Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0000386

Physical Location & Seq

Genomic Coordinates Reverse (-)

63961239 .. 63962087

Gene Structure 849 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G036440.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 702 bp

ATGGATAGAACACATTCTAGTTGCCACGCTCGTTGGAAGAAAATAAATCCGGCATGTATGAAGTGGCGCCAAGCTCTTAACAAGGTCGAACACTTTCAACGAAGAAGCGGCGAAAATATGGAGGACGAGCTCATGAATGTTAAATCAACGTACTACGACTCGGAAGGTTGTGATTTTGTGTTTGAGCATTGTTGGCAATACTTGAAAAATACAGAAAAGCTTGGAAAAACGCCATCAATTGAAAACACCCACTTTAGTGTTCCTAATCATGTCAACTTGGATGACGATGGAACACCCACTACTGAGGATGAGCTTCCCTCATCAAGAAAGGCATGTCCTCAAGGACAGAAAGCTCATAAGCTAGCTAAGAAAAAAGGCAATAAGCAGGATGTGGATGGCCTACGAGTTCAAATGCAGAAATGTTATGAACAAACAGAACGCGAGCACCAACAAAGGCAAAGACAGTTTGAGGAAGGTCAACTAATTGAGCAACGCACTGAGGATGCTCGCACGATGCAGGTGGATCCATCAATTTTCACCCCAAGAAAGAGGAGTTATTGGGAGAGGAAGCAACAACAAATAATTGATAAGGAGGCAGAAACTTCAAGCATCCCAGAACAATCTCAAGATCCTACATCCCCTGAAGGAGACAACACATGCTTGACCACTTATGATCCACTTGGCAAGACATATTGGATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0000966 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004016 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009791 GO:0009845 GO:0009975 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0016829 GO:0016849 GO:0032501 GO:0032502 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:0046483 GO:0048856 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0090351 GO:0090615 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

233

Amino Acids

27.39

Weight (kDa)

6.26

Isoelectric Point (pI)

64.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NAM-associated	PF14303	59 - 194	5.6e-08	No apical meristem-associated C-terminal domain

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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000386)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g44301 FvH4_5g19180 FvH4_6g21610 FvH4_6g22213 FvH4_6g33100 FvH4_6g34882
malus_domestica	MD00G1014200.v1.1 MD04G1097600.v1.1 MD13G1034300.v1.1
pyrus_communis	pycom01g05740 pycom04g10190 pycom05g05910 pycom05g14840 pycom07g10040 pycom08g16560 pycom09g00370 pycom10g03940 pycom10g15460 pycom11g15220 pycom12g07590 pycom14g10750 pycom14g14610 pycom15g20370
rosa_chinensis	RchiOBHm_Chr4g0392971 RchiOBHm_Chr4g0409971 RchiOBHm_Chr5g0059411 RchiOBHm_Chr6g0305091 RchiOBHm_Chr7g0202551 RchiOBHm_Chr7g0242211
rosa_laevigata	RLG00000003630 RLG00000016594
rosa_multiflora	Rmu_sc0000018.1_g000003 Rmu_sc0000288.1_g000031 Rmu_sc0000327.1_g000003 Rmu_sc0000361.1_g000009 Rmu_sc0000546.1_g000077 Rmu_sc0000616.1_g000024 Rmu_sc0000623.1_g000005 Rmu_sc0000704.1_g000009 Rmu_sc0000749.1_g000026 Rmu_sc0000965.1_g000012 Rmu_sc0001144.1_g000024 Rmu_sc0001144.1_g000026 Rmu_sc0001159.1_g000053 Rmu_sc0001348.1_g000017 Rmu_sc0001585.1_g000015 Rmu_sc0001651.1_g000017 Rmu_sc0001832.1_g000013 Rmu_sc0001838.1_g000003 Rmu_sc0001977.1_g000020 Rmu_sc0002983.1_g000011 Rmu_sc0003270.1_g000026 Rmu_sc0003317.1_g000014 Rmu_sc0003517.1_g000013 Rmu_sc0003543.1_g000011 Rmu_sc0003629.1_g000008 Rmu_sc0003731.1_g000005 Rmu_sc0004088.1_g000005 Rmu_sc0004088.1_g000006 Rmu_sc0004094.1_g000035 Rmu_sc0004324.1_g000006 Rmu_sc0005106.1_g000004 Rmu_sc0005198.1_g000006 Rmu_sc0005599.1_g000009 Rmu_sc0005762.1_g000008 Rmu_sc0006168.1_g000029 Rmu_sc0006273.1_g000014 Rmu_sc0006399.1_g000010 Rmu_sc0006632.1_g000010 Rmu_sc0006656.1_g000001 Rmu_sc0006875.1_g000002 Rmu_sc0007017.1_g000006 Rmu_sc0007034.1_g000017 Rmu_sc0007840.1_g000007 Rmu_sc0009945.1_g000003 Rmu_sc0010071.1_g000002 Rmu_sc0010503.1_g000005 Rmu_sc0011218.1_g000008 Rmu_sc0014846.1_g000007 Rmu_sc0015852.1_g000002 Rmu_sc0029270.1_g000003 Rmu_sc0036358.1_g000001 Rmu_ssc0000050.1_g000071 Rmu_ssc0000110.1_g000008 Rmu_ssc0000267.1_g000009
rosa_roxburghii	Rroxscaffold_2G00100340 Rroxscaffold_2G00144280 Rroxscaffold_3G00221910
rosa_rugosa	Rorug04G0175800
rosa_wichuraiana	Rw0G012500 Rw0G013760 Rw0G014530 Rw0G021600 Rw2G019730 Rw2G045390 Rw3G001890 Rw3G025260 Rw3G029050 Rw4G000250 Rw5G014160 Rw5G031520 Rw5G036440 Rw6G023350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	508
Acc36I	ACCTGC	1 cut(s)	508
AccB1I	GGYRCC	1 cut(s)	66
AccII	CGCG	1 cut(s)	441
AciI	CCGC	1 cut(s)	108
AclWI	GGATC	4 cut(s)	518, 531, 623, 668
AcuI	CTGAAG	1 cut(s)	663
AcyI	GRCGYC	1 cut(s)	67
AfaI	GTAC	1 cut(s)	152
AgsI	TTSAA	5 cut(s)	98, 205, 242, 410, 606
AleI	CACNNNNGTG	1 cut(s)	255
AluBI	AGCT	7 cut(s)	74, 130, 220, 313, 353, 361, 365
AluI	AGCT	7 cut(s)	74, 130, 220, 313, 353, 361, 365
Alw21I	GWGCWC	2 cut(s)	132, 447
Alw26I	GTCTC	1 cut(s)	642
AlwI	GGATC	4 cut(s)	518, 531, 623, 668
AoxI	GGCC	1 cut(s)	397
Asp700I	GAANNNNTTC	2 cut(s)	13, 93
AspLEI	GCGC	1 cut(s)	69
AsuHPI	GGTGA	1 cut(s)	529
AsuNHI	GCTAGC	1 cut(s)	361
BamHI	GGATCC	1 cut(s)	523
BanI	GGYRCC	1 cut(s)	66
BanII	GRGCYC	1 cut(s)	132
Bbv12I	GWGCWC	2 cut(s)	132, 447
BccI	CCATC	4 cut(s)	241, 281, 389, 535
BcoDI	GTCTC	1 cut(s)	642
BfaI	CTAG	2 cut(s)	18, 362
BfoI	RGCGCY	1 cut(s)	70
BfuAI	ACCTGC	1 cut(s)	508
BisI	GCNGC	1 cut(s)	109
BlsI	GCNGC	1 cut(s)	110
BmiI	GGNNCC	2 cut(s)	68, 525
BmsI	GCATC	3 cut(s)	493, 504, 618
BmtI	GCTAGC	1 cut(s)	365
BplI	GAGNNNNNCTC	2 cut(s)	302, 334
BpuEI	CTTGAG	2 cut(s)	324, 609
BsaHI	GRCGYC	1 cut(s)	67
BseGI	GGATG	8 cut(s)	286, 313, 394, 400, 508, 609, 635, 702
BseMII	CTCAG	2 cut(s)	294, 489
BseRI	GAGGAG	1 cut(s)	565
Bsh1236I	CGCG	1 cut(s)	441
BshFI	GGCC	1 cut(s)	399
BshNI	GGYRCC	1 cut(s)	66
BsiHKAI	GWGCWC	2 cut(s)	132, 447
BsiSI	CCGG	1 cut(s)	50
BsmAI	GTCTC	1 cut(s)	642
BsnI	GGCC	1 cut(s)	399
Bsp1286I	GDGCHC	2 cut(s)	132, 447
Bsp143I	GATC	3 cut(s)	523, 628, 673
BspACI	CCGC	1 cut(s)	108
BspANI	GGCC	1 cut(s)	399
BspCNI	CTCAG	2 cut(s)	295, 490
BspFNI	CGCG	1 cut(s)	441
BspHI	TCATGA	1 cut(s)	132
BspLI	GGNNCC	2 cut(s)	68, 525
BspMI	ACCTGC	1 cut(s)	508
BspOI	GCTAGC	1 cut(s)	365
BspPI	GGATC	4 cut(s)	518, 531, 623, 668
BspT107I	GGYRCC	1 cut(s)	66
BssMI	GATC	3 cut(s)	523, 628, 673
BssNI	GRCGYC	1 cut(s)	67
Bst4CI	ACNGT	1 cut(s)	465
BstACI	GRCGYC	1 cut(s)	67
BstC8I	GCNNGC	3 cut(s)	363, 443, 508
BstDEI	CTNAG	3 cut(s)	303, 366, 498
BstF5I	GGATG	8 cut(s)	286, 313, 394, 400, 508, 609, 635, 702
BstFNI	CGCG	1 cut(s)	441
BstH2I	RGCGCY	1 cut(s)	70
BstHHI	GCGC	1 cut(s)	69
BstKTI	GATC	3 cut(s)	526, 631, 676
BstMAI	GTCTC	1 cut(s)	642
BstMBI	GATC	3 cut(s)	523, 628, 673
BstMWI	GCNNNNNNNGC	1 cut(s)	193
BstNSI	RCATGY	3 cut(s)	57, 336, 660
BstUI	CGCG	1 cut(s)	441
BstX2I	RGATCY	2 cut(s)	523, 628
BstYI	RGATCY	2 cut(s)	523, 628
BsuRI	GGCC	1 cut(s)	399
BtsCI	GGATG	8 cut(s)	286, 313, 394, 400, 508, 609, 635, 702
BtsIMutI	CAGTG	1 cut(s)	495
BveI	ACCTGC	1 cut(s)	508
Cac8I	GCNNGC	3 cut(s)	363, 443, 508
CciI	TCATGA	1 cut(s)	132
CfoI	GCGC	1 cut(s)	69
Csp6I	GTAC	1 cut(s)	151
CspCI	CAANNNNNGTGG	2 cut(s)	14, 49
CviAII	CATG	5 cut(s)	54, 133, 269, 333, 657
CviJI	RGCY	8 cut(s)	74, 130, 220, 313, 353, 361, 365, 399
CviKI_1	RGCY	8 cut(s)	74, 130, 220, 313, 353, 361, 365, 399
CviQI	GTAC	1 cut(s)	151
DdeI	CTNAG	3 cut(s)	303, 366, 498
DinI	GGCGCC	1 cut(s)	68
DpnI	GATC	3 cut(s)	525, 630, 675
DpnII	GATC	3 cut(s)	523, 628, 673
Ecl136II	GAGCTC	1 cut(s)	130
Eco24I	GRGCYC	1 cut(s)	132
Eco53kI	GAGCTC	1 cut(s)	130
Eco57I	CTGAAG	1 cut(s)	663
EcoICRI	GAGCTC	1 cut(s)	130
EcoT38I	GRGCYC	1 cut(s)	132
EgeI	GGCGCC	1 cut(s)	68
EheI	GGCGCC	1 cut(s)	68
FaeI	CATG	5 cut(s)	57, 136, 272, 336, 660
FatI	CATG	5 cut(s)	53, 132, 268, 332, 656
Fnu4HI	GCNGC	1 cut(s)	109
FokI	GGATG	7 cut(s)	293, 320, 401, 407, 515, 596, 622
FriOI	GRGCYC	1 cut(s)	132
Fsp4HI	GCNGC	1 cut(s)	109
FspBI	CTAG	2 cut(s)	18, 362
GlaI	GCGC	1 cut(s)	68
GluI	GCNGC	1 cut(s)	109
HaeII	RGCGCY	1 cut(s)	70
HaeIII	GGCC	1 cut(s)	399
HapII	CCGG	1 cut(s)	50
HhaI	GCGC	1 cut(s)	69
Hin1I	GRCGYC	1 cut(s)	67
Hin1II	CATG	5 cut(s)	57, 136, 272, 336, 660
Hin6I	GCGC	1 cut(s)	67
HinP1I	GCGC	1 cut(s)	67
HincII	GTYRAC	2 cut(s)	274, 479
HindII	GTYRAC	2 cut(s)	274, 479
HindIII	AAGCTT	1 cut(s)	218
HinfI	GANTC	1 cut(s)	158
HpaII	CCGG	1 cut(s)	50
HphI	GGTGA	1 cut(s)	529
Hpy166II	GTNNAC	2 cut(s)	274, 479
Hpy188I	TCNGA	1 cut(s)	163
Hpy188III	TCNNGA	3 cut(s)	133, 324, 626
Hpy8I	GTNNAC	2 cut(s)	274, 479
HpyAV	CCTTC	3 cut(s)	158, 467, 638
HpyCH4III	ACNGT	1 cut(s)	465
HpyCH4IV	ACGT	1 cut(s)	149
HpyCH4V	TGCA	2 cut(s)	415, 517
HpyF10VI	GCNNNNNNNGC	1 cut(s)	193
HpyF3I	CTNAG	3 cut(s)	303, 366, 498
HpySE526I	ACGT	1 cut(s)	149
Hsp92I	GRCGYC	1 cut(s)	67
Hsp92II	CATG	5 cut(s)	57, 136, 272, 336, 660
HspAI	GCGC	1 cut(s)	67
KasI	GGCGCC	1 cut(s)	66
Kzo9I	GATC	3 cut(s)	523, 628, 673
LpnPI	CCDG	5 cut(s)	63, 371, 503, 627, 654
LweI	GCATC	3 cut(s)	493, 504, 618
MaeI	CTAG	2 cut(s)	18, 362
MaeII	ACGT	1 cut(s)	149
MalI	GATC	3 cut(s)	525, 630, 675
MboI	GATC	3 cut(s)	523, 628, 673
MboII	GAAGA	2 cut(s)	49, 114
MfeI	CAATTG	1 cut(s)	237
MflI	RGATCY	2 cut(s)	523, 628
MhlI	GDGCHC	2 cut(s)	132, 447
MluCI	AATT	4 cut(s)	237, 483, 531, 582
Mly113I	GGCGCC	1 cut(s)	67
MlyI	GAGTC	1 cut(s)	152
MmeI	TCCRAC	1 cut(s)	14
MnlI	CCTC	9 cut(s)	115, 298, 328, 348, 463, 493, 543, 558, 586
MroXI	GAANNNNTTC	2 cut(s)	13, 93
MseI	TTAA	2 cut(s)	78, 141
MslI	CAYNNNNRTG	1 cut(s)	255
MspI	CCGG	1 cut(s)	50
MunI	CAATTG	1 cut(s)	237
MvnI	CGCG	1 cut(s)	441
MwoI	GCNNNNNNNGC	1 cut(s)	193
NarI	GGCGCC	1 cut(s)	67
NdeII	GATC	3 cut(s)	523, 628, 673
NheI	GCTAGC	1 cut(s)	361
NlaIII	CATG	5 cut(s)	57, 136, 272, 336, 660
NlaIV	GGNNCC	2 cut(s)	68, 525
NspI	RCATGY	3 cut(s)	57, 336, 660
OliI	CACNNNNGTG	1 cut(s)	255
PagI	TCATGA	1 cut(s)	132
PaqCI	CACCTGC	1 cut(s)	508
PdmI	GAANNNNTTC	2 cut(s)	13, 93
PkrI	GCNGC	1 cut(s)	110
PleI	GAGTC	1 cut(s)	152
PluTI	GGCGCC	1 cut(s)	70
PpsI	GAGTC	1 cut(s)	152
Psp124BI	GAGCTC	1 cut(s)	132
PspN4I	GGNNCC	2 cut(s)	68, 525
PsrI	GAACNNNNNNTAC	2 cut(s)	283, 315
PsuI	RGATCY	2 cut(s)	523, 628
RsaI	GTAC	1 cut(s)	152
RsaNI	GTAC	1 cut(s)	151
RseI	CAYNNNNRTG	1 cut(s)	255
SacI	GAGCTC	1 cut(s)	132
SaqAI	TTAA	2 cut(s)	78, 141
SatI	GCNGC	1 cut(s)	109
Sau3AI	GATC	3 cut(s)	523, 628, 673
SchI	GAGTC	1 cut(s)	152
SduI	GDGCHC	2 cut(s)	132, 447
SfaNI	GCATC	3 cut(s)	493, 504, 618
SfoI	GGCGCC	1 cut(s)	68
SmiMI	CAYNNNNRTG	1 cut(s)	255
SmlI	CTYRAG	2 cut(s)	339, 624
SmoI	CTYRAG	2 cut(s)	339, 624
Sse9I	AATT	4 cut(s)	237, 483, 531, 582
SsiI	CCGC	1 cut(s)	108
SspDI	GGCGCC	1 cut(s)	66
SspMI	CTAG	2 cut(s)	18, 362
SstI	GAGCTC	1 cut(s)	132
TaaI	ACNGT	1 cut(s)	465
TaiI	ACGT	1 cut(s)	152
TaqI	TCGA	1 cut(s)	87
TasI	AATT	4 cut(s)	237, 483, 531, 582
TauI	GCSGC	1 cut(s)	111
Tru1I	TTAA	2 cut(s)	78, 141
Tru9I	TTAA	2 cut(s)	78, 141
TscAI	CASTG	1 cut(s)	502
TspDTI	ATGAA	3 cut(s)	74, 149, 441
TspRI	CASTG	1 cut(s)	502
XceI	RCATGY	3 cut(s)	57, 336, 660
XmnI	GAANNNNTTC	2 cut(s)	13, 93
XspI	CTAG	2 cut(s)	18, 362

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