp4HI	GCNGC	1 cut(s)	14
FspBI	CTAG	6 cut(s)	351, 783, 903, 914, 1119, 1185
GluI	GCNGC	1 cut(s)	14
HapII	CCGG	2 cut(s)	132, 1020
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	1 cut(s)	188
HinfI	GANTC	8 cut(s)	119, 167, 365, 416, 585, 742, 1376, 1473
HpaI	GTTAAC	1 cut(s)	1260
HpaII	CCGG	2 cut(s)	132, 1020
HphI	GGTGA	1 cut(s)	685
Hpy166II	GTNNAC	1 cut(s)	1260
Hpy188I	TCNGA	9 cut(s)	107, 128, 153, 329, 601, 660, 1314, 1356, 1472
Hpy188III	TCNNGA	4 cut(s)	159, 682, 869, 1477
Hpy8I	GTNNAC	1 cut(s)	1260
Hpy99I	CGWCG	1 cut(s)	21
HpyAV	CCTTC	5 cut(s)	211, 698, 774, 818, 1588
HpyCH4III	ACNGT	2 cut(s)	62, 673
HpyCH4IV	ACGT	3 cut(s)	238, 541, 1301
HpyCH4V	TGCA	5 cut(s)	233, 699, 853, 932, 1578
HpyF10VI	GCNNNNNNNGC	2 cut(s)	239, 1244
HpyF3I	CTNAG	1 cut(s)	85
HpySE526I	ACGT	3 cut(s)	238, 541, 1301
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	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
LweI	GCATC	6 cut(s)	136, 220, 272, 337, 679, 1225
MaeI	CTAG	6 cut(s)	351, 783, 903, 914, 1119, 1185
MaeII	ACGT	3 cut(s)	238, 541, 1301
MaeIII	GTNAC	6 cut(s)	420, 431, 439, 566, 1148, 1383
MalI	GATC	7 cut(s)	74, 285, 362, 598, 680, 1485, 1489
MboI	GATC	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
MflI	RGATCY	2 cut(s)	596, 678
MhlI	GDGCHC	1 cut(s)	244
MluCI	AATT	7 cut(s)	21, 36, 919, 1026, 1096, 1227, 1445
MlyI	GAGTC	2 cut(s)	594, 1385
MmeI	TCCRAC	5 cut(s)	116, 189, 367, 714, 1192
MseI	TTAA	4 cut(s)	35, 909, 957, 1259
MspCI	CTTAAG	1 cut(s)	956
MspI	CCGG	2 cut(s)	132, 1020
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, 1244
NdeI	CATATG	3 cut(s)	636, 1081, 1513
NdeII	GATC	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
NlaIII	CATG	7 cut(s)	290, 346, 733, 749, 902, 1048, 1480
NlaIV	GGNNCC	1 cut(s)	222
NmuCI	GTSAC	1 cut(s)	1383
NspI	RCATGY	1 cut(s)	733
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
PkrI	GCNGC	1 cut(s)	15
PleI	GAGTC	2 cut(s)	593, 1384
PpsI	GAGTC	2 cut(s)	593, 1384
Ppu21I	YACGTR	1 cut(s)	1302
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	2 cut(s)	297, 1240
PsuI	RGATCY	2 cut(s)	596, 678
RsaI	GTAC	3 cut(s)	64, 477, 1304
RsaNI	GTAC	3 cut(s)	63, 476, 1303
SaqAI	TTAA	4 cut(s)	35, 909, 957, 1259
SatI	GCNGC	1 cut(s)	14
Sau3AI	GATC	7 cut(s)	72, 283, 360, 596, 678, 1483, 1487
Sau96I	GGNCC	2 cut(s)	297, 1240
ScaI	AGTACT	1 cut(s)	64
SchI	GAGTC	2 cut(s)	594, 1385
ScrFI	CCNGG	2 cut(s)	1381, 1395
SduI	GDGCHC	1 cut(s)	244
SfaNI	GCATC	6 cut(s)	136, 220, 272, 337, 679, 1225
SinI	GGWCC	2 cut(s)	297, 1240
SmlI	CTYRAG	1 cut(s)	956
SmoI	CTYRAG	1 cut(s)	956
SnaBI	TACGTA	1 cut(s)	1302
Sse9I	AATT	7 cut(s)	21, 36, 919, 1026, 1096, 1227, 1445
SsiI	CCGC	3 cut(s)	715, 1238, 1440
SspI	AATATT	1 cut(s)	1401
SspMI	CTAG	6 cut(s)	351, 783, 903, 914, 1119, 1185
StyD4I	CCNGG	2 cut(s)	1379, 1393
TaaI	ACNGT	2 cut(s)	62, 673
TaiI	ACGT	3 cut(s)	241, 544, 1304
TaqI	TCGA	5 cut(s)	19, 363, 583, 970, 1486
TaqII	GACCGA	1 cut(s)	618
TasI	AATT	7 cut(s)	21, 36, 919, 1026, 1096, 1227, 1445
TatI	WGTACW	2 cut(s)	62, 475
TfiI	GAWTC	6 cut(s)	119, 167, 365, 416, 742, 1473
Tru1I	TTAA	4 cut(s)	35, 909, 957, 1259
Tru9I	TTAA	4 cut(s)	35, 909, 957, 1259
TscAI	CASTG	1 cut(s)	263
TseFI	GTSAC	1 cut(s)	1383
TseI	GCWGC	1 cut(s)	13
Tsp45I	GTSAC	1 cut(s)	1383
TspRI	CASTG	1 cut(s)	263
Vha464I	CTTAAG	1 cut(s)	956
VpaK11BI	GGWCC	2 cut(s)	297, 1240
XapI	RAATTY	1 cut(s)	919
XceI	RCATGY	1 cut(s)	733
XcmI	CCANNNNNNNNNTGG	2 cut(s)	319, 340
XspI	CTAG	6 cut(s)	351, 783, 903, 914, 1119, 1185
ZrmI	AGTACT	1 cut(s)	64

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