Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0006036

Physical Location & Seq

Genomic Coordinates Forward (+)

62494201 .. 62500280

Gene Structure 6080 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG390500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1629 bp

ATGTCGTTCCACAACGTCCTCCGAGCCCTGAAAACTGTGAAAGTAAGAACCCAAGTACCCTTTCAAGAATTCTTTGAACTAATCTCTGCAATCCCAAGTCCCTCAGCTGCTCCAAAACCCTTGAATCCCACCACCATTTCCCTCCTGTCCAAGCTCAACCCCAACTCTCTGCACCTCATCCTCTCAGAACCCACACTCAGCGCCTCCAAATGCCTTGTCTTCTTCAACTTCCTCCTCAAAAACCAGTCCTTTATCTCATTCAAAGTTGACCTCCAAGCCCACTTGACTCTCATTTGCAGGCTTATCAGGGCAAGAAAGATCACACATGCGGAGCAAGTTTTCAAGTCCATCTCGGTTGATCAAAATTCCAGGTACCCATTTCGTGCCATTGCTTCTTGTGTTGAAGTGTGTTGTCTTGAACCTGTGGTTGAAGCCAAGTTGTTCAATTTGATGCTTAAAGTTTACTCTGATATCAAAAATTTCGATGGAGGTTTGGAGGCTTTTGATTACATCAAGAGTATTGGGATTCGGATAGATGAGAGGACATATAATTTTTTTTCGGTTGCAATGAACAGAGCTGGTGAGGTGGAAAAGGGTATAGATTTCTTGTATAGATTGTTATATTCGGGCACTGGGGTCTCTGTGTATTGTTTGACAGCTGTGGTGGAGGGGATGTGTAGGAATGGAGAGATTACAAGGAGTAGAGAGTTGGTGCAGGAAATGGCTAGTAGAGGAATTAAACCCAATATCATCACATTCAATATAATGGTGGAAGCTTGTGCTAAGAGATGGAACTTTTCGGAGTTGGATTTGATTTTGCCTCTGATGGAAAAGGAAGGAGTTGCATTTGATGTCAAGACATATGAATTCTTGATCGATGGCTTCACGAGCTCCGGGAAGGTAGAAGAAGCCGAAAGATTGGTTGGGGAGATGCATGACAAGGGATTGAAAGTAAAAACTCATGTATACAATTTGATAATAAATAGCTATTGTAGAAAAGGTTTTCTGGAAGGTGCTCTTTCTTTGTTTTCCAAGATGGCTGAGAGAAGTATATTCCAGAATGCTGATACATACTGGTTTCTAATAAATGGTATTTGCAAGGTTGGAGAGATGGGGCTGGCAATGCAATATGTTAATGAGATGCAGAACAAGGGATTTGAATTAGACAATCTTGACTGCAACATCTTGGCTGATGGTTTTCGCAGCAAAGGGATGGCCAACGAGCTTTTTGAGTTACAGGCGTTGATGGAGAAAAAAAAGGGATATAGAGAGGATTGCTGGCTTGACATTTTTCTATTTAGAGAGTTGTGGTTGATGAGCTGTGTTGGAGTAGAGAGATTAGAAGGAGATGACAGTTGGCAGAGGAGATCAGATATCTTTACCTTCAATATAATGGTGGATGCTTGTGCTAAGAGATGGAACTTTTCGGAGTTGGATCTTATATTGCTTTTGTTGGCAAAGGAAGGAGTGGCATTTGAGGTCAAGACATATCAAGCTGTCTTAAAGAAATTCGCTGTCACAGAAATTTCTCAGGTGCAAAGTCTCAAGGCACCAAGCAGCTTTGACTTATGGAGTGCAGGATGTGCTCATCTCTCCATAGACTCATTCAGCACATTTAATATTTTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0090615 GO:0090617 GO:0097159 GO:0140053 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

542

Amino Acids

61.65

Weight (kDa)

6.45

Isoelectric Point (pI)

36.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	213 - 263	5.1e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	214 - 262	4.2e-10	PPR repeat family
PPR_3	PF13812	272 - 330	5.8e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	280 - 311	3.9e-06	PPR repeat
PPR_1	PF12854	314 - 346	1.7e-06	PPR repeat
PPR_2	PF13041	320 - 367	5.4e-12	PPR repeat family
PPR	PF01535	322 - 350	3e-07	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: OG0006036)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28050
malus_domestica	MD03G1124300.v1.1 MD04G1147300.v1.1
prunus_persica	Prupe.6G107000_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0398231 RchiOBHm_Chr5g0057911 RchiOBHm_Chr5g0057961 RchiOBHm_Chr5g0058011 RchiOBHm_Chr5g0058021 RchiOBHm_Chr5g0058061 RchiOBHm_Chr5g0058071
rosa_laevigata	RLG00000019928 RLG00000035191 RLG00000035192
rosa_multiflora	Rmu_sc0000367.1_g000007
rosa_roxburghii	Rroxscaffold_1G00022520 Rroxscaffold_1G00022530
rosa_rugosa	Rorug05G0310700
rosa_samantha	Rh4DG434800 Rh5AG379300 Rh5AG379400 Rh5BG390500 Rh5CG414300 Rh5CG414400 Rh5DG405100
rosa_wichuraiana	Rw5G035710 Rw5G035720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	372
AccB1I	GGYRCC	2 cut(s)	372, 1549
AccI	GTMKAC	1 cut(s)	966
AciI	CCGC	1 cut(s)	329
AclWI	GGATC	1 cut(s)	1443
AcoI	YGGCCR	1 cut(s)	1215
AcsI	RAATTY	6 cut(s)	68, 364, 478, 866, 1508, 1524
AfaI	GTAC	2 cut(s)	57, 374
AjnI	CCWGG	1 cut(s)	368
AjuI	GAANNNNNNNTTGG	4 cut(s)	45, 77, 906, 938
Alw21I	GWGCWC	3 cut(s)	893, 1018, 1588
Alw26I	GTCTC	2 cut(s)	643, 1547
AlwI	GGATC	1 cut(s)	1443
AoxI	GGCC	1 cut(s)	1215
ApeKI	GCWGC	3 cut(s)	107, 1203, 1557
ApoI	RAATTY	6 cut(s)	68, 364, 478, 866, 1508, 1524
ArsI	GACNNNNNNTTYG	2 cut(s)	201, 233
Asp718I	GGTACC	1 cut(s)	372
AspLEI	GCGC	1 cut(s)	203
AsuC2I	CCSGG	1 cut(s)	895
AsuHPI	GGTGA	1 cut(s)	593
BaeGI	GKGCMC	1 cut(s)	632
BaeI	ACNNNNGTAYC	2 cut(s)	39, 72
BalI	TGGCCA	1 cut(s)	1217
BanI	GGYRCC	2 cut(s)	372, 1549
BanII	GRGCYC	2 cut(s)	28, 893
BauI	CACGAG	1 cut(s)	886
BbsI	GAAGAC	1 cut(s)	211
Bbv12I	GWGCWC	3 cut(s)	893, 1018, 1588
BbvCI	CCTCAGC	1 cut(s)	103
BbvI	GCAGC	3 cut(s)	94, 1215, 1569
BciT130I	CCWGG	1 cut(s)	370
BclI	TGATCA	1 cut(s)	358
BcnI	CCSGG	1 cut(s)	895
BcoDI	GTCTC	2 cut(s)	643, 1547
BfaI	CTAG	1 cut(s)	726
BfoI	RGCGCY	1 cut(s)	204
BisI	GCNGC	3 cut(s)	108, 1204, 1558
BlsI	GCNGC	3 cut(s)	109, 1205, 1559
Bme1390I	CCNGG	2 cut(s)	370, 895
BmiI	GGNNCC	2 cut(s)	374, 1551
BmrFI	CCNGG	2 cut(s)	370, 895
BmrI	ACTGGG	1 cut(s)	642
BmsI	GCATC	4 cut(s)	441, 921, 1131, 1390
BmuI	ACTGGG	1 cut(s)	642
BpiI	GAAGAC	1 cut(s)	211
Bpu10I	CCTNAGC	1 cut(s)	103
BpuEI	CTTGAG	1 cut(s)	1529
BpuMI	CCSGG	1 cut(s)	895
Bsa29I	ATCGAT	1 cut(s)	876
BsaI	GGTCTC	1 cut(s)	643
BsaXI	ACNNNNNCTCC	2 cut(s)	659, 689
Bse1I	ACTGG	3 cut(s)	244, 637, 1079
Bse3DI	GCAATG	3 cut(s)	387, 573, 1128
BseBI	CCWGG	1 cut(s)	370
BseCI	ATCGAT	1 cut(s)	876
BseGI	GGATG	5 cut(s)	177, 678, 1218, 1405, 1586
BseMI	GCAATG	3 cut(s)	387, 573, 1128
BseMII	CTCAG	5 cut(s)	117, 198, 211, 1032, 1544
BseNI	ACTGG	3 cut(s)	244, 637, 1079
BseRI	GAGGAG	2 cut(s)	224, 1378
BseSI	GKGCMC	1 cut(s)	632
BseXI	GCAGC	3 cut(s)	94, 1215, 1569
BsgI	GTGCAG	3 cut(s)	155, 734, 1596
BshFI	GGCC	1 cut(s)	1217
BshNI	GGYRCC	2 cut(s)	372, 1549
BshVI	ATCGAT	1 cut(s)	876
BsiHKAI	GWGCWC	3 cut(s)	893, 1018, 1588
BsiSI	CCGG	1 cut(s)	894
BslFI	GGGAC	1 cut(s)	84
BsmAI	GTCTC	2 cut(s)	643, 1547
BsmFI	GGGAC	1 cut(s)	84
BsmI	GAATGC	1 cut(s)	1066
BsnI	GGCC	1 cut(s)	1217
Bso31I	GGTCTC	1 cut(s)	643
Bsp1286I	GDGCHC	5 cut(s)	28, 632, 893, 1018, 1588
Bsp143I	GATC	5 cut(s)	318, 358, 873, 1367, 1435
BspACI	CCGC	1 cut(s)	329
BspANI	GGCC	1 cut(s)	1217
BspCNI	CTCAG	5 cut(s)	116, 197, 210, 1033, 1543
BspDI	ATCGAT	1 cut(s)	876
BspLI	GGNNCC	2 cut(s)	374, 1551
BspPI	GGATC	1 cut(s)	1443
BspT107I	GGYRCC	2 cut(s)	372, 1549
BspTNI	GGTCTC	1 cut(s)	643
BsrDI	GCAATG	3 cut(s)	387, 573, 1128
BsrI	ACTGG	3 cut(s)	244, 637, 1079
BssMI	GATC	5 cut(s)	318, 358, 873, 1367, 1435
BssNAI	GTATAC	1 cut(s)	967
BssSI	CACGAG	1 cut(s)	886
Bst1107I	GTATAC	1 cut(s)	967
Bst2BI	CACGAG	1 cut(s)	886
Bst2UI	CCWGG	1 cut(s)	370
Bst4CI	ACNGT	2 cut(s)	37, 1355
BstAPI	GCANNNNNTGC	1 cut(s)	1583
BstC8I	GCNNGC	3 cut(s)	299, 1119, 1280
BstDEI	CTNAG	7 cut(s)	103, 184, 197, 783, 1041, 1410, 1530
BstF5I	GGATG	5 cut(s)	177, 678, 1218, 1405, 1586
BstH2I	RGCGCY	1 cut(s)	204
BstHHI	GCGC	1 cut(s)	203
BstKTI	GATC	5 cut(s)	321, 361, 876, 1370, 1438
BstMAI	GTCTC	2 cut(s)	643, 1547
BstMBI	GATC	5 cut(s)	318, 358, 873, 1367, 1435
BstMWI	GCNNNNNNNGC	3 cut(s)	888, 1123, 1583
BstNI	CCWGG	1 cut(s)	370
BstNSI	RCATGY	1 cut(s)	329
BstSCI	CCNGG	2 cut(s)	368, 893
BstSLI	GKGCMC	1 cut(s)	632
BstV1I	GCAGC	3 cut(s)	94, 1215, 1569
BstV2I	GAAGAC	1 cut(s)	211
BstX2I	RGATCY	1 cut(s)	1435
BstYI	RGATCY	1 cut(s)	1435
BstZ17I	GTATAC	1 cut(s)	967
Bsu15I	ATCGAT	1 cut(s)	876
BsuRI	GGCC	1 cut(s)	1217
BsuTUI	ATCGAT	1 cut(s)	876
BtsCI	GGATG	5 cut(s)	177, 678, 1218, 1405, 1586
BtsIMutI	CAGTG	1 cut(s)	630
Cac8I	GCNNGC	3 cut(s)	299, 1119, 1280
CfoI	GCGC	1 cut(s)	203
ClaI	ATCGAT	1 cut(s)	876
Csp6I	GTAC	2 cut(s)	56, 373
CviAII	CATG	3 cut(s)	326, 935, 962
CviQI	GTAC	2 cut(s)	56, 373
DdeI	CTNAG	7 cut(s)	103, 184, 197, 783, 1041, 1410, 1530
DpnI	GATC	5 cut(s)	320, 360, 875, 1369, 1437
DpnII	GATC	5 cut(s)	318, 358, 873, 1367, 1435
EaeI	YGGCCR	1 cut(s)	1215
Ecl136II	GAGCTC	1 cut(s)	891
Eco24I	GRGCYC	2 cut(s)	28, 893
Eco31I	GGTCTC	1 cut(s)	643
Eco32I	GATATC	2 cut(s)	472, 1375
Eco53kI	GAGCTC	1 cut(s)	891
EcoICRI	GAGCTC	1 cut(s)	891
EcoRI	GAATTC	2 cut(s)	68, 866
EcoRII	CCWGG	1 cut(s)	368
EcoRV	GATATC	2 cut(s)	472, 1375
EcoT22I	ATGCAT	1 cut(s)	936
EcoT38I	GRGCYC	2 cut(s)	28, 893
FaeI	CATG	3 cut(s)	329, 938, 965
FalI	AAGNNNNNCTT	2 cut(s)	1002, 1034
FaqI	GGGAC	1 cut(s)	84
FatI	CATG	3 cut(s)	325, 934, 961
FauNDI	CATATG	1 cut(s)	862
FbaI	TGATCA	1 cut(s)	358
FblI	GTMKAC	1 cut(s)	966
Fnu4HI	GCNGC	3 cut(s)	108, 1204, 1558
FokI	GGATG	5 cut(s)	164, 685, 1225, 1412, 1593
FriOI	GRGCYC	2 cut(s)	28, 893
Fsp4HI	GCNGC	3 cut(s)	108, 1204, 1558
FspBI	CTAG	1 cut(s)	726
GlaI	GCGC	1 cut(s)	202
GluI	GCNGC	3 cut(s)	108, 1204, 1558
HaeII	RGCGCY	1 cut(s)	204
HaeIII	GGCC	1 cut(s)	1217
HapII	CCGG	1 cut(s)	894
HhaI	GCGC	1 cut(s)	203
Hin1II	CATG	3 cut(s)	329, 938, 965
Hin6I	GCGC	1 cut(s)	201
HinP1I	GCGC	1 cut(s)	201
HincII	GTYRAC	1 cut(s)	268
HindII	GTYRAC	1 cut(s)	268
HindIII	AAGCTT	1 cut(s)	774
HinfI	GANTC	4 cut(s)	124, 286, 526, 1601
HpaII	CCGG	1 cut(s)	894
HphI	GGTGA	1 cut(s)	593
Hpy166II	GTNNAC	3 cut(s)	268, 463, 967
Hpy188I	TCNGA	8 cut(s)	23, 187, 469, 531, 802, 825, 1372, 1429
Hpy8I	GTNNAC	3 cut(s)	268, 463, 967
HpyAV	CCTTC	6 cut(s)	830, 892, 1004, 1337, 1393, 1457
HpyCH4III	ACNGT	2 cut(s)	37, 1355
HpyCH4IV	ACGT	1 cut(s)	15
HpyF10VI	GCNNNNNNNGC	3 cut(s)	888, 1123, 1583
HpyF3I	CTNAG	7 cut(s)	103, 184, 197, 783, 1041, 1410, 1530
HpySE526I	ACGT	1 cut(s)	15
Hsp92II	CATG	3 cut(s)	329, 938, 965
HspAI	GCGC	1 cut(s)	201
KpnI	GGTACC	1 cut(s)	376
Ksp22I	TGATCA	1 cut(s)	358
Kzo9I	GATC	5 cut(s)	318, 358, 873, 1367, 1435
LmnI	GCTCC	3 cut(s)	115, 331, 896
Lsp1109I	GCAGC	3 cut(s)	94, 1215, 1569
LweI	GCATC	4 cut(s)	441, 921, 1131, 1390
MaeI	CTAG	1 cut(s)	726
MaeII	ACGT	1 cut(s)	15
MaeIII	GTNAC	2 cut(s)	1233, 1516
MalI	GATC	5 cut(s)	320, 360, 875, 1369, 1437
MboI	GATC	5 cut(s)	318, 358, 873, 1367, 1435
MboII	GAAGA	3 cut(s)	211, 214, 917
MflI	RGATCY	1 cut(s)	1435
MhlI	GDGCHC	5 cut(s)	28, 632, 893, 1018, 1588
MlsI	TGGCCA	1 cut(s)	1217
MluNI	TGGCCA	1 cut(s)	1217
MlyI	GAGTC	2 cut(s)	280, 1595
MmeI	TCCRAC	4 cut(s)	786, 1084, 1306, 1413
Mox20I	TGGCCA	1 cut(s)	1217
Mph1103I	ATGCAT	1 cut(s)	936
MscI	TGGCCA	1 cut(s)	1217
MseI	TTAA	5 cut(s)	456, 738, 1134, 1502, 1617
Msp20I	TGGCCA	1 cut(s)	1217
MspA1I	CMGCKG	2 cut(s)	107, 659
MspI	CCGG	1 cut(s)	894
MspR9I	CCNGG	2 cut(s)	370, 895
Mva1269I	GAATGC	1 cut(s)	1066
MvaI	CCWGG	1 cut(s)	370
MwoI	GCNNNNNNNGC	3 cut(s)	888, 1123, 1583
NciI	CCSGG	1 cut(s)	895
NdeI	CATATG	1 cut(s)	862
NdeII	GATC	5 cut(s)	318, 358, 873, 1367, 1435
NlaIII	CATG	3 cut(s)	329, 938, 965
NlaIV	GGNNCC	2 cut(s)	374, 1551
NmuCI	GTSAC	1 cut(s)	1516
NsiI	ATGCAT	1 cut(s)	936
NspI	RCATGY	1 cut(s)	329
PctI	GAATGC	1 cut(s)	1066
PfeI	GAWTC	2 cut(s)	124, 526
PfoI	TCCNGGA	1 cut(s)	893
PkrI	GCNGC	3 cut(s)	109, 1205, 1559
PleI	GAGTC	2 cut(s)	280, 1595
PpsI	GAGTC	2 cut(s)	280, 1595
Psp124BI	GAGCTC	1 cut(s)	893
Psp6I	CCWGG	1 cut(s)	368
PspGI	CCWGG	1 cut(s)	368
PspN4I	GGNNCC	2 cut(s)	374, 1551
PsuI	RGATCY	1 cut(s)	1435
PvuII	CAGCTG	2 cut(s)	107, 659
RsaI	GTAC	2 cut(s)	57, 374
RsaNI	GTAC	2 cut(s)	56, 373
SacI	GAGCTC	1 cut(s)	893
SaqAI	TTAA	5 cut(s)	456, 738, 1134, 1502, 1617
SatI	GCNGC	3 cut(s)	108, 1204, 1558
Sau3AI	GATC	5 cut(s)	318, 358, 873, 1367, 1435
SchI	GAGTC	2 cut(s)	280, 1595
ScrFI	CCNGG	2 cut(s)	370, 895
SduI	GDGCHC	5 cut(s)	28, 632, 893, 1018, 1588
SfaNI	GCATC	4 cut(s)	441, 921, 1131, 1390
SmlI	CTYRAG	1 cut(s)	1544
SmoI	CTYRAG	1 cut(s)	1544
SsiI	CCGC	1 cut(s)	329
SspI	AATATT	1 cut(s)	1621
SspMI	CTAG	1 cut(s)	726
SstI	GAGCTC	1 cut(s)	893
StyD4I	CCNGG	2 cut(s)	368, 893
TaaI	ACNGT	2 cut(s)	37, 1355
TaiI	ACGT	1 cut(s)	18
TaqI	TCGA	2 cut(s)	483, 876
TfiI	GAWTC	2 cut(s)	124, 526
Tru1I	TTAA	5 cut(s)	456, 738, 1134, 1502, 1617
Tru9I	TTAA	5 cut(s)	456, 738, 1134, 1502, 1617
TscAI	CASTG	1 cut(s)	637
TseFI	GTSAC	1 cut(s)	1516
TseI	GCWGC	3 cut(s)	107, 1203, 1557
Tsp45I	GTSAC	1 cut(s)	1516
TspDTI	ATGAA	2 cut(s)	584, 879
TspRI	CASTG	1 cut(s)	637
XapI	RAATTY	6 cut(s)	68, 364, 478, 866, 1508, 1524
XceI	RCATGY	1 cut(s)	329
XmiI	GTMKAC	1 cut(s)	966
XspI	CTAG	1 cut(s)	726
Zsp2I	ATGCAT	1 cut(s)	936

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