pycom04g02840

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr4
OG0012458
Physical Location & Seq
Forward (+)
2602555 .. 2606223
3669 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 978 bp
ATGGGGCAAAATTTGAATTTTCGAAATAAAGCGAGGGCATGGTGCGGAAAGTGTCAACAAGCAGCTGCAAAAATGGGGAGCGGGAAAGCAAAGAAGCCATCGAAGCTGTCTCACAGAAACCCTAAGAACAAGGGCAGGCCGCTCGGCCCTAAGACGAAGAAGACGAAGGCCCACTCCCACACCAAGGACAAGAAGAAGAAGGAGAAGAAGCAACGGCTCAGCAATGGCGGCGGCAATGGAAGCCCAATTGACGAGAAAGCGAGCAATCAAAGCAGCCAAAACGACAGCGGTTTAAGCGACGGTGCTGAGGTACAACCGGCATCGGCGTCCGCGCAGCTCAGCTTCTTCCTGGACAAGTTTCAGTCCGCCAATGGCGTTCAGCTTTCCTCTCTCGAGTTGGAGTCCTTCAATGATAAGTGTATTCTGGATCTGTCTGAAAGCTTGGATCAAGATGTCAGCAGCTTGTTGAAACATGTGAAGGAAGCTTTTGGTCCATCATGGAAACAAGAACTTTGTGGAAAGGATCTTGTGGATGGGAAAATTGATCCGGGGAGTCCAGCAGTTCTTATTATTAGTACTTCTGCGTTGAGAGCGATAGAACTTCTTAGGGGCTTCCGGTTGTTGACCAATGAATGTCGTGCAGCAAAGCTGTTCTCTAAGCATATGAAGGTTGAAGAACAGGTATCCTTGTTAAAAAACCGCGTCAATATCGCTAGTGGTACACCAAACAGGATAAAGAAGCTAATTGACATTGAGGCATTGGGGCTTTCACGGCTGTCGGTGATTGTACTTGACATGCACCCAGATGTTAAGGGCTATTCCCTGACTACGCTTCCACAAGTCAGAGATGAATTCTGGGACTTGTACAAGAACTACTTTCACGATCGACTACAACAAGGTTCCTTGCATCTCGGTCTCTATGGTCCGTTAACATCTGGGAAAGAGCTTAAGGGGAAAAAGAGGGGCCCGACTGAATAA
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
CMS1

Protein Analysis

326

Amino Acids

35.75

Weight (kDa)

9.74

Isoelectric Point (pI)

33.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 53 - 289 1.4e-28 U3-containing 90S pre-ribosomal complex subunit
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: OG0012458)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G43110 AT2G43110
fragaria_vesca FvH4_4g11840 FvH4_6g25320
malus_domestica MD04G1034000.v1.1 MD13G1276400.v1.1
prunus_persica Prupe.1G180600_v2.0.a1
pyrus_communis pycom04g02840
rosa_chinensis RchiOBHm_Chr4g0409281
rosa_laevigata RLG00000008581
rosa_multiflora Rmu_sc0002377.1_g000010
rosa_roxburghii Rroxscaffold_5G00353750 Rroxscaffold_7G00195060
rosa_rugosa Rorug04G0092000
rosa_samantha Rh4AG155000 Rh4BG152700 Rh4CG164000 Rh4DG148100
rosa_wichuraiana Rw4G012660

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 2 cut(s) 81, 142
AccII CGCG 2 cut(s) 332, 702
AciI CCGC 9 cut(s) 45, 81, 140, 228, 231, 288, 330, 366, 700
AclWI GGATC 4 cut(s) 435, 453, 531, 539
AcsI RAATTY 3 cut(s) 10, 16, 851
AcyI GRCGYC 1 cut(s) 326
AfaI GTAC 5 cut(s) 312, 577, 721, 789, 866
AfiI CCNNNNNNNGG 1 cut(s) 184
AflII CTTAAG 1 cut(s) 947
AflIII ACRYGT 1 cut(s) 472
AgsI TTSAA 4 cut(s) 16, 409, 469, 674
AjnI CCWGG 1 cut(s) 348
Alw26I GTCTC 2 cut(s) 114, 920
AlwI GGATC 4 cut(s) 435, 453, 531, 539
Ama87I CYCGRG 1 cut(s) 392
AoxI GGCC 4 cut(s) 137, 145, 168, 964
ApaI GGGCCC 1 cut(s) 968
ApeKI GCWGC 6 cut(s) 62, 65, 273, 334, 459, 641
ApoI RAATTY 3 cut(s) 10, 16, 851
AspLEI GCGC 1 cut(s) 334
AspS9I GGNCC 6 cut(s) 146, 169, 491, 923, 964, 965
AsuC2I CCSGG 1 cut(s) 549
AsuHPI GGTGA 1 cut(s) 793
AsuII TTCGAA 1 cut(s) 22
AvaI CYCGRG 1 cut(s) 392
AvaII GGWCC 2 cut(s) 491, 923
BaeGI GKGCMC 1 cut(s) 968
BanII GRGCYC 1 cut(s) 968
BbsI GAAGAC 1 cut(s) 167
BbvCI CCTCAGC 1 cut(s) 306
BbvI GCAGC 6 cut(s) 52, 74, 285, 346, 471, 653
BccI CCATC 3 cut(s) 106, 502, 527
BceAI ACGGC 2 cut(s) 230, 788
BcgI CGANNNNNNTGC 2 cut(s) 124, 158
BciT130I CCWGG 1 cut(s) 350
BciVI GTATCC 1 cut(s) 694
BcnI CCSGG 1 cut(s) 549
BcoDI GTCTC 2 cut(s) 114, 920
BfaI CTAG 1 cut(s) 714
BfrI CTTAAG 1 cut(s) 947
BfuI GTATCC 1 cut(s) 694
BisI GCNGC 9 cut(s) 63, 66, 140, 229, 232, 274, 335, 460, 642
BlpI GCTNAGC 2 cut(s) 218, 338
BlsI GCNGC 9 cut(s) 64, 67, 141, 230, 233, 275, 336, 461, 643
BmcAI AGTACT 1 cut(s) 577
Bme1390I CCNGG 2 cut(s) 350, 549
Bme18I GGWCC 2 cut(s) 491, 923
BmeT110I CYCGRG 1 cut(s) 392
BmgT120I GGNCC 6 cut(s) 146, 169, 491, 923, 964, 965
BmiI GGNNCC 3 cut(s) 901, 965, 966
BmrFI CCNGG 2 cut(s) 350, 549
BmsI GCATC 2 cut(s) 329, 916
BpiI GAAGAC 1 cut(s) 167
Bpu10I CCTNAGC 1 cut(s) 306
Bpu1102I GCTNAGC 2 cut(s) 218, 338
Bpu14I TTCGAA 1 cut(s) 22
BpuMI CCSGG 1 cut(s) 549
BsaHI GRCGYC 1 cut(s) 326
BsaI GGTCTC 1 cut(s) 920
BsaJI CCNNGG 2 cut(s) 183, 548
BsaWI WCCGGW 1 cut(s) 615
Bsc4I CCNNNNNNNGG 1 cut(s) 184
Bse118I RCCGGY 1 cut(s) 316
Bse3DI GCAATG 2 cut(s) 229, 241
BseBI CCWGG 1 cut(s) 350
BseDI CCNNGG 2 cut(s) 183, 548
BseGI GGATG 1 cut(s) 538
BseLI CCNNNNNNNGG 1 cut(s) 184
BseMI GCAATG 2 cut(s) 229, 241
BseMII CTCAG 3 cut(s) 232, 297, 352
BseSI GKGCMC 1 cut(s) 968
BseXI GCAGC 6 cut(s) 52, 74, 285, 346, 471, 653
BsgI GTGCAG 1 cut(s) 660
Bsh1236I CGCG 2 cut(s) 332, 702
Bsh1285I CGRYCG 1 cut(s) 886
BshFI GGCC 4 cut(s) 139, 147, 170, 966
BsiEI CGRYCG 1 cut(s) 886
BsiHKCI CYCGRG 1 cut(s) 392
BsiSI CCGG 3 cut(s) 317, 548, 616
BslFI GGGAC 1 cut(s) 872
BslI CCNNNNNNNGG 1 cut(s) 184
BsmAI GTCTC 2 cut(s) 114, 920
BsmFI GGGAC 1 cut(s) 872
BsnI GGCC 4 cut(s) 139, 147, 170, 966
Bso31I GGTCTC 1 cut(s) 920
BsoBI CYCGRG 1 cut(s) 392
Bsp119I TTCGAA 1 cut(s) 22
Bsp120I GGGCCC 1 cut(s) 964
Bsp1286I GDGCHC 1 cut(s) 968
Bsp1407I TGTACA 1 cut(s) 864
Bsp143I GATC 5 cut(s) 427, 445, 523, 544, 883
Bsp1720I GCTNAGC 2 cut(s) 218, 338
BspACI CCGC 9 cut(s) 45, 81, 140, 228, 231, 288, 330, 366, 700
BspANI GGCC 4 cut(s) 139, 147, 170, 966
BspCNI CTCAG 3 cut(s) 231, 298, 351
BspFNI CGCG 2 cut(s) 332, 702
BspLI GGNNCC 3 cut(s) 901, 965, 966
BspPI GGATC 4 cut(s) 435, 453, 531, 539
BspT104I TTCGAA 1 cut(s) 22
BspTI CTTAAG 1 cut(s) 947
BspTNI GGTCTC 1 cut(s) 920
BsrBI CCGCTC 2 cut(s) 81, 142
BsrDI GCAATG 2 cut(s) 229, 241
BsrFI RCCGGY 1 cut(s) 316
BsrGI TGTACA 1 cut(s) 864
BssAI RCCGGY 1 cut(s) 316
BssECI CCNNGG 2 cut(s) 183, 548
BssMI GATC 5 cut(s) 427, 445, 523, 544, 883
BssNI GRCGYC 1 cut(s) 326
BssT1I CCWWGG 1 cut(s) 183
Bst2UI CCWGG 1 cut(s) 350
Bst4CI ACNGT 1 cut(s) 302
BstACI GRCGYC 1 cut(s) 326
BstAFI CTTAAG 1 cut(s) 947
BstAUI TGTACA 1 cut(s) 864
BstBI TTCGAA 1 cut(s) 22
BstC8I GCNNGC 2 cut(s) 137, 262
BstDEI CTNAG 7 cut(s) 123, 150, 218, 306, 338, 605, 657
BstF5I GGATG 1 cut(s) 538
BstFNI CGCG 2 cut(s) 332, 702
BstHHI GCGC 1 cut(s) 334
BstKTI GATC 5 cut(s) 430, 448, 526, 547, 886
BstMAI GTCTC 2 cut(s) 114, 920
BstMBI GATC 5 cut(s) 427, 445, 523, 544, 883
BstMCI CGRYCG 1 cut(s) 886
BstMWI GCNNNNNNNGC 7 cut(s) 103, 228, 240, 270, 294, 590, 772
BstNI CCWGG 1 cut(s) 350
BstNSI RCATGY 2 cut(s) 476, 799
BstSCI CCNGG 2 cut(s) 348, 547
BstSLI GKGCMC 1 cut(s) 968
BstUI CGCG 2 cut(s) 332, 702
BstV1I GCAGC 6 cut(s) 52, 74, 285, 346, 471, 653
BstV2I GAAGAC 1 cut(s) 167
BstX2I RGATCY 2 cut(s) 427, 523
BstYI RGATCY 2 cut(s) 427, 523
BsuI GTATCC 1 cut(s) 694
BsuRI GGCC 4 cut(s) 139, 147, 170, 966
BtsCI GGATG 1 cut(s) 538
Cac8I GCNNGC 2 cut(s) 137, 262
CfoI GCGC 1 cut(s) 334
Cfr10I RCCGGY 1 cut(s) 316
Cfr13I GGNCC 6 cut(s) 146, 169, 491, 923, 964, 965
CseI GACGC 2 cut(s) 315, 691
Csp6I GTAC 5 cut(s) 311, 576, 720, 788, 865
CviAII CATG 4 cut(s) 39, 473, 498, 796
CviQI GTAC 5 cut(s) 311, 576, 720, 788, 865
DdeI CTNAG 7 cut(s) 123, 150, 218, 306, 338, 605, 657
DpnI GATC 5 cut(s) 429, 447, 525, 546, 885
DpnII GATC 5 cut(s) 427, 445, 523, 544, 883
EciI GGCGGA 1 cut(s) 355
Eco130I CCWWGG 1 cut(s) 183
Eco24I GRGCYC 1 cut(s) 968
Eco31I GGTCTC 1 cut(s) 920
Eco47I GGWCC 2 cut(s) 491, 923
Eco88I CYCGRG 1 cut(s) 392
EcoO109I RGGNCCY 1 cut(s) 964
EcoRI GAATTC 1 cut(s) 851
EcoRII CCWGG 1 cut(s) 348
EcoT14I CCWWGG 1 cut(s) 183
EcoT38I GRGCYC 1 cut(s) 968
ErhI CCWWGG 1 cut(s) 183
FaeI CATG 4 cut(s) 42, 476, 501, 799
FaiI YATR 7 cut(s) 40, 474, 499, 663, 665, 797, 921
FalI AAGNNNNNCTT 2 cut(s) 860, 892
FaqI GGGAC 1 cut(s) 872
FatI CATG 4 cut(s) 38, 472, 497, 795
FauI CCCGC 1 cut(s) 74
FauNDI CATATG 1 cut(s) 663
Fnu4HI GCNGC 9 cut(s) 63, 66, 140, 229, 232, 274, 335, 460, 642
FokI GGATG 1 cut(s) 545
FriOI GRGCYC 1 cut(s) 968
Fsp4HI GCNGC 9 cut(s) 63, 66, 140, 229, 232, 274, 335, 460, 642
FspBI CTAG 1 cut(s) 714
GlaI GCGC 1 cut(s) 333
GluI GCNGC 9 cut(s) 63, 66, 140, 229, 232, 274, 335, 460, 642
HaeIII GGCC 4 cut(s) 139, 147, 170, 966
HapII CCGG 3 cut(s) 317, 548, 616
HgaI GACGC 2 cut(s) 315, 691
HhaI GCGC 1 cut(s) 334
Hin1I GRCGYC 1 cut(s) 326
Hin1II CATG 4 cut(s) 42, 476, 501, 799
Hin6I GCGC 1 cut(s) 332
HinP1I GCGC 1 cut(s) 332
HincII GTYRAC 3 cut(s) 56, 624, 930
HindII GTYRAC 3 cut(s) 56, 624, 930
HindIII AAGCTT 2 cut(s) 439, 483
HinfI GANTC 2 cut(s) 401, 553
HpaI GTTAAC 1 cut(s) 930
HpaII CCGG 3 cut(s) 317, 548, 616
HphI GGTGA 1 cut(s) 793
Hpy166II GTNNAC 4 cut(s) 56, 624, 722, 930
Hpy188I TCNGA 2 cut(s) 436, 845
Hpy188III TCNNGA 4 cut(s) 392, 425, 449, 881
Hpy8I GTNNAC 4 cut(s) 56, 624, 722, 930
Hpy99I CGWCG 1 cut(s) 302
HpyAV CCTTC 5 cut(s) 160, 193, 415, 472, 661
HpyCH4III ACNGT 1 cut(s) 302
HpyCH4V TGCA 4 cut(s) 68, 641, 799, 907
HpyF10VI GCNNNNNNNGC 7 cut(s) 103, 228, 240, 270, 294, 590, 772
HpyF3I CTNAG 7 cut(s) 123, 150, 218, 306, 338, 605, 657
Hsp92I GRCGYC 1 cut(s) 326
Hsp92II CATG 4 cut(s) 42, 476, 501, 799
HspAI GCGC 1 cut(s) 332
KspAI GTTAAC 1 cut(s) 930
Kzo9I GATC 5 cut(s) 427, 445, 523, 544, 883
LmnI GCTCC 1 cut(s) 78
Lsp1109I GCAGC 6 cut(s) 52, 74, 285, 346, 471, 653
LweI GCATC 2 cut(s) 329, 916
MaeI CTAG 1 cut(s) 714
MalI GATC 5 cut(s) 429, 447, 525, 546, 885
MbiI CCGCTC 2 cut(s) 81, 142
MboI GATC 5 cut(s) 427, 445, 523, 544, 883
MboII GAAGA 7 cut(s) 169, 172, 205, 208, 217, 337, 686
MfeI CAATTG 1 cut(s) 246
MflI RGATCY 2 cut(s) 427, 523
MhlI GDGCHC 1 cut(s) 968
MluCI AATT 6 cut(s) 10, 16, 246, 540, 744, 851
MlyI GAGTC 2 cut(s) 410, 562
MmeI TCCRAC 1 cut(s) 378
MnlI CCTC 5 cut(s) 27, 301, 397, 748, 954
MseI TTAA 5 cut(s) 293, 692, 810, 929, 948
MslI CAYNNNNRTG 1 cut(s) 804
MspA1I CMGCKG 2 cut(s) 65, 288
MspCI CTTAAG 1 cut(s) 947
MspI CCGG 3 cut(s) 317, 548, 616
MspR9I CCNGG 2 cut(s) 350, 549
MunI CAATTG 1 cut(s) 246
MvaI CCWGG 1 cut(s) 350
MvnI CGCG 2 cut(s) 332, 702
MwoI GCNNNNNNNGC 7 cut(s) 103, 228, 240, 270, 294, 590, 772
NciI CCSGG 1 cut(s) 549
NdeI CATATG 1 cut(s) 663
NdeII GATC 5 cut(s) 427, 445, 523, 544, 883
NlaIII CATG 4 cut(s) 42, 476, 501, 799
NlaIV GGNNCC 3 cut(s) 901, 965, 966
NmeAIII GCCGAG 1 cut(s) 123
NspI RCATGY 2 cut(s) 476, 799
NspV TTCGAA 1 cut(s) 22
PaeR7I CTCGAG 1 cut(s) 392
PciI ACATGT 1 cut(s) 472
PcsI WCGNNNNNNNCGW 1 cut(s) 161
PfoI TCCNGGA 1 cut(s) 348
PkrI GCNGC 9 cut(s) 64, 67, 141, 230, 233, 275, 336, 461, 643
Ple19I CGATCG 1 cut(s) 886
PleI GAGTC 2 cut(s) 409, 561
PpsI GAGTC 2 cut(s) 409, 561
PscI ACATGT 1 cut(s) 472
Psp6I CCWGG 1 cut(s) 348
PspGI CCWGG 1 cut(s) 348
PspN4I GGNNCC 3 cut(s) 901, 965, 966
PspOMI GGGCCC 1 cut(s) 964
PspPI GGNCC 6 cut(s) 146, 169, 491, 923, 964, 965
PsuI RGATCY 2 cut(s) 427, 523
PvuI CGATCG 1 cut(s) 886
PvuII CAGCTG 1 cut(s) 65
RsaI GTAC 5 cut(s) 312, 577, 721, 789, 866
RsaNI GTAC 5 cut(s) 311, 576, 720, 788, 865
RseI CAYNNNNRTG 1 cut(s) 804
SaqAI TTAA 5 cut(s) 293, 692, 810, 929, 948
SatI GCNGC 9 cut(s) 63, 66, 140, 229, 232, 274, 335, 460, 642
Sau3AI GATC 5 cut(s) 427, 445, 523, 544, 883
Sau96I GGNCC 6 cut(s) 146, 169, 491, 923, 964, 965
ScaI AGTACT 1 cut(s) 577
SchI GAGTC 2 cut(s) 410, 562
ScrFI CCNGG 2 cut(s) 350, 549
SduI GDGCHC 1 cut(s) 968
SfaNI GCATC 2 cut(s) 329, 916
Sfr274I CTCGAG 1 cut(s) 392
SfuI TTCGAA 1 cut(s) 22
SinI GGWCC 2 cut(s) 491, 923
SlaI CTCGAG 1 cut(s) 392
SmiMI CAYNNNNRTG 1 cut(s) 804
SmlI CTYRAG 2 cut(s) 392, 947
SmoI CTYRAG 2 cut(s) 392, 947
Sse9I AATT 6 cut(s) 10, 16, 246, 540, 744, 851
SsiI CCGC 9 cut(s) 45, 81, 140, 228, 231, 288, 330, 366, 700
SspMI CTAG 1 cut(s) 714
StyD4I CCNGG 2 cut(s) 348, 547
StyI CCWWGG 1 cut(s) 183
TaaI ACNGT 1 cut(s) 302
TaqI TCGA 4 cut(s) 22, 101, 393, 886
TaqII GACCGA 1 cut(s) 902
TasI AATT 6 cut(s) 10, 16, 246, 540, 744, 851
TatI WGTACW 3 cut(s) 575, 787, 864
TauI GCSGC 3 cut(s) 142, 231, 234
Tru1I TTAA 5 cut(s) 293, 692, 810, 929, 948
Tru9I TTAA 5 cut(s) 293, 692, 810, 929, 948
TseI GCWGC 6 cut(s) 62, 65, 273, 334, 459, 641
TspDTI ATGAA 3 cut(s) 645, 680, 864
TspGWI ACGGA 1 cut(s) 915
Vha464I CTTAAG 1 cut(s) 947
VpaK11BI GGWCC 2 cut(s) 491, 923
XapI RAATTY 3 cut(s) 10, 16, 851
XceI RCATGY 2 cut(s) 476, 799
XhoI CTCGAG 1 cut(s) 392
XspI CTAG 1 cut(s) 714
ZrmI AGTACT 1 cut(s) 577
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.