Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0000938

Physical Location & Seq

Genomic Coordinates Reverse (-)

33242511 .. 33246959

Gene Structure 4449 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG276900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

ATGGCTTCGACTTCGAAATTCTGGGGCCACCAGAGTGATCAAAGTGACAGCGATAGCCATTCAGAAGATGAGCATGTAATCACAGATGAGGAGACGACTAGCATTAAGAAAATAAAAAACAAATACGAAATTGAAAGTGATGATGAGGAAAGCTCTGATGACGAAAAGCGTGTGGTTAAGTCAGGGAAAGCTAAGCGATTCGAGGAGATGTGTGCTACTGTTGGCAAGATAAACAAGGCAAAGAACATAAACGATTGGGTGAGCTTGCAGGACTCGTTTGACAAGATGAATAAACAGCTTGAGAAGGTGATGCGCGTAGCCCGGTCTGGAAAAGTACCAACTCTGTCTGGAAAAGTACCAACTCTGTATAGCATAATATGTGCATTTCTTATAACTCCTGAGCTCGTACCTCGGGGACCTGCGTTTTTGGAGAGTAGTAGGGCCCTCATGGATATTCTTGTCTCTTTCATATACAAATATGGAGATGATCGGACTAAAGCTCGTGCAATGCTTTGTGATATTTACCACCATGCTCTCCTGGATGATTTCTCTACTGCCCGTAACTTGCTGCTAATGAGTCACCTGAAAGACAGTATTCACCATATGGACATTTTATCCAAAATCCTTTTCAATAGGACTACGGCACAGCTTGGTCTGTGTGCATTTCGTAATGGACTAATTACTGAAGGACATAGCTGCCTTTCTGAACTATATTCAGGTGGAAAAGTGAAGGAGTTGCTCGGACAAGGTGTGTCCCGAAGTAGATATCATGAGAAAACTCCTGAACAGGGGAGTCTTGAGAGACCCTATCATATGCACATCAACCTTGAGCTCCTAGAGGCAGTGCATTTGATATGTGCCATGCTGCTGGAAGTGCCTAATAAGGCAGCTATACTGTTAACTGTTCAGATTTTTAGATTTTGTTTACCATGTGTTCAAGAGGAAGCTCAGAGAGCCCAAGGGGGAGAATGTCACTCTTGGACCTGCTGTCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005852 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0019538 GO:0031369 GO:0032991 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0071704 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

PCI eIF-3c_N

Protein Analysis

331

Amino Acids

37.38

Weight (kDa)

6.28

Isoelectric Point (pI)

53.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
eIF-3c_N	PF05470	45 - 115	1e-17	Eukaryotic translation initiation factor 3 subunit 8 N-terminus
eIF-3c_N	PF05470	125 - 298	1.5e-80	Eukaryotic translation initiation factor 3 subunit 8 N-terminus

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: OG0000938)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G56150 AT3G56150
fragaria_vesca	FvH4_5g35510 FvH4_5g35510 FvH4_5g35510 FvH4_5g35510 FvH4_6g21351 FvH4_6g21351 FvH4_6g21360 FvH4_6g21360 FvH4_6g21360
malus_domestica	MD05G1153900.v1.1 MD08G1196100.v1.1 MD12G1050600.v1.1 MD15G1383900.v1.1
prunus_persica	Prupe.1G530000_v2.0.a1 Prupe.7G086100_v2.0.a1 Prupe.7G086100_v2.0.a1
pyrus_communis	pycom08g16830 pycom12g04510 pycom15g34350
rosa_chinensis	RchiOBHm_Chr3g0477961 RchiOBHm_Chr3g0477971 RchiOBHm_Chr7g0236891
rosa_laevigata	RLG00000001050 RLG00000023675 RLG00000023676
rosa_multiflora	Rmu_co8284977.1_g000001 Rmu_co8517169.1_g000001 Rmu_sc0005991.1_g000006 Rmu_sc0010895.1_g000001 Rmu_sc0013727.1_g000003 Rmu_sc0028822.1_g000002
rosa_roxburghii	Rroxscaffold_1G00032460 Rroxscaffold_1G00037610 Rroxscaffold_3G00224710 Rroxscaffold_6G00403560 Rroxscaffold_6G00403570
rosa_rugosa	Rorug03G0164400 Rorug03G0164500 Rorug03G0164600 Rorug03G0164700 Rorug03G0164800 Rorug03G0164900 Rorug07G0300800
rosa_samantha	Rh2AG276900 Rh3AG215100 Rh3AG215200 Rh3BG248700 Rh3BG248800 Rh3CG242600 Rh3CG242700 Rh3DG242000 Rh3DG242200 Rh3DG242300 Rh7AG455600 Rh7BG427000 Rh7CG474300 Rh7DG443500
rosa_wichuraiana	Rw0G010140 Rw0G010150 Rw3G019380 Rw3G019390 Rw7G037820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	392
Acc36I	ACCTGC	2 cut(s)	427, 992
AccII	CGCG	1 cut(s)	315
AcsI	RAATTY	1 cut(s)	17
AcuI	CTGAAG	1 cut(s)	705
AfaI	GTAC	3 cut(s)	336, 357, 408
AfiI	CCNNNNNNNGG	1 cut(s)	788
AgsI	TTSAA	3 cut(s)	134, 631, 938
AhdI	GACNNNNNGTC	1 cut(s)	987
AjnI	CCWGG	1 cut(s)	537
AjuI	GAANNNNNNNTTGG	2 cut(s)	611, 643
AleI	CACNNNNGTG	1 cut(s)	33
Alw21I	GWGCWC	2 cut(s)	405, 834
Alw26I	GTCTC	3 cut(s)	86, 466, 796
Ama87I	CYCGRG	1 cut(s)	411
AoxI	GGCC	2 cut(s)	25, 441
ApaI	GGGCCC	1 cut(s)	445
ApeKI	GCWGC	4 cut(s)	568, 696, 865, 887
ApoI	RAATTY	1 cut(s)	17
AspLEI	GCGC	1 cut(s)	315
AspS9I	GGNCC	5 cut(s)	25, 416, 441, 442, 981
AsuC2I	CCSGG	1 cut(s)	322
AsuHPI	GGTGA	4 cut(s)	271, 319, 572, 590
AsuII	TTCGAA	1 cut(s)	14
AvaI	CYCGRG	1 cut(s)	411
AvaII	GGWCC	2 cut(s)	416, 981
BaeGI	GKGCMC	1 cut(s)	445
BanII	GRGCYC	4 cut(s)	405, 445, 834, 958
BauI	CACGAG	1 cut(s)	501
Bbv12I	GWGCWC	2 cut(s)	405, 834
BbvI	GCAGC	4 cut(s)	555, 683, 852, 899
BceAI	ACGGC	1 cut(s)	657
BciT130I	CCWGG	1 cut(s)	539
BclI	TGATCA	1 cut(s)	37
BcnI	CCSGG	1 cut(s)	322
BcoDI	GTCTC	3 cut(s)	86, 466, 796
BfaI	CTAG	2 cut(s)	99, 836
BfuAI	ACCTGC	2 cut(s)	427, 992
BisI	GCNGC	4 cut(s)	569, 697, 866, 888
BlpI	GCTNAGC	1 cut(s)	192
BlsI	GCNGC	4 cut(s)	570, 698, 867, 889
Bme1390I	CCNGG	2 cut(s)	322, 539
Bme18I	GGWCC	2 cut(s)	416, 981
BmeRI	GACNNNNNGTC	1 cut(s)	987
BmeT110I	CYCGRG	1 cut(s)	411
BmgT120I	GGNCC	5 cut(s)	25, 416, 441, 442, 981
BmiI	GGNNCC	3 cut(s)	26, 417, 443
BmrFI	CCNGG	2 cut(s)	322, 539
BmsI	GCATC	1 cut(s)	300
BplI	GAGNNNNNCTC	2 cut(s)	137, 169
Bpu10I	CCTNAGC	1 cut(s)	399
Bpu1102I	GCTNAGC	1 cut(s)	192
Bpu14I	TTCGAA	1 cut(s)	14
BpuEI	CTTGAG	3 cut(s)	320, 818, 848
BpuMI	CCSGG	1 cut(s)	322
BsaI	GGTCTC	1 cut(s)	796
BsaJI	CCNNGG	2 cut(s)	410, 958
Bsc4I	CCNNNNNNNGG	1 cut(s)	788
Bse3DI	GCAATG	1 cut(s)	513
BseBI	CCWGG	1 cut(s)	539
BseDI	CCNNGG	2 cut(s)	410, 958
BseGI	GGATG	1 cut(s)	547
BseLI	CCNNNNNNNGG	1 cut(s)	788
BseMI	GCAATG	1 cut(s)	513
BseMII	CTCAG	2 cut(s)	390, 962
BseRI	GAGGAG	2 cut(s)	104, 218
BseSI	GKGCMC	1 cut(s)	445
BseXI	GCAGC	4 cut(s)	555, 683, 852, 899
Bsh1236I	CGCG	1 cut(s)	315
BshFI	GGCC	2 cut(s)	27, 443
BsiHKAI	GWGCWC	2 cut(s)	405, 834
BsiHKCI	CYCGRG	1 cut(s)	411
BsiSI	CCGG	1 cut(s)	322
BslFI	GGGAC	2 cut(s)	429, 739
BslI	CCNNNNNNNGG	1 cut(s)	788
BsmAI	GTCTC	3 cut(s)	86, 466, 796
BsmBI	CGTCTC	1 cut(s)	86
BsmFI	GGGAC	2 cut(s)	429, 739
BsnI	GGCC	2 cut(s)	27, 443
Bso31I	GGTCTC	1 cut(s)	796
BsoBI	CYCGRG	1 cut(s)	411
Bsp119I	TTCGAA	1 cut(s)	14
Bsp120I	GGGCCC	1 cut(s)	441
Bsp1286I	GDGCHC	4 cut(s)	405, 445, 834, 958
Bsp143I	GATC	2 cut(s)	37, 487
Bsp1720I	GCTNAGC	1 cut(s)	192
BspANI	GGCC	2 cut(s)	27, 443
BspCNI	CTCAG	2 cut(s)	391, 961
BspFNI	CGCG	1 cut(s)	315
BspHI	TCATGA	1 cut(s)	769
BspLI	GGNNCC	3 cut(s)	26, 417, 443
BspMI	ACCTGC	2 cut(s)	427, 992
BspT104I	TTCGAA	1 cut(s)	14
BspTNI	GGTCTC	1 cut(s)	796
BsrDI	GCAATG	1 cut(s)	513
BssECI	CCNNGG	2 cut(s)	410, 958
BssMI	GATC	2 cut(s)	37, 487
BssSI	CACGAG	1 cut(s)	501
BssT1I	CCWWGG	1 cut(s)	958
Bst2BI	CACGAG	1 cut(s)	501
Bst2UI	CCWGG	1 cut(s)	539
Bst4CI	ACNGT	4 cut(s)	220, 593, 897, 904
BstBI	TTCGAA	1 cut(s)	14
BstC8I	GCNNGC	1 cut(s)	266
BstDEI	CTNAG	3 cut(s)	192, 399, 948
BstF5I	GGATG	1 cut(s)	547
BstFNI	CGCG	1 cut(s)	315
BstHHI	GCGC	1 cut(s)	315
BstKTI	GATC	2 cut(s)	40, 490
BstMAI	GTCTC	3 cut(s)	86, 466, 796
BstMBI	GATC	2 cut(s)	37, 487
BstMWI	GCNNNNNNNGC	2 cut(s)	874, 953
BstNI	CCWGG	1 cut(s)	539
BstNSI	RCATGY	1 cut(s)	77
BstSCI	CCNGG	2 cut(s)	320, 537
BstSLI	GKGCMC	1 cut(s)	445
BstUI	CGCG	1 cut(s)	315
BstV1I	GCAGC	4 cut(s)	555, 683, 852, 899
BstXI	CCANNNNNNTGG	1 cut(s)	868
BsuRI	GGCC	2 cut(s)	27, 443
BtsCI	GGATG	1 cut(s)	547
BtsI	GCAGTG	1 cut(s)	849
BtsIMutI	CAGTG	1 cut(s)	849
BveI	ACCTGC	2 cut(s)	427, 992
Cac8I	GCNNGC	1 cut(s)	266
CciI	TCATGA	1 cut(s)	769
CfoI	GCGC	1 cut(s)	315
Cfr13I	GGNCC	5 cut(s)	25, 416, 441, 442, 981
Csp6I	GTAC	3 cut(s)	335, 356, 407
CviAII	CATG	6 cut(s)	74, 448, 530, 770, 862, 930
CviQI	GTAC	3 cut(s)	335, 356, 407
DdeI	CTNAG	3 cut(s)	192, 399, 948
DpnI	GATC	2 cut(s)	39, 489
DpnII	GATC	2 cut(s)	37, 487
DriI	GACNNNNNGTC	1 cut(s)	987
Eam1105I	GACNNNNNGTC	1 cut(s)	987
Ecl136II	GAGCTC	2 cut(s)	403, 832
Eco130I	CCWWGG	1 cut(s)	958
Eco24I	GRGCYC	4 cut(s)	405, 445, 834, 958
Eco31I	GGTCTC	1 cut(s)	796
Eco32I	GATATC	1 cut(s)	767
Eco47I	GGWCC	2 cut(s)	416, 981
Eco53kI	GAGCTC	2 cut(s)	403, 832
Eco57I	CTGAAG	1 cut(s)	705
Eco88I	CYCGRG	1 cut(s)	411
EcoICRI	GAGCTC	2 cut(s)	403, 832
EcoO109I	RGGNCCY	3 cut(s)	416, 441, 442
EcoRII	CCWGG	1 cut(s)	537
EcoRV	GATATC	1 cut(s)	767
EcoT14I	CCWWGG	1 cut(s)	958
EcoT38I	GRGCYC	4 cut(s)	405, 445, 834, 958
ErhI	CCWWGG	1 cut(s)	958
Esp3I	CGTCTC	1 cut(s)	86
FaeI	CATG	6 cut(s)	77, 451, 533, 773, 865, 933
FaqI	GGGAC	2 cut(s)	429, 739
FatI	CATG	6 cut(s)	73, 447, 529, 769, 861, 929
FauNDI	CATATG	2 cut(s)	603, 813
FbaI	TGATCA	1 cut(s)	37
Fnu4HI	GCNGC	4 cut(s)	569, 697, 866, 888
FokI	GGATG	1 cut(s)	554
FriOI	GRGCYC	4 cut(s)	405, 445, 834, 958
Fsp4HI	GCNGC	4 cut(s)	569, 697, 866, 888
FspBI	CTAG	2 cut(s)	99, 836
GlaI	GCGC	1 cut(s)	314
GluI	GCNGC	4 cut(s)	569, 697, 866, 888
HaeIII	GGCC	2 cut(s)	27, 443
HapII	CCGG	1 cut(s)	322
HhaI	GCGC	1 cut(s)	315
Hin1II	CATG	6 cut(s)	77, 451, 533, 773, 865, 933
Hin6I	GCGC	1 cut(s)	313
HinP1I	GCGC	1 cut(s)	313
HincII	GTYRAC	1 cut(s)	900
HindII	GTYRAC	1 cut(s)	900
HinfI	GANTC	4 cut(s)	198, 272, 577, 793
HpaI	GTTAAC	1 cut(s)	900
HpaII	CCGG	1 cut(s)	322
HphI	GGTGA	4 cut(s)	271, 319, 572, 590
Hpy166II	GTNNAC	2 cut(s)	900, 926
Hpy188I	TCNGA	7 cut(s)	64, 157, 492, 706, 743, 909, 951
Hpy188III	TCNNGA	8 cut(s)	327, 348, 398, 756, 770, 782, 797, 938
Hpy8I	GTNNAC	2 cut(s)	900, 926
HpyAV	CCTTC	3 cut(s)	298, 680, 724
HpyCH4III	ACNGT	4 cut(s)	220, 593, 897, 904
HpyCH4V	TGCA	6 cut(s)	268, 383, 506, 662, 817, 847
HpyF10VI	GCNNNNNNNGC	2 cut(s)	874, 953
HpyF3I	CTNAG	3 cut(s)	192, 399, 948
Hsp92II	CATG	6 cut(s)	77, 451, 533, 773, 865, 933
HspAI	GCGC	1 cut(s)	313
Ksp22I	TGATCA	1 cut(s)	37
KspAI	GTTAAC	1 cut(s)	900
Kzo9I	GATC	2 cut(s)	37, 487
LmnI	GCTCC	1 cut(s)	837
Lsp1109I	GCAGC	4 cut(s)	555, 683, 852, 899
LweI	GCATC	1 cut(s)	300
MaeI	CTAG	2 cut(s)	99, 836
MaeIII	GTNAC	4 cut(s)	44, 560, 578, 971
MalI	GATC	2 cut(s)	39, 489
MboI	GATC	2 cut(s)	37, 487
MboII	GAAGA	1 cut(s)	77
MhlI	GDGCHC	4 cut(s)	405, 445, 834, 958
MluCI	AATT	3 cut(s)	17, 129, 678
MlyI	GAGTC	3 cut(s)	266, 586, 802
MnlI	CCTC	7 cut(s)	82, 139, 196, 420, 455, 832, 934
MseI	TTAA	3 cut(s)	105, 177, 899
MslI	CAYNNNNRTG	1 cut(s)	33
MspI	CCGG	1 cut(s)	322
MspR9I	CCNGG	2 cut(s)	322, 539
MvaI	CCWGG	1 cut(s)	539
MvnI	CGCG	1 cut(s)	315
MwoI	GCNNNNNNNGC	2 cut(s)	874, 953
NciI	CCSGG	1 cut(s)	322
NdeI	CATATG	2 cut(s)	603, 813
NdeII	GATC	2 cut(s)	37, 487
NlaIII	CATG	6 cut(s)	77, 451, 533, 773, 865, 933
NlaIV	GGNNCC	3 cut(s)	26, 417, 443
NmuCI	GTSAC	3 cut(s)	44, 578, 971
NspI	RCATGY	1 cut(s)	77
NspV	TTCGAA	1 cut(s)	14
OliI	CACNNNNGTG	1 cut(s)	33
PagI	TCATGA	1 cut(s)	769
PfeI	GAWTC	1 cut(s)	198
PfoI	TCCNGGA	1 cut(s)	537
PkrI	GCNGC	4 cut(s)	570, 698, 867, 889
PleI	GAGTC	3 cut(s)	266, 585, 801
PpsI	GAGTC	3 cut(s)	266, 585, 801
PpuMI	RGGWCCY	1 cut(s)	416
PsiI	TTATAA	1 cut(s)	392
Psp124BI	GAGCTC	2 cut(s)	405, 834
Psp5II	RGGWCCY	1 cut(s)	416
Psp6I	CCWGG	1 cut(s)	537
PspGI	CCWGG	1 cut(s)	537
PspN4I	GGNNCC	3 cut(s)	26, 417, 443
PspOMI	GGGCCC	1 cut(s)	441
PspPI	GGNCC	5 cut(s)	25, 416, 441, 442, 981
PspPPI	RGGWCCY	1 cut(s)	416
RsaI	GTAC	3 cut(s)	336, 357, 408
RsaNI	GTAC	3 cut(s)	335, 356, 407
RseI	CAYNNNNRTG	1 cut(s)	33
SacI	GAGCTC	2 cut(s)	405, 834
SaqAI	TTAA	3 cut(s)	105, 177, 899
SatI	GCNGC	4 cut(s)	569, 697, 866, 888
Sau3AI	GATC	2 cut(s)	37, 487
Sau96I	GGNCC	5 cut(s)	25, 416, 441, 442, 981
SchI	GAGTC	3 cut(s)	266, 586, 802
ScrFI	CCNGG	2 cut(s)	322, 539
SduI	GDGCHC	4 cut(s)	405, 445, 834, 958
SfaNI	GCATC	1 cut(s)	300
SfuI	TTCGAA	1 cut(s)	14
SinI	GGWCC	2 cut(s)	416, 981
SmiMI	CAYNNNNRTG	1 cut(s)	33
SmlI	CTYRAG	3 cut(s)	299, 797, 827
SmoI	CTYRAG	3 cut(s)	299, 797, 827
Sse9I	AATT	3 cut(s)	17, 129, 678
SspMI	CTAG	2 cut(s)	99, 836
SstI	GAGCTC	2 cut(s)	405, 834
StyD4I	CCNGG	2 cut(s)	320, 537
StyI	CCWWGG	1 cut(s)	958
TaaI	ACNGT	4 cut(s)	220, 593, 897, 904
TaqI	TCGA	3 cut(s)	8, 14, 201
TasI	AATT	3 cut(s)	17, 129, 678
TfiI	GAWTC	1 cut(s)	198
Tru1I	TTAA	3 cut(s)	105, 177, 899
Tru9I	TTAA	3 cut(s)	105, 177, 899
TscAI	CASTG	1 cut(s)	849
TseFI	GTSAC	3 cut(s)	44, 578, 971
TseI	GCWGC	4 cut(s)	568, 696, 865, 887
Tsp45I	GTSAC	3 cut(s)	44, 578, 971
TspDTI	ATGAA	2 cut(s)	302, 457
TspRI	CASTG	1 cut(s)	849
VpaK11BI	GGWCC	2 cut(s)	416, 981
XapI	RAATTY	1 cut(s)	17
XceI	RCATGY	1 cut(s)	77
XspI	CTAG	2 cut(s)	99, 836

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