Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003910

Physical Location & Seq

Genomic Coordinates Forward (+)

1219734 .. 1221000

Gene Structure 1267 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG018500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGATTCATGGGTTTTGCACAAAGACTGGATTTTTGTCAAAGCATAATGTTTGCAATAGCTTTATCACCATGTATGCTAAGTTTGAGTCCATGGATGATTCTGTCAAGGTTTTTGAGGAGTTGGACTTCAGAGAAATCATATCATGGAATGCTTTGATCTCAGGGTATGCTCAGAACGGGCTGTGTCAGGATGCACTGAAGACATTCTTGTCTGCAATCATGGAGTCCACGCCTAACAACTACACATTTGGTAGTGTCTTGAGTGCAATTGGTGATGCTCATGACATTTCTCTGAAGTATGGCCAGCGATGCCTCTCCTTTTTGATAAAACTTGGATCAGTCACTGACTCGATTACAGCAGGTGCTCTCCTTGATATGTATGCAAAGCGAGGAGGCATTTGCGAGTCCCAAAGAGTTTTCAGTGAGACCCCTCACAGAACTCAGTGTGCTTGGACAGCAATAATATCTGCATATGCTGGGCATGGAGACTATGACCCAGTAATCGAATTGTTCTACCAGATGGATAAAGAAGGGGTAAAACCTGACTCGATCACATTTCTTTCTGTACTTAGCGCATGTAGCAGAAAGGGATCAGTTGAGATGGGCCACCATTTCTTTGAATCAATGGTCAAAGACTATCAGATTGAATCATCTCCTCAACATTATGCTTGTATGGTAGACATGTTAGGCCGGGCAGGAAAGCTGGAGGAAGCAGAGGAATTGACGAGTCAGATGTCAGGACAGCCGAGTTTTTCTTTGTTGCAAAGCTTGCTTGGGGCTTGCACGATACATGGGAATGTGGAGATGGCTGAGAGAGTTGCAGATGCTTTAATGCGAATGGAGCCAACTGAATCAGGTTCGTATGTGCTGTTGTCCAACTTGTATGCAGAGAAAGGGGACTGGGAAATGGTGGCAAAAATAAGGAAACAGATGAGAGATAGGGGAGTGAGAAAGGAAGTGGGATTTAGCTGGTTGGATAATGGTGATGCTGATGGTTCTTTGTATCTCCACGGGTTTTCGTCAGGTGATACCTCTCACCGCCAGTCTGAAGAGGTAAGTAGAATGGCGAAATGCATAGGACTAGAAATGAAGTTTTTGAGAGAGAACATGGCTGAGATAGACTCACTGAAACAAGACAGTGAGACACATTCTCAAGTGCCTCATGATGAAGAAGGCTTGTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000960 GO:0000962 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010468 GO:0010604 GO:0016070 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031329 GO:0031331 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045935 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061013 GO:0061014 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903313 GO:1905637 GO:1905639

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

394

Amino Acids

43.91

Weight (kDa)

5.11

Isoelectric Point (pI)

46.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	148 - 194	6.1e-10	PPR repeat family
E_motif	PF20431	264 - 325	8.9e-19	E motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003910)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G32430 AT4G32430
fragaria_vesca	FvH4_1g03430
malus_domestica	MD15G1174400.v1.1
prunus_persica	Prupe.5G003100_v2.0.a1 Prupe.7G240400_v2.0.a1 Prupe.7G241500_v2.0.a1 Prupe.7G241700_v2.0.a1 Prupe.8G249000_v2.0.a1
pyrus_communis	pycom15g15600
rosa_chinensis	RchiOBHm_Chr2g0088661 RchiOBHm_Chr5g0002171
rosa_laevigata	RLG00000015973 RLG00000015974 RLG00000031004
rosa_multiflora	Rmu_sc0006835.1_g000012 Rmu_sc0006835.1_g000013 Rmu_sc0013155.1_g000001 Rmu_sc0015442.1_g000012 Rmu_sc0015442.1_g000013 Rmu_sc0024326.1_g000001 Rmu_sc0041985.1_g000001
rosa_roxburghii	Rroxscaffold_2G00152420
rosa_rugosa	Rorug01G0485700
rosa_samantha	Rh2AG041200 Rh2BG039900 Rh2CG040700 Rh2DG040300 Rh5AG016800 Rh5AG016900 Rh5CG018300 Rh5CG018400 Rh5CG018500
rosa_wichuraiana	Rw2G003320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	350
AasI	GACNNNNNNGTC	1 cut(s)	208
Acc36I	ACCTGC	1 cut(s)	350
AccI	GTMKAC	1 cut(s)	678
AciI	CCGC	1 cut(s)	1039
AclWI	GGATC	2 cut(s)	343, 598
AcoI	YGGCCR	1 cut(s)	301
AcuI	CTGAAG	4 cut(s)	112, 218, 314, 1068
AfaI	GTAC	1 cut(s)	567
AflIII	ACRYGT	1 cut(s)	681
AgsI	TTSAA	2 cut(s)	620, 647
AluBI	AGCT	4 cut(s)	60, 703, 768, 969
AluI	AGCT	4 cut(s)	60, 703, 768, 969
Alw21I	GWGCWC	1 cut(s)	367
Alw26I	GTCTC	3 cut(s)	419, 480, 1136
AlwI	GGATC	2 cut(s)	343, 598
AlwNI	CAGNNNCTG	1 cut(s)	344
AoxI	GGCC	3 cut(s)	301, 604, 688
ArsI	GACNNNNNNTTYG	2 cut(s)	16, 48
Asp700I	GAANNNNTTC	1 cut(s)	203
AspLEI	GCGC	1 cut(s)	575
AspS9I	GGNCC	1 cut(s)	604
AsuC2I	CCSGG	1 cut(s)	692
AsuHPI	GGTGA	5 cut(s)	58, 284, 995, 1028, 1037
BalI	TGGCCA	1 cut(s)	303
BbsI	GAAGAC	1 cut(s)	206
Bbv12I	GWGCWC	1 cut(s)	367
BccI	CCATC	4 cut(s)	514, 595, 799, 986
BcnI	CCSGG	1 cut(s)	692
BcoDI	GTCTC	3 cut(s)	419, 480, 1136
BfaI	CTAG	1 cut(s)	1082
BfuAI	ACCTGC	1 cut(s)	350
Bme1390I	CCNGG	1 cut(s)	692
BmgT120I	GGNCC	1 cut(s)	604
BmiI	GGNNCC	1 cut(s)	843
BmrFI	CCNGG	1 cut(s)	692
BmrI	ACTGGG	2 cut(s)	491, 910
BmsI	GCATC	5 cut(s)	181, 265, 299, 814, 976
BmuI	ACTGGG	2 cut(s)	491, 910
BpiI	GAAGAC	1 cut(s)	206
BplI	GAGNNNNNCTC	2 cut(s)	1106, 1138
BpmI	CTGGAG	1 cut(s)	725
BpuEI	CTTGAG	2 cut(s)	280, 1137
BpuMI	CCSGG	1 cut(s)	692
BsaI	GGTCTC	1 cut(s)	419
BsaJI	CCNNGG	2 cut(s)	90, 1009
Bse1I	ACTGG	4 cut(s)	31, 497, 905, 1042
BseDI	CCNNGG	2 cut(s)	90, 1009
BseGI	GGATG	2 cut(s)	100, 196
BseMII	CTCAG	5 cut(s)	174, 185, 455, 801, 1104
BseNI	ACTGG	4 cut(s)	31, 497, 905, 1042
BseRI	GAGGAG	3 cut(s)	131, 405, 645
BseYI	CCCAGC	1 cut(s)	476
BshFI	GGCC	3 cut(s)	303, 606, 690
BsiHKAI	GWGCWC	1 cut(s)	367
BsiSI	CCGG	1 cut(s)	691
BslFI	GGGAC	2 cut(s)	391, 911
BsmAI	GTCTC	3 cut(s)	419, 480, 1136
BsmFI	GGGAC	2 cut(s)	391, 911
BsmI	GAATGC	1 cut(s)	154
BsnI	GGCC	3 cut(s)	303, 606, 690
Bso31I	GGTCTC	1 cut(s)	419
Bsp1286I	GDGCHC	1 cut(s)	367
Bsp143I	GATC	4 cut(s)	156, 335, 549, 590
Bsp19I	CCATGG	1 cut(s)	90
BspACI	CCGC	1 cut(s)	1039
BspANI	GGCC	3 cut(s)	303, 606, 690
BspCNI	CTCAG	5 cut(s)	173, 184, 454, 802, 1105
BspHI	TCATGA	2 cut(s)	280, 1162
BspLI	GGNNCC	1 cut(s)	843
BspMI	ACCTGC	1 cut(s)	350
BspPI	GGATC	2 cut(s)	343, 598
BspTNI	GGTCTC	1 cut(s)	419
BsrI	ACTGG	4 cut(s)	31, 497, 905, 1042
BssECI	CCNNGG	2 cut(s)	90, 1009
BssMI	GATC	4 cut(s)	156, 335, 549, 590
BssT1I	CCWWGG	1 cut(s)	90
Bst4CI	ACNGT	1 cut(s)	1139
Bst6I	CTCTTC	1 cut(s)	1044
BstAPI	GCANNNNNTGC	1 cut(s)	769
BstC8I	GCNNGC	3 cut(s)	305, 770, 781
BstDEI	CTNAG	7 cut(s)	78, 160, 171, 441, 569, 810, 1113
BstDSI	CCRYGG	2 cut(s)	90, 1009
BstF5I	GGATG	2 cut(s)	100, 196
BstHHI	GCGC	1 cut(s)	575
BstKTI	GATC	4 cut(s)	159, 338, 552, 593
BstMAI	GTCTC	3 cut(s)	419, 480, 1136
BstMBI	GATC	4 cut(s)	156, 335, 549, 590
BstMWI	GCNNNNNNNGC	5 cut(s)	309, 455, 579, 769, 841
BstNSI	RCATGY	2 cut(s)	579, 685
BstSCI	CCNGG	1 cut(s)	690
BstV2I	GAAGAC	1 cut(s)	206
BsuRI	GGCC	3 cut(s)	303, 606, 690
BtgI	CCRYGG	2 cut(s)	90, 1009
BtgZI	GCGATG	1 cut(s)	322
BtsCI	GGATG	2 cut(s)	100, 196
BtsIMutI	CAGTG	6 cut(s)	194, 342, 427, 449, 1124, 1144
BveI	ACCTGC	1 cut(s)	350
Cac8I	GCNNGC	3 cut(s)	305, 770, 781
CaiI	CAGNNNCTG	1 cut(s)	344
CciI	TCATGA	2 cut(s)	280, 1162
CfoI	GCGC	1 cut(s)	575
Cfr13I	GGNCC	1 cut(s)	604
Csp6I	GTAC	1 cut(s)	566
CviQI	GTAC	1 cut(s)	566
DdeI	CTNAG	7 cut(s)	78, 160, 171, 441, 569, 810, 1113
DpnI	GATC	4 cut(s)	158, 337, 551, 592
DpnII	GATC	4 cut(s)	156, 335, 549, 590
DrdI	GACNNNNNNGTC	1 cut(s)	208
DseDI	GACNNNNNNGTC	1 cut(s)	208
EaeI	YGGCCR	1 cut(s)	301
Eam1104I	CTCTTC	1 cut(s)	1044
EarI	CTCTTC	1 cut(s)	1044
Eco130I	CCWWGG	1 cut(s)	90
Eco31I	GGTCTC	1 cut(s)	419
Eco57I	CTGAAG	4 cut(s)	112, 218, 314, 1068
EcoT14I	CCWWGG	1 cut(s)	90
EcoT22I	ATGCAT	1 cut(s)	1076
ErhI	CCWWGG	1 cut(s)	90
FalI	AAGNNNNNCTT	2 cut(s)	191, 223
FaqI	GGGAC	2 cut(s)	391, 911
FauNDI	CATATG	1 cut(s)	472
FblI	GTMKAC	1 cut(s)	678
FokI	GGATG	2 cut(s)	107, 203
FspBI	CTAG	1 cut(s)	1082
GlaI	GCGC	1 cut(s)	574
GsaI	CCCAGC	1 cut(s)	480
GsuI	CTGGAG	1 cut(s)	725
HaeIII	GGCC	3 cut(s)	303, 606, 690
HapII	CCGG	1 cut(s)	691
HhaI	GCGC	1 cut(s)	575
Hin6I	GCGC	1 cut(s)	573
HinP1I	GCGC	1 cut(s)	573
HindIII	AAGCTT	1 cut(s)	766
HpaII	CCGG	1 cut(s)	691
HphI	GGTGA	5 cut(s)	58, 284, 995, 1028, 1037
Hpy166II	GTNNAC	2 cut(s)	228, 679
Hpy188I	TCNGA	6 cut(s)	131, 174, 294, 642, 732, 1048
Hpy188III	TCNNGA	5 cut(s)	188, 259, 281, 738, 1163
Hpy8I	GTNNAC	2 cut(s)	228, 679
HpyAV	CCTTC	2 cut(s)	524, 1166
HpyCH4III	ACNGT	1 cut(s)	1139
HpyF10VI	GCNNNNNNNGC	5 cut(s)	309, 455, 579, 769, 841
HpyF3I	CTNAG	7 cut(s)	78, 160, 171, 441, 569, 810, 1113
HspAI	GCGC	1 cut(s)	573
Kzo9I	GATC	4 cut(s)	156, 335, 549, 590
LmnI	GCTCC	1 cut(s)	841
LweI	GCATC	5 cut(s)	181, 265, 299, 814, 976
MaeI	CTAG	1 cut(s)	1082
MaeIII	GTNAC	1 cut(s)	340
MalI	GATC	4 cut(s)	158, 337, 551, 592
MboI	GATC	4 cut(s)	156, 335, 549, 590
MboII	GAAGA	3 cut(s)	211, 1061, 1181
MfeI	CAATTG	1 cut(s)	267
MhlI	GDGCHC	1 cut(s)	367
MlsI	TGGCCA	1 cut(s)	303
MluCI	AATT	3 cut(s)	267, 506, 719
MluNI	TGGCCA	1 cut(s)	303
MlyI	GAGTC	7 cut(s)	95, 233, 341, 413, 539, 736, 1115
MmeI	TCCRAC	3 cut(s)	102, 900, 954
Mox20I	TGGCCA	1 cut(s)	303
Mph1103I	ATGCAT	1 cut(s)	1076
MroXI	GAANNNNTTC	1 cut(s)	203
MscI	TGGCCA	1 cut(s)	303
MseI	TTAA	1 cut(s)	830
MslI	CAYNNNNRTG	1 cut(s)	795
Msp20I	TGGCCA	1 cut(s)	303
MspI	CCGG	1 cut(s)	691
MspR9I	CCNGG	1 cut(s)	692
MunI	CAATTG	1 cut(s)	267
Mva1269I	GAATGC	1 cut(s)	154
MwoI	GCNNNNNNNGC	5 cut(s)	309, 455, 579, 769, 841
NciI	CCSGG	1 cut(s)	692
NcoI	CCATGG	1 cut(s)	90
NdeI	CATATG	1 cut(s)	472
NdeII	GATC	4 cut(s)	156, 335, 549, 590
NlaIV	GGNNCC	1 cut(s)	843
NmeAIII	GCCGAG	1 cut(s)	771
NmuCI	GTSAC	1 cut(s)	340
NsiI	ATGCAT	1 cut(s)	1076
NspI	RCATGY	2 cut(s)	579, 685
PagI	TCATGA	2 cut(s)	280, 1162
PaqCI	CACCTGC	1 cut(s)	350
PciI	ACATGT	1 cut(s)	681
PctI	GAATGC	1 cut(s)	154
PdmI	GAANNNNTTC	1 cut(s)	203
PfeI	GAWTC	5 cut(s)	4, 98, 620, 647, 851
PleI	GAGTC	7 cut(s)	94, 232, 341, 412, 539, 735, 1115
PpsI	GAGTC	7 cut(s)	94, 232, 341, 412, 539, 735, 1115
PscI	ACATGT	1 cut(s)	681
PspFI	CCCAGC	1 cut(s)	476
PspN4I	GGNNCC	1 cut(s)	843
PspPI	GGNCC	1 cut(s)	604
PstNI	CAGNNNCTG	1 cut(s)	344
RsaI	GTAC	1 cut(s)	567
RsaNI	GTAC	1 cut(s)	566
RseI	CAYNNNNRTG	1 cut(s)	795
SaqAI	TTAA	1 cut(s)	830
Sau3AI	GATC	4 cut(s)	156, 335, 549, 590
Sau96I	GGNCC	1 cut(s)	604
SchI	GAGTC	7 cut(s)	95, 233, 341, 413, 539, 736, 1115
ScrFI	CCNGG	1 cut(s)	692
SduI	GDGCHC	1 cut(s)	367
SfaNI	GCATC	5 cut(s)	181, 265, 299, 814, 976
SmiMI	CAYNNNNRTG	1 cut(s)	795
SmlI	CTYRAG	2 cut(s)	259, 1152
SmoI	CTYRAG	2 cut(s)	259, 1152
Sse9I	AATT	3 cut(s)	267, 506, 719
SsiI	CCGC	1 cut(s)	1039
SspMI	CTAG	1 cut(s)	1082
StyD4I	CCNGG	1 cut(s)	690
StyI	CCWWGG	1 cut(s)	90
TaaI	ACNGT	1 cut(s)	1139
TaqI	TCGA	3 cut(s)	350, 504, 548
TasI	AATT	3 cut(s)	267, 506, 719
TatI	WGTACW	1 cut(s)	565
TfiI	GAWTC	5 cut(s)	4, 98, 620, 647, 851
Tru1I	TTAA	1 cut(s)	830
Tru9I	TTAA	1 cut(s)	830
TscAI	CASTG	6 cut(s)	201, 349, 427, 449, 1131, 1144
TseFI	GTSAC	1 cut(s)	340
Tsp45I	GTSAC	1 cut(s)	340
TspDTI	ATGAA	2 cut(s)	1103, 1182
TspRI	CASTG	6 cut(s)	201, 349, 427, 449, 1131, 1144
XceI	RCATGY	2 cut(s)	579, 685
XmiI	GTMKAC	1 cut(s)	678
XmnI	GAANNNNTTC	1 cut(s)	203
XspI	CTAG	1 cut(s)	1082
Zsp2I	ATGCAT	1 cut(s)	1076

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