Rh4BG349900

Required for 40S ribosome biogenesis. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0000145
Physical Location & Seq
Reverse (-)
51155146 .. 51161148
6003 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG349900.1

Sequence Viewer

Length: 978 bp
ATGGAGAACGACGAAAACGGCGCCGCCGTTCAGAGGAAGCCGAAGGTGAAGGGCAAGCACGATAAGCCTAAGCCTTGGGACGATGACCCCAACATCGACCGCTGGAAGATAGAGAAGTTTGATCCTTCCTGGAACGAAAGCGGCATGCTTGACGTCACCACTTTCTCTACCCTATTCCCTCGTTACAGAGAAAAATATTTGCAAGACGCATGGCCGTCTGTGAAATCTGCTTTGAAAGAGTATGGCATTACATGCGAGTTGAATCTGGTTGAGGGTTCCATGACAGTGTCCACAACCAGAAAGACTAGAGATCCCTATATTATCGTCAAAGCTAGGGATCTTATCAAACTTTTGTCCAGAAGTGTTCCTGCTCCTCAGGCAATAAAAGTGCTGAATGATGAAATGCAATGTGACATAATCAAGATTAGCAACTTGGTGAGAAGTAAGGAAAAATTTATAAAACGAAGGCAACGTCTTATTGGCCCCAATTCCTCCAGTTTAAAGGCCCTGGAAATACTGACAGGCTGTTATATTCTGATACAAGGAAACACTGTTGCTTCAATGGGTTCATTTAAAGGATTAAAGACAGTTAGGAGGATTGTGGAAGACTGCATTGAGAATAAAATGCATCCGATATTTCATATCAAGATTCTCATGGTGAGGAAAGAACTTGAAAAGGATCCAACACTTGCACAGGAGAACTGGGACAGATTTCTTCCAAAGTTCATGAAGAAAAATGTTAATCAACCCAAACCTAAGCAAAGTAAAAAGAAGAAGCCAGAATATACACCCATACCACCTCCTCAACCACCAAGCAAGGTTGACATACAATTGGCAACTGGAGAATACTTTCTGAGTGACAAAGTAAAATCGGAAAAGAAGTGGAAAGAGCAGCAGGAGAGACAAGCTGGAAAAACAGCAGAAAATAAGCGAAAAAGAGAAGCTGCTTTTGTTCCTCCAGAGGTAGAGGAGTCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

325

Amino Acids

37.55

Weight (kDa)

9.61

Isoelectric Point (pI)

43.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KH_KRR1_1st PF17903 54 - 133 1.7e-31 Krr1 KH1 domain
KH_KRR1_2nd PF21800 135 - 226 4.5e-41 KRR1 small subunit processome component, second KH domain
KH_PNO1_2nd PF22891 138 - 210 3.1e-07 Eukaryotic type KH-domain (KH-domain type I)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000145)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G08420
fragaria_vesca FvH4_1g11160 FvH4_2g08143 FvH4_3g36450 FvH4_3g36450 FvH4_3g36450 FvH4_3g36450 FvH4_3g36460 FvH4_3g36460 FvH4_3g45301 FvH4_4g27690 FvH4_4g27690 FvH4_4g27690 FvH4_4g27690 FvH4_5g09160 FvH4_5g09161 FvH4_5g09380 FvH4_5g22900 FvH4_6g42520 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550
malus_domestica MD02G1015700.v1.1 MD02G1058900.v1.1 MD02G1059000.v1.1 MD03G1170900.v1.1 MD04G1231500.v1.1 MD13G1044300.v1.1 MD16G1045100.v1.1
prunus_persica Prupe.1G308200_v2.0.a1 Prupe.2G125300_v2.0.a1 Prupe.6G307800_v2.0.a1 Prupe.6G351700_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1
pyrus_communis pycom02g01420 pycom02g04810 pycom03g12790 pycom03g12800 pycom12g17840 pycom12g17850 pycom12g17860 pycom13g03890 pycom16g03970
rosa_chinensis RchiOBHm_Chr2g0090081 RchiOBHm_Chr3g0469061 RchiOBHm_Chr3g0469081 RchiOBHm_Chr4g0435531 RchiOBHm_Chr5g0014021 RchiOBHm_Chr5g0014031 RchiOBHm_Chr5g0014041 RchiOBHm_Chr7g0190151 RchiOBHm_Chr7g0190161 RchiOBHm_Chr7g0190171 RchiOBHm_Chr7g0210441
rosa_laevigata RLG00000003683 RLG00000003687 RLG00000003688 RLG00000004561 RLG00000004643 RLG00000016083 RLG00000021085 RLG00000024381 RLG00000032065 RLG00000032067 RLG00000032071 RLG00000032072 RLG00000032075
rosa_multiflora Rmu_co8284349.1_g000001 Rmu_co8324735.1_g000001 Rmu_co8355915.1_g000001 Rmu_co8388905.1_g000001 Rmu_sc0000302.1_g000041 Rmu_sc0000302.1_g000050 Rmu_sc0001940.1_g000034 Rmu_sc0003807.1_g000011 Rmu_sc0005803.1_g000001 Rmu_sc0005803.1_g000007 Rmu_sc0007139.1_g000007 Rmu_sc0007767.1_g000001 Rmu_sc0007767.1_g000003 Rmu_sc0007767.1_g000006 Rmu_sc0007933.1_g000005 Rmu_sc0008587.1_g000004 Rmu_sc0008968.1_g000004 Rmu_sc0018491.1_g000002 Rmu_sc0022420.1_g000001 Rmu_sc0027700.1_g000001 Rmu_sc0036218.1_g000001
rosa_roxburghii Rroxscaffold_1G00062590 Rroxscaffold_1G00062600 Rroxscaffold_1G00062620 Rroxscaffold_1G00062630 Rroxscaffold_1G00062640 Rroxscaffold_1G00062670 Rroxscaffold_1G00062680 Rroxscaffold_2G00091430 Rroxscaffold_2G00151410 Rroxscaffold_3G00245340 Rroxscaffold_3G00255390 Rroxscaffold_3G00264820 Rroxscaffold_3G00264830 Rroxscaffold_3G00265870 Rroxscaffold_5G00355140 Rroxscaffold_5G00376760 Rroxscaffold_6G00412230
rosa_rugosa Rorug02G0005200 Rorug02G0468300 Rorug02G0468300 Rorug02G0532400 Rorug03G0098900 Rorug03G0099000 Rorug03G0099400 Rorug04G0286000 Rorug05G0014400 Rorug05G0014500 Rorug05G0014600 Rorug05G0014600 Rorug05G0014600 Rorug05G0014800 Rorug05G0014900 Rorug05G0015000 Rorug05G0015100 Rorug05G0015100 Rorug05G0441300 Rorug06G0495300 Rorug06G0502600 Rorug06G0502700 Rorug07G0062300
rosa_samantha Rh2AG050900 Rh2BG049600 Rh2CG051800 Rh2CG234600 Rh2DG051100 Rh3BG171300 Rh3BG171800 Rh3CG336700 Rh3DG203600 Rh3DG203800 Rh4AG341600 Rh4AG341700 Rh4BG349900 Rh4CG364600 Rh4DG344200 Rh5AG108800 Rh5AG108900 Rh5AG109000 Rh5AG109100 Rh5BG105500 Rh5CG117300 Rh5CG117500 Rh5CG117600 Rh5DG104200 Rh5DG104400 Rh5DG104500 Rh5DG104600 Rh7BG102300 Rh7BG110600 Rh7BG110700 Rh7BG118900 Rh7CG103600 Rh7CG112800 Rh7CG113000 Rh7CG200300 Rh7CG271100 Rh7DG111300 Rh7DG111400 Rh7DG194400 Rh7DG261800 Rh7DG261900
rosa_wichuraiana Rw0G014550 Rw0G014580 Rw2G004580 Rw3G013980 Rw3G013990 Rw3G014000 Rw3G014020 Rw4G029810 Rw5G009500 Rw5G009510 Rw5G009520 Rw5G009530 Rw7G008640 Rw7G009350 Rw7G021680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 458
AatII GACGTC 1 cut(s) 156
AccB1I GGYRCC 1 cut(s) 20
AciI CCGC 3 cut(s) 24, 100, 141
AclWI GGATC 5 cut(s) 116, 305, 345, 674, 687
AcoI YGGCCR 1 cut(s) 212
AcsI RAATTY 1 cut(s) 452
AcyI GRCGYC 2 cut(s) 21, 153
AfiI CCNNNNNNNGG 1 cut(s) 33
AgsI TTSAA 4 cut(s) 235, 262, 561, 674
AjnI CCWGG 2 cut(s) 128, 507
AluBI AGCT 3 cut(s) 332, 908, 944
AluI AGCT 3 cut(s) 332, 908, 944
Alw26I GTCTC 1 cut(s) 895
AlwI GGATC 5 cut(s) 116, 305, 345, 674, 687
AoxI GGCC 3 cut(s) 212, 481, 504
ApeKI GCWGC 2 cut(s) 892, 944
ApoI RAATTY 1 cut(s) 452
ArsI GACNNNNNNTTYG 2 cut(s) 457, 489
Asp700I GAANNNNTTC 1 cut(s) 849
AspLEI GCGC 1 cut(s) 23
AspS9I GGNCC 2 cut(s) 482, 505
AsuHPI GGTGA 4 cut(s) 58, 148, 448, 670
AxyI CCTNAGG 1 cut(s) 375
BamHI GGATCC 1 cut(s) 679
BanI GGYRCC 1 cut(s) 20
BbsI GAAGAC 1 cut(s) 612
BbvI GCAGC 2 cut(s) 904, 931
BceAI ACGGC 3 cut(s) 11, 34, 199
BciT130I CCWGG 2 cut(s) 130, 509
BcoDI GTCTC 1 cut(s) 895
BfaI CTAG 2 cut(s) 306, 333
BfoI RGCGCY 1 cut(s) 24
BisI GCNGC 4 cut(s) 24, 142, 893, 945
BlsI GCNGC 4 cut(s) 25, 143, 894, 946
Bme1390I CCNGG 2 cut(s) 130, 509
BmgT120I GGNCC 2 cut(s) 482, 505
BmiI GGNNCC 4 cut(s) 22, 277, 484, 681
BmrFI CCNGG 2 cut(s) 130, 509
BmrI ACTGGG 1 cut(s) 712
BmsI GCATC 1 cut(s) 637
BmuI ACTGGG 1 cut(s) 712
BpiI GAAGAC 1 cut(s) 612
BpmI CTGGAG 3 cut(s) 478, 861, 942
Bpu10I CCTNAGC 2 cut(s) 69, 756
BsaHI GRCGYC 2 cut(s) 21, 153
BsaJI CCNNGG 2 cut(s) 74, 507
Bsc4I CCNNNNNNNGG 1 cut(s) 33
Bse1I ACTGG 3 cut(s) 495, 707, 844
Bse21I CCTNAGG 1 cut(s) 375
Bse3DI GCAATG 1 cut(s) 413
BseBI CCWGG 2 cut(s) 130, 509
BseDI CCNNGG 2 cut(s) 74, 507
BseGI GGATG 1 cut(s) 628
BseLI CCNNNNNNNGG 1 cut(s) 33
BseMI GCAATG 1 cut(s) 413
BseMII CTCAG 2 cut(s) 389, 845
BseNI ACTGG 3 cut(s) 495, 707, 844
BseRI GAGGAG 2 cut(s) 363, 792
BseXI GCAGC 2 cut(s) 904, 931
Bsh1285I CGRYCG 1 cut(s) 100
BshFI GGCC 3 cut(s) 214, 483, 506
BshNI GGYRCC 1 cut(s) 20
BsiEI CGRYCG 1 cut(s) 100
BslFI GGGAC 2 cut(s) 92, 719
BslI CCNNNNNNNGG 1 cut(s) 33
BsmAI GTCTC 1 cut(s) 895
BsmFI GGGAC 2 cut(s) 92, 719
BsnI GGCC 3 cut(s) 214, 483, 506
Bsp143I GATC 4 cut(s) 121, 310, 337, 679
BspACI CCGC 3 cut(s) 24, 100, 141
BspANI GGCC 3 cut(s) 214, 483, 506
BspCNI CTCAG 2 cut(s) 388, 846
BspHI TCATGA 1 cut(s) 726
BspLI GGNNCC 4 cut(s) 22, 277, 484, 681
BspPI GGATC 5 cut(s) 116, 305, 345, 674, 687
BspT107I GGYRCC 1 cut(s) 20
BsrDI GCAATG 1 cut(s) 413
BsrI ACTGG 3 cut(s) 495, 707, 844
BssECI CCNNGG 2 cut(s) 74, 507
BssMI GATC 4 cut(s) 121, 310, 337, 679
BssNI GRCGYC 2 cut(s) 21, 153
BssT1I CCWWGG 1 cut(s) 74
Bst2UI CCWGG 2 cut(s) 130, 509
Bst4CI ACNGT 3 cut(s) 286, 553, 589
BstACI GRCGYC 2 cut(s) 21, 153
BstAPI GCANNNNNTGC 1 cut(s) 252
BstC8I GCNNGC 2 cut(s) 56, 146
BstDEI CTNAG 4 cut(s) 69, 375, 756, 854
BstF5I GGATG 1 cut(s) 628
BstH2I RGCGCY 1 cut(s) 24
BstHHI GCGC 1 cut(s) 23
BstKTI GATC 4 cut(s) 124, 313, 340, 682
BstMAI GTCTC 1 cut(s) 895
BstMBI GATC 4 cut(s) 121, 310, 337, 679
BstMCI CGRYCG 1 cut(s) 100
BstMWI GCNNNNNNNGC 3 cut(s) 64, 252, 377
BstNI CCWGG 2 cut(s) 130, 509
BstNSI RCATGY 2 cut(s) 148, 255
BstSCI CCNGG 2 cut(s) 128, 507
BstV1I GCAGC 2 cut(s) 904, 931
BstV2I GAAGAC 1 cut(s) 612
BstX2I RGATCY 3 cut(s) 310, 337, 679
BstYI RGATCY 3 cut(s) 310, 337, 679
Bsu36I CCTNAGG 1 cut(s) 375
BsuRI GGCC 3 cut(s) 214, 483, 506
BtsCI GGATG 1 cut(s) 628
BtsIMutI CAGTG 2 cut(s) 291, 549
Cac8I GCNNGC 2 cut(s) 56, 146
CciI TCATGA 1 cut(s) 726
CfoI GCGC 1 cut(s) 23
Cfr13I GGNCC 2 cut(s) 482, 505
CseI GACGC 1 cut(s) 215
CviAII CATG 6 cut(s) 145, 210, 252, 280, 655, 727
DdeI CTNAG 4 cut(s) 69, 375, 756, 854
DinI GGCGCC 1 cut(s) 22
DpnI GATC 4 cut(s) 123, 312, 339, 681
DpnII GATC 4 cut(s) 121, 310, 337, 679
DraI TTTAAA 2 cut(s) 501, 574
EaeI YGGCCR 1 cut(s) 212
Eco130I CCWWGG 1 cut(s) 74
Eco81I CCTNAGG 1 cut(s) 375
EcoO109I RGGNCCY 1 cut(s) 505
EcoRII CCWGG 2 cut(s) 128, 507
EcoT14I CCWWGG 1 cut(s) 74
EcoT22I ATGCAT 1 cut(s) 630
EgeI GGCGCC 1 cut(s) 22
EheI GGCGCC 1 cut(s) 22
ErhI CCWWGG 1 cut(s) 74
FaeI CATG 6 cut(s) 148, 213, 255, 283, 658, 730
FaqI GGGAC 2 cut(s) 92, 719
FatI CATG 6 cut(s) 144, 209, 251, 279, 654, 726
Fnu4HI GCNGC 4 cut(s) 24, 142, 893, 945
FokI GGATG 1 cut(s) 615
Fsp4HI GCNGC 4 cut(s) 24, 142, 893, 945
FspBI CTAG 2 cut(s) 306, 333
GlaI GCGC 1 cut(s) 22
GluI GCNGC 4 cut(s) 24, 142, 893, 945
GsuI CTGGAG 3 cut(s) 478, 861, 942
HaeII RGCGCY 1 cut(s) 24
HaeIII GGCC 3 cut(s) 214, 483, 506
HgaI GACGC 1 cut(s) 215
HhaI GCGC 1 cut(s) 23
Hin1I GRCGYC 2 cut(s) 21, 153
Hin1II CATG 6 cut(s) 148, 213, 255, 283, 658, 730
Hin6I GCGC 1 cut(s) 21
HinP1I GCGC 1 cut(s) 21
HincII GTYRAC 1 cut(s) 823
HindII GTYRAC 1 cut(s) 823
HinfI GANTC 3 cut(s) 262, 649, 971
HphI GGTGA 4 cut(s) 58, 148, 448, 670
Hpy166II GTNNAC 2 cut(s) 291, 823
Hpy188I TCNGA 5 cut(s) 33, 537, 633, 855, 874
Hpy188III TCNNGA 5 cut(s) 357, 421, 646, 727, 959
Hpy8I GTNNAC 2 cut(s) 291, 823
Hpy99I CGWCG 1 cut(s) 14
HpyAV CCTTC 4 cut(s) 37, 43, 135, 459
HpyCH4III ACNGT 3 cut(s) 286, 553, 589
HpyCH4IV ACGT 2 cut(s) 153, 472
HpyCH4V TGCA 5 cut(s) 202, 406, 612, 628, 692
HpyF10VI GCNNNNNNNGC 3 cut(s) 64, 252, 377
HpyF3I CTNAG 4 cut(s) 69, 375, 756, 854
HpySE526I ACGT 2 cut(s) 153, 472
Hsp92I GRCGYC 2 cut(s) 21, 153
Hsp92II CATG 6 cut(s) 148, 213, 255, 283, 658, 730
HspAI GCGC 1 cut(s) 21
KasI GGCGCC 1 cut(s) 20
Kzo9I GATC 4 cut(s) 121, 310, 337, 679
LmnI GCTCC 1 cut(s) 376
Lsp1109I GCAGC 2 cut(s) 904, 931
LweI GCATC 1 cut(s) 637
MaeI CTAG 2 cut(s) 306, 333
MaeII ACGT 2 cut(s) 153, 472
MaeIII GTNAC 4 cut(s) 154, 182, 410, 857
MalI GATC 4 cut(s) 123, 312, 339, 681
MboI GATC 4 cut(s) 121, 310, 337, 679
MboII GAAGA 5 cut(s) 118, 617, 707, 742, 784
MfeI CAATTG 1 cut(s) 830
MflI RGATCY 3 cut(s) 310, 337, 679
MluCI AATT 3 cut(s) 452, 487, 830
Mly113I GGCGCC 1 cut(s) 21
MmeI TCCRAC 1 cut(s) 707
Mph1103I ATGCAT 1 cut(s) 630
MroXI GAANNNNTTC 1 cut(s) 849
MseI TTAA 4 cut(s) 500, 573, 581, 741
MslI CAYNNNNRTG 1 cut(s) 284
MspA1I CMGCKG 1 cut(s) 102
MspR9I CCNGG 2 cut(s) 130, 509
MunI CAATTG 1 cut(s) 830
MvaI CCWGG 2 cut(s) 130, 509
MwoI GCNNNNNNNGC 3 cut(s) 64, 252, 377
NarI GGCGCC 1 cut(s) 21
NdeII GATC 4 cut(s) 121, 310, 337, 679
NlaIII CATG 6 cut(s) 148, 213, 255, 283, 658, 730
NlaIV GGNNCC 4 cut(s) 22, 277, 484, 681
NmuCI GTSAC 3 cut(s) 154, 410, 857
NsiI ATGCAT 1 cut(s) 630
NspI RCATGY 2 cut(s) 148, 255
PaeI GCATGC 1 cut(s) 148
PagI TCATGA 1 cut(s) 726
PcsI WCGNNNNNNNCGW 2 cut(s) 24, 469
PdmI GAANNNNTTC 1 cut(s) 849
PfeI GAWTC 2 cut(s) 262, 649
PflFI GACNNNGTC 1 cut(s) 286
PfoI TCCNGGA 1 cut(s) 128
PkrI GCNGC 4 cut(s) 25, 143, 894, 946
PluTI GGCGCC 1 cut(s) 24
PsiI TTATAA 1 cut(s) 458
Psp6I CCWGG 2 cut(s) 128, 507
PspGI CCWGG 2 cut(s) 128, 507
PspN4I GGNNCC 4 cut(s) 22, 277, 484, 681
PspPI GGNCC 2 cut(s) 482, 505
PsuI RGATCY 3 cut(s) 310, 337, 679
PsyI GACNNNGTC 1 cut(s) 286
RseI CAYNNNNRTG 1 cut(s) 284
SaqAI TTAA 4 cut(s) 500, 573, 581, 741
SatI GCNGC 4 cut(s) 24, 142, 893, 945
Sau3AI GATC 4 cut(s) 121, 310, 337, 679
Sau96I GGNCC 2 cut(s) 482, 505
ScrFI CCNGG 2 cut(s) 130, 509
SfaNI GCATC 1 cut(s) 637
SfoI GGCGCC 1 cut(s) 22
SmiMI CAYNNNNRTG 1 cut(s) 284
SphI GCATGC 1 cut(s) 148
Sse9I AATT 3 cut(s) 452, 487, 830
SsiI CCGC 3 cut(s) 24, 100, 141
SspDI GGCGCC 1 cut(s) 20
SspI AATATT 1 cut(s) 197
SspMI CTAG 2 cut(s) 306, 333
StyD4I CCNGG 2 cut(s) 128, 507
StyI CCWWGG 1 cut(s) 74
TaaI ACNGT 3 cut(s) 286, 553, 589
TaiI ACGT 2 cut(s) 156, 475
TaqI TCGA 1 cut(s) 96
TasI AATT 3 cut(s) 452, 487, 830
TauI GCSGC 2 cut(s) 26, 144
TfiI GAWTC 2 cut(s) 262, 649
Tru1I TTAA 4 cut(s) 500, 573, 581, 741
Tru9I TTAA 4 cut(s) 500, 573, 581, 741
TscAI CASTG 2 cut(s) 291, 556
TseFI GTSAC 3 cut(s) 154, 410, 857
TseI GCWGC 2 cut(s) 892, 944
Tsp45I GTSAC 3 cut(s) 154, 410, 857
TspDTI ATGAA 5 cut(s) 414, 558, 629, 715, 743
TspRI CASTG 2 cut(s) 291, 556
Tth111I GACNNNGTC 1 cut(s) 286
XapI RAATTY 1 cut(s) 452
XceI RCATGY 2 cut(s) 148, 255
XmnI GAANNNNTTC 1 cut(s) 849
XspI CTAG 2 cut(s) 306, 333
ZraI GACGTC 1 cut(s) 154
Zsp2I ATGCAT 1 cut(s) 630
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.