RchiOBHm_Chr4g0397361

U3 small nucleolar RNA-associated protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0001399
Physical Location & Seq
Reverse (-)
13772993 .. 13784490
11498 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ36967

Sequence Viewer

Length: 909 bp
ATGTTGTTGCAGTTGTTAGTGACGTTTACTCATTCAACACGAGGTGCTGTGACTGCCTTATCTTTCAGCACAGTACCATACAGTACTAGCACATTGTCAACAGTAGGTTATGTACAAGTATATTTCACCAGTATTACACTTGGCGGGTTATACGATGGTTTGTCTGTATTTGTTCTCTGCTTAGTGTCCTGGCATTTTCCAAACACTAAAACTGAAGCAGGGGCATCTACTCTAAAACCAAAGAGAAAGACCCAAGCTCCACCTTACCTCAAAGACTTTGTGCCCAAATGGGCAGCCTCTTCTGGTGTTATAACCATATGGAATCTCAAAAAAAGAAGGCTTCAATCAGTTATAAAAGAGGCACACGATGGTTCTATACTTCCACTGCACTTTTTAATGAATGAACCAGTGTTAATGAGTTCATCATCAAACAATTCTATTAAAATGTGGATTTTTGACACAAGCGATGGATATGCTCGTCTTTTACGGTTTAGAAGTGGTCACAGTGCTCCTCCACAATGCATAAGGTTTTATGCAAATGGGAGACACATTCTATCAGCTGGTCAGGATCGTGCCTTTCGCGTTTTCTCTATAATCCAGAGAGCTTTCTTAACGTCATATAACAAAACGAGCAAAGAAACTCAGGGTGAAGTTCAGCTATTGGAGGAAGAGATAAAACTGAAACCTGTCATTGCTTTTGATTGTGCTGAAATAAGAGAGCTAGATTGGTGCAATGTTGTTTCATGTCATATGGATACTGCACAGGCATATGTTTGGAGACTTCAAAACTTTGTTCTTGGGGAGCATATTCTGAAACCAAGACCAGAAAACCCTACTCCTGTGAAGGCCTGTGCCATCAGTTCATGTGGAAATTTTGCCATACTAGGGACAGCAGGTGGTTGGATTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03008 map03008
Pfam Domains
Protein Families
ANAPC4_WD40 Utp21 WD40

Protein Analysis

302

Amino Acids

33.69

Weight (kDa)

9.31

Isoelectric Point (pI)

46.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR36-Utp21_1st PF25171 98 - 153 2e-17 WDR36/Utp21 first beta-propeller
Beta-prop_WDR3_1st PF25173 99 - 209 7.7e-09 WDR3 first beta-propeller domain
Beta-prop_EML PF23409 99 - 152 5.7e-06 Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_THOC3 PF25174 101 - 211 9e-06 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 103 - 214 1.5e-10 WDR5 beta-propeller domain
Beta-prop_WDR3_2nd PF25172 106 - 197 2.4e-07 WDR3 second beta-propeller domain
Beta-prop_WDR36-Utp21_2nd PF25168 174 - 301 5.6e-29 WDR36/Utp21 second beta-propeller domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 311, 353
AarI CACCTGC 1 cut(s) 884
Acc36I ACCTGC 1 cut(s) 884
AccII CGCG 1 cut(s) 582
AciI CCGC 1 cut(s) 144
AclWI GGATC 1 cut(s) 576
AcsI RAATTY 1 cut(s) 871
AcuI CTGAAG 1 cut(s) 234
AdeI CACNNNGTG 1 cut(s) 44
AfaI GTAC 3 cut(s) 75, 85, 114
AfiI CCNNNNNNNGG 1 cut(s) 885
AgsI TTSAA 3 cut(s) 36, 344, 785
AjnI CCWGG 1 cut(s) 188
AluBI AGCT 5 cut(s) 257, 560, 605, 658, 721
AluI AGCT 5 cut(s) 257, 560, 605, 658, 721
Alw21I GWGCWC 1 cut(s) 511
Alw26I GTCTC 2 cut(s) 538, 772
AlwI GGATC 1 cut(s) 576
AoxI GGCC 1 cut(s) 846
ApeKI GCWGC 1 cut(s) 293
ApoI RAATTY 1 cut(s) 871
AsuHPI GGTGA 2 cut(s) 118, 659
BaeGI GKGCMC 1 cut(s) 285
BauI CACGAG 1 cut(s) 39
Bbv12I GWGCWC 1 cut(s) 511
BbvI GCAGC 1 cut(s) 305
BccI CCATC 4 cut(s) 149, 362, 461, 863
BcgI CGANNNNNNTGC 2 cut(s) 455, 489
BciT130I CCWGG 1 cut(s) 190
BciVI GTATCC 1 cut(s) 748
BcoDI GTCTC 2 cut(s) 538, 772
BfaI CTAG 3 cut(s) 87, 722, 884
BfuAI ACCTGC 1 cut(s) 884
BfuI GTATCC 1 cut(s) 748
BisI GCNGC 1 cut(s) 294
BlsI GCNGC 1 cut(s) 295
BmcAI AGTACT 1 cut(s) 85
Bme1390I CCNGG 1 cut(s) 190
BmrFI CCNGG 1 cut(s) 190
BmsI GCATC 1 cut(s) 233
BsaXI ACNNNNNCTCC 2 cut(s) 241, 271
Bsc4I CCNNNNNNNGG 1 cut(s) 885
Bse1I ACTGG 2 cut(s) 129, 407
Bse3DI GCAATG 2 cut(s) 690, 739
BseBI CCWGG 1 cut(s) 190
BseLI CCNNNNNNNGG 1 cut(s) 885
BseMI GCAATG 2 cut(s) 690, 739
BseMII CTCAG 1 cut(s) 656
BseNI ACTGG 2 cut(s) 129, 407
BseRI GAGGAG 1 cut(s) 501
BseSI GKGCMC 1 cut(s) 285
BseXI GCAGC 1 cut(s) 305
BsgI GTGCAG 2 cut(s) 371, 744
Bsh1236I CGCG 1 cut(s) 582
BshFI GGCC 1 cut(s) 848
BsiHKAI GWGCWC 1 cut(s) 511
BslFI GGGAC 1 cut(s) 901
BslI CCNNNNNNNGG 1 cut(s) 885
BsmAI GTCTC 2 cut(s) 538, 772
BsmFI GGGAC 1 cut(s) 901
BsnI GGCC 1 cut(s) 848
Bsp1286I GDGCHC 2 cut(s) 285, 511
Bsp1407I TGTACA 1 cut(s) 112
Bsp143I GATC 1 cut(s) 568
BspACI CCGC 1 cut(s) 144
BspANI GGCC 1 cut(s) 848
BspCNI CTCAG 1 cut(s) 655
BspFNI CGCG 1 cut(s) 582
BspMI ACCTGC 1 cut(s) 884
BspPI GGATC 1 cut(s) 576
BsrDI GCAATG 2 cut(s) 690, 739
BsrGI TGTACA 1 cut(s) 112
BsrI ACTGG 2 cut(s) 129, 407
BssMI GATC 1 cut(s) 568
BssSI CACGAG 1 cut(s) 39
Bst2BI CACGAG 1 cut(s) 39
Bst2UI CCWGG 1 cut(s) 190
Bst4CI ACNGT 5 cut(s) 73, 83, 103, 489, 506
Bst6I CTCTTC 2 cut(s) 304, 663
BstAUI TGTACA 1 cut(s) 112
BstDEI CTNAG 2 cut(s) 181, 642
BstFNI CGCG 1 cut(s) 582
BstKTI GATC 1 cut(s) 571
BstMAI GTCTC 2 cut(s) 538, 772
BstMBI GATC 1 cut(s) 568
BstMWI GCNNNNNNNGC 1 cut(s) 53
BstNI CCWGG 1 cut(s) 190
BstSCI CCNGG 1 cut(s) 188
BstSLI GKGCMC 1 cut(s) 285
BstUI CGCG 1 cut(s) 582
BstV1I GCAGC 1 cut(s) 305
BsuI GTATCC 1 cut(s) 748
BsuRI GGCC 1 cut(s) 848
BtgZI GCGATG 1 cut(s) 480
BtsI GCAGTG 1 cut(s) 383
BtsIMutI CAGTG 3 cut(s) 383, 414, 511
BveI ACCTGC 1 cut(s) 884
Csp6I GTAC 3 cut(s) 74, 84, 113
CviAII CATG 2 cut(s) 744, 864
CviJI RGCY 8 cut(s) 257, 296, 340, 560, 605, 658, 721, 848
CviKI_1 RGCY 8 cut(s) 257, 296, 340, 560, 605, 658, 721, 848
CviQI GTAC 3 cut(s) 74, 84, 113
DdeI CTNAG 2 cut(s) 181, 642
DpnI GATC 1 cut(s) 570
DpnII GATC 1 cut(s) 568
DraIII CACNNNGTG 1 cut(s) 44
Eam1104I CTCTTC 2 cut(s) 304, 663
EarI CTCTTC 2 cut(s) 304, 663
Eco147I AGGCCT 1 cut(s) 848
Eco57I CTGAAG 1 cut(s) 234
EcoRII CCWGG 1 cut(s) 188
EcoT22I ATGCAT 1 cut(s) 524
FaeI CATG 2 cut(s) 747, 867
FaqI GGGAC 1 cut(s) 901
FatI CATG 2 cut(s) 743, 863
FauI CCCGC 1 cut(s) 137
FauNDI CATATG 3 cut(s) 317, 750, 769
Fnu4HI GCNGC 1 cut(s) 294
Fsp4HI GCNGC 1 cut(s) 294
FspBI CTAG 3 cut(s) 87, 722, 884
GluI GCNGC 1 cut(s) 294
HaeIII GGCC 1 cut(s) 848
Hin1II CATG 2 cut(s) 747, 867
HincII GTYRAC 1 cut(s) 99
HindII GTYRAC 1 cut(s) 99
HinfI GANTC 1 cut(s) 322
HphI GGTGA 2 cut(s) 118, 659
Hpy166II GTNNAC 2 cut(s) 27, 99
Hpy188I TCNGA 1 cut(s) 813
Hpy188III TCNNGA 2 cut(s) 566, 598
Hpy8I GTNNAC 2 cut(s) 27, 99
HpyAV CCTTC 2 cut(s) 330, 838
HpyCH4III ACNGT 5 cut(s) 73, 83, 103, 489, 506
HpyCH4IV ACGT 2 cut(s) 23, 614
HpyCH4V TGCA 6 cut(s) 10, 388, 522, 536, 732, 761
HpyF10VI GCNNNNNNNGC 1 cut(s) 53
HpyF3I CTNAG 2 cut(s) 181, 642
HpySE526I ACGT 2 cut(s) 23, 614
Hsp92II CATG 2 cut(s) 747, 867
Kzo9I GATC 1 cut(s) 568
LmnI GCTCC 3 cut(s) 262, 514, 802
Lsp1109I GCAGC 1 cut(s) 305
LweI GCATC 1 cut(s) 233
MaeI CTAG 3 cut(s) 87, 722, 884
MaeII ACGT 2 cut(s) 23, 614
MaeIII GTNAC 3 cut(s) 19, 49, 500
MalI GATC 1 cut(s) 570
MboI GATC 1 cut(s) 568
MboII GAAGA 2 cut(s) 291, 680
MhlI GDGCHC 2 cut(s) 285, 511
MluCI AATT 2 cut(s) 433, 871
MmeI TCCRAC 1 cut(s) 881
MnlI CCTC 6 cut(s) 35, 278, 307, 352, 522, 658
Mph1103I ATGCAT 1 cut(s) 524
MseI TTAA 4 cut(s) 395, 413, 441, 611
MspA1I CMGCKG 1 cut(s) 560
MspR9I CCNGG 1 cut(s) 190
MvaI CCWGG 1 cut(s) 190
MvnI CGCG 1 cut(s) 582
MwoI GCNNNNNNNGC 1 cut(s) 53
NdeI CATATG 3 cut(s) 317, 750, 769
NdeII GATC 1 cut(s) 568
NlaIII CATG 2 cut(s) 747, 867
NmuCI GTSAC 3 cut(s) 19, 49, 500
NsiI ATGCAT 1 cut(s) 524
PaqCI CACCTGC 1 cut(s) 884
PceI AGGCCT 1 cut(s) 848
PfeI GAWTC 1 cut(s) 322
PkrI GCNGC 1 cut(s) 295
PsiI TTATAA 2 cut(s) 311, 353
Psp6I CCWGG 1 cut(s) 188
PspGI CCWGG 1 cut(s) 188
PvuII CAGCTG 1 cut(s) 560
RsaI GTAC 3 cut(s) 75, 85, 114
RsaNI GTAC 3 cut(s) 74, 84, 113
SaqAI TTAA 4 cut(s) 395, 413, 441, 611
SatI GCNGC 1 cut(s) 294
Sau3AI GATC 1 cut(s) 568
ScaI AGTACT 1 cut(s) 85
ScrFI CCNGG 1 cut(s) 190
SduI GDGCHC 2 cut(s) 285, 511
SfaNI GCATC 1 cut(s) 233
Sse9I AATT 2 cut(s) 433, 871
SseBI AGGCCT 1 cut(s) 848
SsiI CCGC 1 cut(s) 144
SspMI CTAG 3 cut(s) 87, 722, 884
StuI AGGCCT 1 cut(s) 848
StyD4I CCNGG 1 cut(s) 188
TaaI ACNGT 5 cut(s) 73, 83, 103, 489, 506
TaiI ACGT 2 cut(s) 26, 617
TasI AATT 2 cut(s) 433, 871
TatI WGTACW 2 cut(s) 83, 112
TfiI GAWTC 1 cut(s) 322
Tru1I TTAA 4 cut(s) 395, 413, 441, 611
Tru9I TTAA 4 cut(s) 395, 413, 441, 611
TscAI CASTG 3 cut(s) 390, 414, 511
TseFI GTSAC 3 cut(s) 19, 49, 500
TseI GCWGC 1 cut(s) 293
Tsp45I GTSAC 3 cut(s) 19, 49, 500
TspDTI ATGAA 5 cut(s) 411, 413, 417, 732, 852
TspRI CASTG 3 cut(s) 390, 414, 511
XapI RAATTY 1 cut(s) 871
XspI CTAG 3 cut(s) 87, 722, 884
ZrmI AGTACT 1 cut(s) 85
Zsp2I ATGCAT 1 cut(s) 524
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.