Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr6

Orthogroup ID

OG0001063

Physical Location & Seq

Genomic Coordinates Forward (+)

5404134 .. 5412175

Gene Structure 8042 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw6G003410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1518 bp

ATGGCGAATTTTGCGAAACCGGAAAATGCTTTGAAGCGAGCTGAAGAGTTGATCAATGTTGGGCAGAAGCAAGATGCATTGCAATCGCTTCATGATCTTATTACATCAAAGAGATATAGAGCATGGCAGAAGCCACTTGAAAAAATTATGTTTAAATATGTGGAGCTTTGTGTTGACTTGCGCAAGGGTAGATTTGCCAAGGATGGTCTGATTCAGTACCGTATTATATGTCAACAAGTAAATGTCAGTTCCTTGGAAGAGGTGATCAAGCACTTCATGCATCTGTCAACTGAGAAAGCTGAGCAGGCACGTACCCAGGCTCAAGCATTAGAAGAAGCACTTGATGTTGATGACCTCGAAGCAGATAAGAGGCCTGAAGATCTAATGCTGAGTTATGTCAGTGGAGAGAAAGGAAAAGATAGGTCTGATCGTGAAGTTGTTACTCCTTGGTTCAAGTTTTTATGGGAAACCTACAGAACAGTGCTTGAGATCTTGCGCAACAACTCAAAGTTGGAGGCCCTTTATGCGATGACGGCACATCGAGCCTTTCAGTTATGCAAGCAATACAAACGAACTACGGAGTTTCGAAGGTTATGTGAAATCATCAGGAATCATCTGGCTAATCTGAACAAGTATAGAGATCAAAGAGACCGACCTGACCTATCTGCACCTGAGAGCTTGCAACTGTATCTTGATACTAGATTTGAGCAGCTGAAGATAGCTACTGAACTTGAACTGTGGCAGGAAGCGTTCCGCTCTGTTGAAGATATTCATGGATTGATGTGCATGGTTAAGAAAACCCCTAAACCATCGTTGATGGTGGTTTACTATGCGAAGCTCACAGAAATTTTTTGGATTTCTGCTAGCCACCTTAATCATGCTTATGCATGGTTCAAGCTATTCTCGCTTCAGAAAAGCTTTAACAAAAACTTAAGCCAGAAGGATTTGCAGTTAATAGCATCATCTGTTGTCTTGGCTGCACTTTCAGTTCCCCCCTATTATCAGACACGTGCTGCCTCTCACTTGGAACTTGAAAATGAGAAAGAGCGCAATTTGAGGATGGCTAATCTAATTGGCTTTAATCTTGACCCCAAAATCGACAGAGGAGATGTGCTTTCAAGATCTGCTCTTCTATCAGAACTGGTTCTCATTAATCAACTGAAGGAAGTTGCTCCAGCAATACAAAAGTCAATATCAGAACAGGTTGACTTCTTTACTTCTGCTTATAGGACTTTGCCCAGAACTGCAAATCACTTGCAAGAAATGAAGGACATGCTAATTGCCATATCAAATGAACTGCTTGATGATGTCAATGAACTCAGTCCAAAGCAAATAGAGAAGCTTCGCCAAGATAGGTTTGCATACCAATCCCTTCATTTGTCAATGGACATTAGAAATCATACTTTACCTTTTGTTGATCAGAGACAAAATTCCATCCATACATCTCAACAGGTCCAAGATCCTCAATTAGAAGTTGTAGAAACCAACACCATTACTGGAACTAAATGGATATTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001732 GO:0002181 GO:0002183 GO:0002188 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003743 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005852 GO:0005886 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0008135 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016020 GO:0016043 GO:0019538 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043603 GO:0043604 GO:0043614 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0065003 GO:0071540 GO:0071541 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PCI

Protein Analysis

505

Amino Acids

58.86

Weight (kDa)

7.67

Isoelectric Point (pI)

39.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
eIF3a_PCI_TPR-like	PF22591	8 - 365	2.5e-131	eIF3a, PCI domain, TPR-like region

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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Publication-ready

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Orthologous Genes (Group: OG0001063)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G11420
fragaria_vesca	FvH4_6g07021 FvH4_6g07021 FvH4_6g07021 FvH4_6g07021 FvH4_6g07021
malus_domestica	MD04G1196800.v1.1 MD12G1209700.v1.1
prunus_persica	Prupe.6G317100_v2.0.a1 Prupe.6G317100_v2.0.a1
pyrus_communis	pycom04g17400 pycom12g19700
rosa_chinensis	RchiOBHm_Chr2g0109021 RchiOBHm_Chr3g0456551 RchiOBHm_Chr5g0047251 RchiOBHm_Chr6g0248701
rosa_laevigata	RLG00000025294 RLG00000028631
rosa_multiflora	Rmu_sc0000361.1_g000030 Rmu_sc0000670.1_g000004 Rmu_sc0000955.1_g000029 Rmu_sc0002045.1_g000025 Rmu_sc0002607.1_g000004 Rmu_sc0005473.1_g000001
rosa_roxburghii	Rroxscaffold_1G00037410 Rroxscaffold_2G00104310 Rroxscaffold_3G00230480 Rroxscaffold_3G00256140 Rroxscaffold_6G00422630
rosa_rugosa	Rorug03G0013900 Rorug04G0204200
rosa_samantha	Rh1BG180500 Rh1DG210500 Rh2CG210900 Rh2DG107300 Rh2DG455500 Rh3AG074600 Rh3AG217800 Rh3BG076300 Rh3CG076000 Rh3DG078100 Rh4AG261300 Rh4BG267100 Rh4DG188600 Rh4DG191400 Rh4DG263400 Rh5BG322700 Rh5BG536200 Rh5BG542500 Rh5CG559400 Rh5CG565100 Rh5DG333700 Rh5DG412500 Rh6AG116300 Rh6BG110500 Rh6CG264500
rosa_wichuraiana	Rw3G006380 Rw5G047630 Rw6G003410 Rw6G025160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	182, 497
AccBSI	CCGCTC	1 cut(s)	756
AciI	CCGC	1 cut(s)	754
AclWI	GGATC	1 cut(s)	1454
AcsI	RAATTY	3 cut(s)	7, 846, 1429
AcuI	CTGAAG	5 cut(s)	63, 396, 734, 893, 1181
AcvI	CACGTG	1 cut(s)	1010
AfaI	GTAC	2 cut(s)	218, 313
AflII	CTTAAG	1 cut(s)	931
AflIII	ACRYGT	1 cut(s)	1007
AgsI	TTSAA	8 cut(s)	34, 140, 454, 734, 764, 895, 1034, 1119
AjnI	CCWGG	1 cut(s)	315
Alw26I	GTCTC	2 cut(s)	642, 1417
AlwI	GGATC	1 cut(s)	1454
AoxI	GGCC	2 cut(s)	371, 516
ApeKI	GCWGC	3 cut(s)	709, 977, 1013
ApoI	RAATTY	3 cut(s)	7, 846, 1429
AseI	ATTAAT	1 cut(s)	1152
Asp700I	GAANNNNTTC	2 cut(s)	768, 1143
AspLEI	GCGC	3 cut(s)	183, 498, 1050
AspS9I	GGNCC	2 cut(s)	517, 1453
AsuHPI	GGTGA	1 cut(s)	274
AsuII	TTCGAA	1 cut(s)	586
AsuNHI	GCTAGC	1 cut(s)	863
AvaII	GGWCC	1 cut(s)	1453
BbrPI	CACGTG	1 cut(s)	1010
BbvI	GCAGC	3 cut(s)	721, 964, 1000
BccI	CCATC	5 cut(s)	197, 811, 817, 1054, 1442
BceAI	ACGGC	1 cut(s)	549
BcgI	CGANNNNNNTGC	2 cut(s)	66, 100
BciT130I	CCWGG	1 cut(s)	317
BclI	TGATCA	3 cut(s)	51, 264, 1417
BcoDI	GTCTC	2 cut(s)	642, 1417
BfaI	CTAG	2 cut(s)	699, 864
BfmI	CTRYAG	1 cut(s)	472
BfrI	CTTAAG	1 cut(s)	931
BglII	AGATCT	3 cut(s)	379, 489, 1121
BisI	GCNGC	3 cut(s)	710, 978, 1014
BlpI	GCTNAGC	1 cut(s)	300
BlsI	GCNGC	3 cut(s)	711, 979, 1015
Bme1390I	CCNGG	1 cut(s)	317
Bme18I	GGWCC	1 cut(s)	1453
BmgT120I	GGNCC	2 cut(s)	517, 1453
BmrFI	CCNGG	1 cut(s)	317
BmsI	GCATC	3 cut(s)	64, 289, 968
BmtI	GCTAGC	1 cut(s)	867
BpmI	CTGGAG	1 cut(s)	1158
Bpu1102I	GCTNAGC	1 cut(s)	300
Bpu14I	TTCGAA	1 cut(s)	586
BpuEI	CTTGAG	2 cut(s)	306, 506
BsaAI	YACGTR	2 cut(s)	311, 1010
BsaI	GGTCTC	1 cut(s)	642
BsaJI	CCNNGG	4 cut(s)	198, 252, 315, 446
BsaWI	WCCGGW	1 cut(s)	19
Bse1I	ACTGG	2 cut(s)	1146, 1501
Bse3DI	GCAATG	1 cut(s)	77
BseBI	CCWGG	1 cut(s)	317
BseDI	CCNNGG	4 cut(s)	198, 252, 315, 446
BseGI	GGATG	3 cut(s)	208, 1065, 1434
BseMI	GCAATG	1 cut(s)	77
BseMII	CTCAG	5 cut(s)	282, 291, 380, 663, 1333
BseNI	ACTGG	2 cut(s)	1146, 1501
BseRI	GAGGAG	1 cut(s)	1119
BseXI	GCAGC	3 cut(s)	721, 964, 1000
BsgI	GTGCAG	2 cut(s)	651, 963
BshFI	GGCC	2 cut(s)	373, 518
BsiSI	CCGG	1 cut(s)	20
BsmAI	GTCTC	2 cut(s)	642, 1417
BsnI	GGCC	2 cut(s)	373, 518
Bso31I	GGTCTC	1 cut(s)	642
Bsp119I	TTCGAA	1 cut(s)	586
Bsp1720I	GCTNAGC	1 cut(s)	300
BspACI	CCGC	1 cut(s)	754
BspANI	GGCC	2 cut(s)	373, 518
BspCNI	CTCAG	5 cut(s)	283, 292, 381, 664, 1332
BspHI	TCATGA	1 cut(s)	91
BspOI	GCTAGC	1 cut(s)	867
BspPI	GGATC	1 cut(s)	1454
BspQI	GCTCTTC	1 cut(s)	1134
BspT104I	TTCGAA	1 cut(s)	586
BspTI	CTTAAG	1 cut(s)	931
BspTNI	GGTCTC	1 cut(s)	642
BsrBI	CCGCTC	1 cut(s)	756
BsrDI	GCAATG	1 cut(s)	77
BsrI	ACTGG	2 cut(s)	1146, 1501
BssECI	CCNNGG	4 cut(s)	198, 252, 315, 446
BssT1I	CCWWGG	3 cut(s)	198, 252, 446
Bst2UI	CCWGG	1 cut(s)	317
Bst4CI	ACNGT	4 cut(s)	221, 481, 687, 738
Bst6I	CTCTTC	3 cut(s)	39, 252, 1134
BstAFI	CTTAAG	1 cut(s)	931
BstAPI	GCANNNNNTGC	1 cut(s)	277
BstBAI	YACGTR	2 cut(s)	311, 1010
BstBI	TTCGAA	1 cut(s)	586
BstC8I	GCNNGC	5 cut(s)	39, 306, 560, 680, 865
BstDEI	CTNAG	5 cut(s)	291, 300, 389, 672, 1319
BstF5I	GGATG	3 cut(s)	208, 1065, 1434
BstHHI	GCGC	3 cut(s)	183, 498, 1050
BstMAI	GTCTC	2 cut(s)	642, 1417
BstMWI	GCNNNNNNNGC	7 cut(s)	11, 277, 305, 524, 533, 542, 904
BstNI	CCWGG	1 cut(s)	317
BstNSI	RCATGY	1 cut(s)	1276
BstSCI	CCNGG	1 cut(s)	315
BstSFI	CTRYAG	1 cut(s)	472
BstV1I	GCAGC	3 cut(s)	721, 964, 1000
BstX2I	RGATCY	4 cut(s)	379, 489, 1121, 1459
BstYI	RGATCY	4 cut(s)	379, 489, 1121, 1459
BsuRI	GGCC	2 cut(s)	373, 518
BtgZI	GCGATG	1 cut(s)	542
BtsCI	GGATG	3 cut(s)	208, 1065, 1434
BtsIMutI	CAGTG	2 cut(s)	406, 486
Cac8I	GCNNGC	5 cut(s)	39, 306, 560, 680, 865
CciI	TCATGA	1 cut(s)	91
CfoI	GCGC	3 cut(s)	183, 498, 1050
Cfr13I	GGNCC	2 cut(s)	517, 1453
Csp6I	GTAC	2 cut(s)	217, 312
CviAII	CATG	8 cut(s)	92, 123, 277, 773, 787, 878, 888, 1273
CviQI	GTAC	2 cut(s)	217, 312
DdeI	CTNAG	5 cut(s)	291, 300, 389, 672, 1319
DraI	TTTAAA	1 cut(s)	154
Eam1104I	CTCTTC	3 cut(s)	39, 252, 1134
EarI	CTCTTC	3 cut(s)	39, 252, 1134
Eco130I	CCWWGG	3 cut(s)	198, 252, 446
Eco147I	AGGCCT	1 cut(s)	373
Eco31I	GGTCTC	1 cut(s)	642
Eco47I	GGWCC	1 cut(s)	1453
Eco57I	CTGAAG	5 cut(s)	63, 396, 734, 893, 1181
Eco72I	CACGTG	1 cut(s)	1010
EcoO109I	RGGNCCY	1 cut(s)	517
EcoRII	CCWGG	1 cut(s)	315
EcoT14I	CCWWGG	3 cut(s)	198, 252, 446
EcoT22I	ATGCAT	3 cut(s)	79, 282, 889
ErhI	CCWWGG	3 cut(s)	198, 252, 446
FaeI	CATG	8 cut(s)	95, 126, 280, 776, 790, 881, 891, 1276
FalI	AAGNNNNNCTT	2 cut(s)	324, 356
FatI	CATG	8 cut(s)	91, 122, 276, 772, 786, 877, 887, 1272
FbaI	TGATCA	3 cut(s)	51, 264, 1417
Fnu4HI	GCNGC	3 cut(s)	710, 978, 1014
FokI	GGATG	3 cut(s)	215, 1072, 1421
Fsp4HI	GCNGC	3 cut(s)	710, 978, 1014
FspBI	CTAG	2 cut(s)	699, 864
FspI	TGCGCA	2 cut(s)	182, 497
GlaI	GCGC	3 cut(s)	182, 497, 1049
GluI	GCNGC	3 cut(s)	710, 978, 1014
GsuI	CTGGAG	1 cut(s)	1158
HaeIII	GGCC	2 cut(s)	373, 518
HapII	CCGG	1 cut(s)	20
HhaI	GCGC	3 cut(s)	183, 498, 1050
Hin1II	CATG	8 cut(s)	95, 126, 280, 776, 790, 881, 891, 1276
Hin6I	GCGC	3 cut(s)	181, 496, 1048
HinP1I	GCGC	3 cut(s)	181, 496, 1048
HincII	GTYRAC	4 cut(s)	175, 233, 288, 1207
HindII	GTYRAC	4 cut(s)	175, 233, 288, 1207
HindIII	AAGCTT	2 cut(s)	916, 1340
HinfI	GANTC	2 cut(s)	211, 610
HpaII	CCGG	1 cut(s)	20
HphI	GGTGA	1 cut(s)	274
Hpy166II	GTNNAC	5 cut(s)	175, 233, 288, 826, 1207
Hpy188I	TCNGA	8 cut(s)	210, 427, 627, 912, 1005, 1138, 1198, 1422
Hpy188III	TCNNGA	6 cut(s)	92, 431, 607, 692, 1085, 1119
Hpy8I	GTNNAC	5 cut(s)	175, 233, 288, 826, 1207
HpyAV	CCTTC	5 cut(s)	582, 934, 1156, 1261, 1382
HpyCH4III	ACNGT	4 cut(s)	221, 481, 687, 738
HpyCH4IV	ACGT	2 cut(s)	310, 1009
HpyF10VI	GCNNNNNNNGC	7 cut(s)	11, 277, 305, 524, 533, 542, 904
HpyF3I	CTNAG	5 cut(s)	291, 300, 389, 672, 1319
HpySE526I	ACGT	2 cut(s)	310, 1009
Hsp92II	CATG	8 cut(s)	95, 126, 280, 776, 790, 881, 891, 1276
HspAI	GCGC	3 cut(s)	181, 496, 1048
Ksp22I	TGATCA	3 cut(s)	51, 264, 1417
LguI	GCTCTTC	1 cut(s)	1134
LmnI	GCTCC	2 cut(s)	163, 1177
Lsp1109I	GCAGC	3 cut(s)	721, 964, 1000
LweI	GCATC	3 cut(s)	64, 289, 968
MaeI	CTAG	2 cut(s)	699, 864
MaeII	ACGT	2 cut(s)	310, 1009
MaeIII	GTNAC	1 cut(s)	439
MbiI	CCGCTC	1 cut(s)	756
MboII	GAAGA	7 cut(s)	56, 269, 344, 389, 727, 776, 1121
MflI	RGATCY	4 cut(s)	379, 489, 1121, 1459
MluCI	AATT	8 cut(s)	7, 144, 846, 1051, 1071, 1278, 1429, 1466
MmeI	TCCRAC	1 cut(s)	492
MnlI	CCTC	8 cut(s)	253, 363, 365, 508, 1027, 1050, 1097, 1473
Mph1103I	ATGCAT	3 cut(s)	79, 282, 889
MroXI	GAANNNNTTC	2 cut(s)	768, 1143
MseI	TTAA	8 cut(s)	153, 792, 873, 921, 932, 953, 1080, 1152
MslI	CAYNNNNRTG	1 cut(s)	882
MspA1I	CMGCKG	1 cut(s)	712
MspCI	CTTAAG	1 cut(s)	931
MspI	CCGG	1 cut(s)	20
MspR9I	CCNGG	1 cut(s)	317
MvaI	CCWGG	1 cut(s)	317
MwoI	GCNNNNNNNGC	7 cut(s)	11, 277, 305, 524, 533, 542, 904
NheI	GCTAGC	1 cut(s)	863
NlaIII	CATG	8 cut(s)	95, 126, 280, 776, 790, 881, 891, 1276
NsbI	TGCGCA	2 cut(s)	182, 497
NsiI	ATGCAT	3 cut(s)	79, 282, 889
NspI	RCATGY	1 cut(s)	1276
NspV	TTCGAA	1 cut(s)	586
PagI	TCATGA	1 cut(s)	91
PceI	AGGCCT	1 cut(s)	373
PciSI	GCTCTTC	1 cut(s)	1134
PdmI	GAANNNNTTC	2 cut(s)	768, 1143
PfeI	GAWTC	2 cut(s)	211, 610
PkrI	GCNGC	3 cut(s)	711, 979, 1015
PmaCI	CACGTG	1 cut(s)	1010
PmlI	CACGTG	1 cut(s)	1010
Ppu21I	YACGTR	2 cut(s)	311, 1010
PshBI	ATTAAT	1 cut(s)	1152
Psp6I	CCWGG	1 cut(s)	315
PspCI	CACGTG	1 cut(s)	1010
PspGI	CCWGG	1 cut(s)	315
PspPI	GGNCC	2 cut(s)	517, 1453
PsuI	RGATCY	4 cut(s)	379, 489, 1121, 1459
PvuII	CAGCTG	1 cut(s)	712
RsaI	GTAC	2 cut(s)	218, 313
RsaNI	GTAC	2 cut(s)	217, 312
RseI	CAYNNNNRTG	1 cut(s)	882
SapI	GCTCTTC	1 cut(s)	1134
SaqAI	TTAA	8 cut(s)	153, 792, 873, 921, 932, 953, 1080, 1152
SatI	GCNGC	3 cut(s)	710, 978, 1014
Sau96I	GGNCC	2 cut(s)	517, 1453
ScrFI	CCNGG	1 cut(s)	317
SfaNI	GCATC	3 cut(s)	64, 289, 968
SfcI	CTRYAG	1 cut(s)	472
SfuI	TTCGAA	1 cut(s)	586
SinI	GGWCC	1 cut(s)	1453
SmiMI	CAYNNNNRTG	1 cut(s)	882
SmlI	CTYRAG	3 cut(s)	321, 485, 931
SmoI	CTYRAG	3 cut(s)	321, 485, 931
Sse9I	AATT	8 cut(s)	7, 144, 846, 1051, 1071, 1278, 1429, 1466
SseBI	AGGCCT	1 cut(s)	373
SsiI	CCGC	1 cut(s)	754
SspMI	CTAG	2 cut(s)	699, 864
StuI	AGGCCT	1 cut(s)	373
StyD4I	CCNGG	1 cut(s)	315
StyI	CCWWGG	3 cut(s)	198, 252, 446
TaaI	ACNGT	4 cut(s)	221, 481, 687, 738
TaiI	ACGT	2 cut(s)	313, 1012
TaqI	TCGA	4 cut(s)	357, 541, 586, 1098
TaqII	GACCGA	1 cut(s)	666
TasI	AATT	8 cut(s)	7, 144, 846, 1051, 1071, 1278, 1429, 1466
TfiI	GAWTC	2 cut(s)	211, 610
Tru1I	TTAA	8 cut(s)	153, 792, 873, 921, 932, 953, 1080, 1152
Tru9I	TTAA	8 cut(s)	153, 792, 873, 921, 932, 953, 1080, 1152
TscAI	CASTG	2 cut(s)	406, 486
TseI	GCWGC	3 cut(s)	709, 977, 1013
TspDTI	ATGAA	7 cut(s)	80, 265, 761, 1280, 1308, 1329, 1364
TspGWI	ACGGA	1 cut(s)	593
TspRI	CASTG	2 cut(s)	406, 486
Vha464I	CTTAAG	1 cut(s)	931
VpaK11BI	GGWCC	1 cut(s)	1453
VspI	ATTAAT	1 cut(s)	1152
XapI	RAATTY	3 cut(s)	7, 846, 1429
XceI	RCATGY	1 cut(s)	1276
XmnI	GAANNNNTTC	2 cut(s)	768, 1143
XspI	CTAG	2 cut(s)	699, 864
Zsp2I	ATGCAT	3 cut(s)	79, 282, 889

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