Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0000907

Physical Location & Seq

Genomic Coordinates Reverse (-)

27170480 .. 27173059

Gene Structure 2580 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG258300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGCAGACTAGGTTAAAACGGCATAGATGGCACAAGAAAGTTCTGAAGACTAGTGATCCAATCGTTGTTTCTATTGGGTGGAGACGATACCAAACAATACCAGTTTATGCCATTGAAGATCGCAATGGAAGGCATCGCAGGCTTAAGTACACTCCAGGACATATGCACTGTCTTGCCATGTTTTTGGGCCCTCTTGCCCCTCCCAATACTGGTGTGGTTGCTTTCCAGAATTTATCAAACAATCAGGCAGCATTTAGGATCGCAGCAACTGCTGTTGTGCTCGAGTTCAACCACGCATCAAAGATAGAGAAGAAAGTCAAAATGGTTGGCTATCCCCGCCAGATATTCAATAAGACAGCACTAATAGGAAACATGTTCATGTCCAATCTTGACATAGCTCGCTTTGAAGGTGGTGCTATACAAACTGTCAGTGGTATCCGGGGGCAGGTGAAGAAGGTATTAGAAATTGGTATCCAACAGAAAAAGATGAGAGGAAAACCAGAAGAAGTGCTTGCTAGGTGCACCTTTGAGGACGAAATTACGGGGAATGACATTATTTTCCTTACTGGTTGGACAACACCCTACAACCTCGCGATCAGGTCGATCTGGCAAGGGATGAAAACCACAGCTGAGCTGAGGAGAGAACACAATCTTCCTATTCCTGTTAATGAAGATTCACTTTACAAGCCAATTGAAAGGAAGTGGAGGAAGTTCAACCCATTGGTGATCTCTAAGTCATTGCAAACAGCTCTCCCATTTGTTTCAAAGTTTAAGAACACACCCAGGAGAAGAAGGCCACCTATTGAAAATAGAAGAGCTGTTGTCATGGAGCCTCGTGAACGAAGAGTTCATACTAGTGTTCAACAGCTTGGTTTGATTAGTAGTGACAAGAGAAAGAAGCGCAGGGCTAAGGATGACAAGAAAAGAAGAGAGATTGAACCACGCAAAGCTAAAACCGAGCAGTTGTTGAGAAAGCGCCAGAGAGAAGAACGCCGAGAGAGATTCCAAGTGCATGACAGACTGAGGAAGAAAATTAGGAGAAATGCAGAGGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0000462 GO:0000469 GO:0000478 GO:0000479 GO:0001882 GO:0001883 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003924 GO:0005488 GO:0005525 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0017076 GO:0017111 GO:0019001 GO:0022613 GO:0030490 GO:0030515 GO:0030684 GO:0030686 GO:0031974 GO:0031981 GO:0032549 GO:0032550 GO:0032553 GO:0032555 GO:0032561 GO:0032991 GO:0034470 GO:0034511 GO:0034641 GO:0034660 GO:0035639 GO:0036094 GO:0042254 GO:0042274 GO:0043167 GO:0043168 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0097367 GO:1901265 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

AARP2CN RIBIOP_C

Protein Analysis

351

Amino Acids

41.23

Weight (kDa)

11.09

Isoelectric Point (pI)

63.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RIBIOP_C	PF04950	1 - 192	2.3e-57	40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal

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: OG0000907)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06720 AT1G06720 AT1G06720
fragaria_vesca	FvH4_4g10660
malus_domestica	MD00G1071300.v1.1 MD00G1152200.v1.1 MD03G1154000.v1.1
prunus_persica	Prupe.1G548200_v2.0.a1 Prupe.8G069100_v2.0.a1 Prupe.8G069100_v2.0.a1
pyrus_communis	pycom03g10780 pycom03g10790 pycom07g03680 pycom11g14630 pycom11g14640
rosa_chinensis	RchiOBHm_Chr2g0114561 RchiOBHm_Chr2g0114571 RchiOBHm_Chr4g0406311 RchiOBHm_Chr5g0051051
rosa_laevigata	RLG00000008777 RLG00000018114 RLG00000034749
rosa_multiflora	Rmu_co8051646.1_g000001 Rmu_sc0000370.1_g000003 Rmu_sc0000371.1_g000013 Rmu_sc0000446.1_g000025 Rmu_sc0000898.1_g000055 Rmu_sc0001520.1_g000010 Rmu_sc0003452.1_g000005 Rmu_sc0030223.1_g000001
rosa_roxburghii	Rroxscaffold_1G00029430 Rroxscaffold_2G00130290 Rroxscaffold_3G00239130 Rroxscaffold_3G00239160
rosa_rugosa	Rorug04G0068100 Rorug04G0068200 Rorug04G0068300 Rorug05G0265700 Rorug07G0181200 Rorug07G0181300 Rorug07G0181400 Rorug07G0181500 Rorug07G0181500 Rorug07G0181600 Rorug07G0181800
rosa_samantha	Rh2AG248700 Rh2BG258300 Rh2BG258500 Rh2CG252100 Rh2CG252200 Rh2CG252500 Rh2DG256800 Rh4AG137200 Rh4BG134800 Rh4CG145400 Rh4DG131800 Rh5AG337900 Rh5BG347600 Rh5CG375000 Rh5DG360700
rosa_wichuraiana	Rw0G006840 Rw0G023620 Rw2G019340 Rw4G011120 Rw5G031930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	436
Acc36I	ACCTGC	1 cut(s)	436
AccII	CGCG	1 cut(s)	593
AciI	CCGC	1 cut(s)	337
AclWI	GGATC	2 cut(s)	50, 266
AcsI	RAATTY	1 cut(s)	229
AcuI	CTGAAG	1 cut(s)	65
AfaI	GTAC	1 cut(s)	149
AfiI	CCNNNNNNNGG	2 cut(s)	209, 445
AflII	CTTAAG	1 cut(s)	143
AflIII	ACRYGT	1 cut(s)	372
AhlI	ACTAGT	2 cut(s)	50, 854
AjnI	CCWGG	2 cut(s)	154, 782
AjuI	GAANNNNNNNTTGG	2 cut(s)	52, 84
AluBI	AGCT	7 cut(s)	398, 629, 634, 749, 818, 868, 950
AluI	AGCT	7 cut(s)	398, 629, 634, 749, 818, 868, 950
Alw21I	GWGCWC	2 cut(s)	282, 524
Alw26I	GTCTC	1 cut(s)	76
Alw44I	GTGCAC	1 cut(s)	520
AlwI	GGATC	2 cut(s)	50, 266
AlwNI	CAGNNNCTG	1 cut(s)	269
Ama87I	CYCGRG	1 cut(s)	281
AoxI	GGCC	2 cut(s)	187, 794
ApaI	GGGCCC	1 cut(s)	191
ApaLI	GTGCAC	1 cut(s)	520
ApeKI	GCWGC	2 cut(s)	248, 263
ApoI	RAATTY	1 cut(s)	229
AspLEI	GCGC	2 cut(s)	903, 978
AspS9I	GGNCC	2 cut(s)	187, 188
AsuC2I	CCSGG	1 cut(s)	440
AsuHPI	GGTGA	2 cut(s)	460, 736
AvaI	CYCGRG	1 cut(s)	281
BaeGI	GKGCMC	2 cut(s)	191, 524
BanII	GRGCYC	1 cut(s)	191
BarI	GAAGNNNNNNTAC	2 cut(s)	835, 867
BauI	CACGAG	1 cut(s)	834
BbsI	GAAGAC	1 cut(s)	53
Bbv12I	GWGCWC	2 cut(s)	282, 524
BbvCI	CCTCAGC	1 cut(s)	635
BbvI	GCAGC	2 cut(s)	260, 275
BccI	CCATC	1 cut(s)	21
BceAI	ACGGC	1 cut(s)	35
BciT130I	CCWGG	2 cut(s)	156, 784
BciVI	GTATCC	2 cut(s)	446, 482
BcnI	CCSGG	1 cut(s)	440
BcoDI	GTCTC	1 cut(s)	76
BcuI	ACTAGT	2 cut(s)	50, 854
BfaI	CTAG	4 cut(s)	9, 51, 516, 855
BfoI	RGCGCY	1 cut(s)	979
BfrI	CTTAAG	1 cut(s)	143
BfuAI	ACCTGC	1 cut(s)	436
BfuI	GTATCC	2 cut(s)	446, 482
BisI	GCNGC	2 cut(s)	249, 264
BlpI	GCTNAGC	1 cut(s)	630
BlsI	GCNGC	2 cut(s)	250, 265
Bme1390I	CCNGG	3 cut(s)	156, 440, 784
BmeT110I	CYCGRG	1 cut(s)	281
BmgT120I	GGNCC	2 cut(s)	187, 188
BmiI	GGNNCC	2 cut(s)	189, 831
BmrFI	CCNGG	3 cut(s)	156, 440, 784
BmsI	GCATC	2 cut(s)	142, 305
BpiI	GAAGAC	1 cut(s)	53
BpmI	CTGGAG	1 cut(s)	138
Bpu10I	CCTNAGC	2 cut(s)	635, 909
Bpu1102I	GCTNAGC	1 cut(s)	630
BpuMI	CCSGG	1 cut(s)	440
BsaJI	CCNNGG	2 cut(s)	439, 782
Bsc4I	CCNNNNNNNGG	2 cut(s)	209, 445
Bse1I	ACTGG	3 cut(s)	101, 214, 571
Bse3DI	GCAATG	2 cut(s)	130, 737
BseBI	CCWGG	2 cut(s)	156, 784
BseDI	CCNNGG	2 cut(s)	439, 782
BseGI	GGATG	2 cut(s)	621, 919
BseLI	CCNNNNNNNGG	2 cut(s)	209, 445
BseMI	GCAATG	2 cut(s)	130, 737
BseMII	CTCAG	3 cut(s)	621, 626, 1013
BseNI	ACTGG	3 cut(s)	101, 214, 571
BseRI	GAGGAG	1 cut(s)	652
BseSI	GKGCMC	2 cut(s)	191, 524
BseXI	GCAGC	2 cut(s)	260, 275
Bsh1236I	CGCG	1 cut(s)	593
BshFI	GGCC	2 cut(s)	189, 796
BsiHKAI	GWGCWC	2 cut(s)	282, 524
BsiHKCI	CYCGRG	1 cut(s)	281
BsiSI	CCGG	1 cut(s)	439
BslI	CCNNNNNNNGG	2 cut(s)	209, 445
BsmAI	GTCTC	1 cut(s)	76
BsmBI	CGTCTC	1 cut(s)	76
BsnI	GGCC	2 cut(s)	189, 796
BsoBI	CYCGRG	1 cut(s)	281
Bsp120I	GGGCCC	1 cut(s)	187
Bsp1286I	GDGCHC	3 cut(s)	191, 282, 524
Bsp143I	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
Bsp1720I	GCTNAGC	1 cut(s)	630
Bsp68I	TCGCGA	1 cut(s)	593
BspACI	CCGC	1 cut(s)	337
BspANI	GGCC	2 cut(s)	189, 796
BspCNI	CTCAG	3 cut(s)	622, 627, 1014
BspFNI	CGCG	1 cut(s)	593
BspLI	GGNNCC	2 cut(s)	189, 831
BspMI	ACCTGC	1 cut(s)	436
BspPI	GGATC	2 cut(s)	50, 266
BspQI	GCTCTTC	1 cut(s)	808
BspTI	CTTAAG	1 cut(s)	143
BsrDI	GCAATG	2 cut(s)	130, 737
BsrI	ACTGG	3 cut(s)	101, 214, 571
BssECI	CCNNGG	2 cut(s)	439, 782
BssMI	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
BssSI	CACGAG	1 cut(s)	834
Bst2BI	CACGAG	1 cut(s)	834
Bst2UI	CCWGG	2 cut(s)	156, 784
Bst4CI	ACNGT	2 cut(s)	170, 427
Bst6I	CTCTTC	3 cut(s)	808, 838, 922
BstAFI	CTTAAG	1 cut(s)	143
BstAPI	GCANNNNNTGC	1 cut(s)	269
BstC8I	GCNNGC	3 cut(s)	140, 400, 513
BstDEI	CTNAG	5 cut(s)	630, 635, 732, 909, 1022
BstF5I	GGATG	2 cut(s)	621, 919
BstFNI	CGCG	1 cut(s)	593
BstH2I	RGCGCY	1 cut(s)	979
BstHHI	GCGC	2 cut(s)	903, 978
BstKTI	GATC	6 cut(s)	58, 121, 261, 597, 606, 729
BstMAI	GTCTC	1 cut(s)	76
BstMBI	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
BstMWI	GCNNNNNNNGC	4 cut(s)	28, 139, 269, 336
BstNI	CCWGG	2 cut(s)	156, 784
BstNSI	RCATGY	1 cut(s)	376
BstSCI	CCNGG	3 cut(s)	154, 438, 782
BstSLI	GKGCMC	2 cut(s)	191, 524
BstUI	CGCG	1 cut(s)	593
BstV1I	GCAGC	2 cut(s)	260, 275
BstV2I	GAAGAC	1 cut(s)	53
BstXI	CCANNNNNNTGG	1 cut(s)	184
BsuI	GTATCC	2 cut(s)	446, 482
BsuRI	GGCC	2 cut(s)	189, 796
BtgZI	GCGATG	1 cut(s)	119
BtsCI	GGATG	2 cut(s)	621, 919
BtsIMutI	CAGTG	2 cut(s)	166, 436
BtuMI	TCGCGA	1 cut(s)	593
BveI	ACCTGC	1 cut(s)	436
Cac8I	GCNNGC	3 cut(s)	140, 400, 513
CaiI	CAGNNNCTG	1 cut(s)	269
CfoI	GCGC	2 cut(s)	903, 978
Cfr13I	GGNCC	2 cut(s)	187, 188
Csp6I	GTAC	1 cut(s)	148
CviAII	CATG	5 cut(s)	178, 373, 379, 826, 1013
CviQI	GTAC	1 cut(s)	148
DdeI	CTNAG	5 cut(s)	630, 635, 732, 909, 1022
DpnI	GATC	6 cut(s)	57, 120, 260, 596, 605, 728
DpnII	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
Eam1104I	CTCTTC	3 cut(s)	808, 838, 922
EarI	CTCTTC	3 cut(s)	808, 838, 922
Eco24I	GRGCYC	1 cut(s)	191
Eco57I	CTGAAG	1 cut(s)	65
Eco88I	CYCGRG	1 cut(s)	281
EcoO109I	RGGNCCY	1 cut(s)	188
EcoRII	CCWGG	2 cut(s)	154, 782
EcoT38I	GRGCYC	1 cut(s)	191
Esp3I	CGTCTC	1 cut(s)	76
FaeI	CATG	5 cut(s)	181, 376, 382, 829, 1016
FalI	AAGNNNNNCTT	4 cut(s)	495, 527, 663, 695
FatI	CATG	5 cut(s)	177, 372, 378, 825, 1012
FauI	CCCGC	1 cut(s)	344
FauNDI	CATATG	1 cut(s)	162
Fnu4HI	GCNGC	2 cut(s)	249, 264
FokI	GGATG	2 cut(s)	628, 926
FriOI	GRGCYC	1 cut(s)	191
Fsp4HI	GCNGC	2 cut(s)	249, 264
FspBI	CTAG	4 cut(s)	9, 51, 516, 855
GlaI	GCGC	2 cut(s)	902, 977
GluI	GCNGC	2 cut(s)	249, 264
GsuI	CTGGAG	1 cut(s)	138
HaeII	RGCGCY	1 cut(s)	979
HaeIII	GGCC	2 cut(s)	189, 796
HapII	CCGG	1 cut(s)	439
HhaI	GCGC	2 cut(s)	903, 978
Hin1II	CATG	5 cut(s)	181, 376, 382, 829, 1016
Hin6I	GCGC	2 cut(s)	901, 976
HinP1I	GCGC	2 cut(s)	901, 976
HinfI	GANTC	2 cut(s)	674, 1002
HpaII	CCGG	1 cut(s)	439
HphI	GGTGA	2 cut(s)	460, 736
Hpy166II	GTNNAC	3 cut(s)	150, 522, 839
Hpy188I	TCNGA	1 cut(s)	45
Hpy188III	TCNNGA	4 cut(s)	226, 389, 592, 836
Hpy8I	GTNNAC	3 cut(s)	150, 522, 839
HpyAV	CCTTC	4 cut(s)	123, 401, 448, 786
HpyCH4III	ACNGT	2 cut(s)	170, 427
HpyCH4V	TGCA	6 cut(s)	4, 166, 522, 742, 1012, 1046
HpyF10VI	GCNNNNNNNGC	4 cut(s)	28, 139, 269, 336
HpyF3I	CTNAG	5 cut(s)	630, 635, 732, 909, 1022
Hsp92II	CATG	5 cut(s)	181, 376, 382, 829, 1016
HspAI	GCGC	2 cut(s)	901, 976
Kzo9I	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
LguI	GCTCTTC	1 cut(s)	808
LmnI	GCTCC	1 cut(s)	829
Lsp1109I	GCAGC	2 cut(s)	260, 275
LweI	GCATC	2 cut(s)	142, 305
MaeI	CTAG	4 cut(s)	9, 51, 516, 855
MaeIII	GTNAC	1 cut(s)	884
MalI	GATC	6 cut(s)	57, 120, 260, 596, 605, 728
MboI	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
MfeI	CAATTG	1 cut(s)	690
MhlI	GDGCHC	3 cut(s)	191, 282, 524
MluCI	AATT	5 cut(s)	229, 465, 537, 690, 1032
MmeI	TCCRAC	2 cut(s)	499, 551
MseI	TTAA	4 cut(s)	14, 144, 666, 771
MslI	CAYNNNNRTG	2 cut(s)	377, 855
MspA1I	CMGCKG	1 cut(s)	629
MspCI	CTTAAG	1 cut(s)	143
MspI	CCGG	1 cut(s)	439
MspR9I	CCNGG	3 cut(s)	156, 440, 784
MunI	CAATTG	1 cut(s)	690
MvaI	CCWGG	2 cut(s)	156, 784
MvnI	CGCG	1 cut(s)	593
MwoI	GCNNNNNNNGC	4 cut(s)	28, 139, 269, 336
NciI	CCSGG	1 cut(s)	440
NdeI	CATATG	1 cut(s)	162
NdeII	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
NlaIII	CATG	5 cut(s)	181, 376, 382, 829, 1016
NlaIV	GGNNCC	2 cut(s)	189, 831
NmeAIII	GCCGAG	1 cut(s)	1019
NmuCI	GTSAC	1 cut(s)	884
NruI	TCGCGA	1 cut(s)	593
NspI	RCATGY	1 cut(s)	376
PaeR7I	CTCGAG	1 cut(s)	281
PaqCI	CACCTGC	1 cut(s)	436
PciI	ACATGT	1 cut(s)	372
PciSI	GCTCTTC	1 cut(s)	808
PfeI	GAWTC	2 cut(s)	674, 1002
PfoI	TCCNGGA	1 cut(s)	154
PkrI	GCNGC	2 cut(s)	250, 265
PscI	ACATGT	1 cut(s)	372
Psp6I	CCWGG	2 cut(s)	154, 782
PspGI	CCWGG	2 cut(s)	154, 782
PspN4I	GGNNCC	2 cut(s)	189, 831
PspOMI	GGGCCC	1 cut(s)	187
PspPI	GGNCC	2 cut(s)	187, 188
PspXI	VCTCGAGB	1 cut(s)	281
PstNI	CAGNNNCTG	1 cut(s)	269
PvuII	CAGCTG	1 cut(s)	629
RruI	TCGCGA	1 cut(s)	593
RsaI	GTAC	1 cut(s)	149
RsaNI	GTAC	1 cut(s)	148
RseI	CAYNNNNRTG	2 cut(s)	377, 855
SapI	GCTCTTC	1 cut(s)	808
SaqAI	TTAA	4 cut(s)	14, 144, 666, 771
SatI	GCNGC	2 cut(s)	249, 264
Sau3AI	GATC	6 cut(s)	55, 118, 258, 594, 603, 726
Sau96I	GGNCC	2 cut(s)	187, 188
ScrFI	CCNGG	3 cut(s)	156, 440, 784
SduI	GDGCHC	3 cut(s)	191, 282, 524
SfaNI	GCATC	2 cut(s)	142, 305
Sfr274I	CTCGAG	1 cut(s)	281
SlaI	CTCGAG	1 cut(s)	281
SmiMI	CAYNNNNRTG	2 cut(s)	377, 855
SmlI	CTYRAG	2 cut(s)	143, 281
SmoI	CTYRAG	2 cut(s)	143, 281
SpeI	ACTAGT	2 cut(s)	50, 854
Sse9I	AATT	5 cut(s)	229, 465, 537, 690, 1032
SsiI	CCGC	1 cut(s)	337
SspMI	CTAG	4 cut(s)	9, 51, 516, 855
StyD4I	CCNGG	3 cut(s)	154, 438, 782
TaaI	ACNGT	2 cut(s)	170, 427
TaqI	TCGA	2 cut(s)	282, 602
TasI	AATT	5 cut(s)	229, 465, 537, 690, 1032
TatI	WGTACW	1 cut(s)	147
TfiI	GAWTC	2 cut(s)	674, 1002
Tru1I	TTAA	4 cut(s)	14, 144, 666, 771
Tru9I	TTAA	4 cut(s)	14, 144, 666, 771
TscAI	CASTG	2 cut(s)	173, 436
TseFI	GTSAC	1 cut(s)	884
TseI	GCWGC	2 cut(s)	248, 263
Tsp45I	GTSAC	1 cut(s)	884
TspDTI	ATGAA	4 cut(s)	367, 632, 684, 839
TspRI	CASTG	2 cut(s)	173, 436
Vha464I	CTTAAG	1 cut(s)	143
VneI	GTGCAC	1 cut(s)	520
XapI	RAATTY	1 cut(s)	229
XceI	RCATGY	1 cut(s)	376
XcmI	CCANNNNNNNNNTGG	1 cut(s)	211
XhoI	CTCGAG	1 cut(s)	281
XspI	CTAG	4 cut(s)	9, 51, 516, 855

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