Rmu_ssc0000435.1_g000005

Phosphodiesterase responsible for the U6 snRNA 3' end processing. Acts as an exoribonuclease (RNase) responsible for trimming the poly(U) tract of the last nucleotides in the pre-U6 snRNA molecule, leading to the formation of mature U6 snRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000435.1
OG0006090
Physical Location & Seq
Forward (+)
26463 .. 29186
2724 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 969 bp
atggaggcactgatagcatcttacggagacacgtcgtcggactcagactccgagtcgtcgccggcgccaccgtcggagcagaaaacgtctcaagaatcaactcctgttcttcctccgcctccgctctcacttctcgacacccccaattcattagagttttggacaccaactgttcgacgttttgcctctgaaggatttctggactacttgccgagcgctcagcccagcagagttaggaacttccctaatatagaaggaaactacgctctacatgtctatatcccaggtaccccaacttctctgatcgctgttcttcctccgcctcctctctcacttctcgacacctccaattcattagtgtatataccggcggcgccgaggaaggagatggcattgtttatgaggagactgtcatctgttgtgcctggtctccatgctgtggacgttgatgtgccgcttgacgttttgtgcaaagatgaacaaaagcttgaacaggttggtttagggagggagtttcatataagtctggggaggactgtgccgatcagggtgcaccagattgactcattggtggcaatgctgaagcagaagcttcagactcagaggcgttattggattgattttagcaagtgggaggtttttgttaacgatgatcatacacgcacctttgtgtcagtggaagttattactgctggattagctgagataacaaagcagattcaagctgtcaatgaggtgtataagcttcacaatctccctgagttttacaaggatccacgtccccatatatcagtcgcttgggcattgggtgacaccagggaatccctaaagaaagtggttgaagatgaaagaagaaaatctacagttggggggtcattgcagaaatgtatttttaccagtagattcagtggcatagactgtaagataggcaacaaaacatataaaatatgtaaattttctgatgaataa
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
HVSL

Protein Analysis

322

Amino Acids

36.05

Weight (kDa)

6.2

Isoelectric Point (pI)

48.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 118 - 317 6.6e-44 Uncharacterised conserved protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 287
AccB1I GGYRCC 3 cut(s) 64, 287, 373
AccB7I CCANNNNNTGG 1 cut(s) 439
AccBSI CCGCTC 1 cut(s) 124
AciI CCGC 5 cut(s) 116, 122, 320, 371, 455
AclWI GGATC 2 cut(s) 767, 780
AcsI RAATTY 1 cut(s) 953
AcuI CTGAAG 3 cut(s) 210, 578, 602
AcyI GRCGYC 2 cut(s) 65, 374
AfaI GTAC 1 cut(s) 289
AfeI AGCGCT 1 cut(s) 217
AfiI CCNNNNNNNGG 1 cut(s) 439
AflIII ACRYGT 2 cut(s) 30, 271
AgsI TTSAA 3 cut(s) 491, 722, 842
AhdI GACNNNNNGTC 2 cut(s) 34, 52
AjiI CACGTC 2 cut(s) 33, 779
AjnI CCWGG 3 cut(s) 283, 424, 815
AleI CACNNNNGTG 1 cut(s) 668
AluBI AGCT 5 cut(s) 487, 592, 701, 725, 745
AluI AGCT 5 cut(s) 487, 592, 701, 725, 745
Alw21I GWGCWC 1 cut(s) 555
Alw26I GTCTC 4 cut(s) 21, 93, 400, 434
Alw44I GTGCAC 1 cut(s) 551
AlwI GGATC 2 cut(s) 767, 780
Aor51HI AGCGCT 1 cut(s) 217
ApaLI GTGCAC 1 cut(s) 551
ApoI RAATTY 1 cut(s) 953
Asp700I GAANNNNTTC 1 cut(s) 195
Asp718I GGTACC 1 cut(s) 287
AspLEI GCGC 3 cut(s) 67, 218, 376
AsuHPI GGTGA 1 cut(s) 821
BaeGI GKGCMC 1 cut(s) 555
BamHI GGATCC 1 cut(s) 772
BanI GGYRCC 3 cut(s) 64, 287, 373
BarI GAAGNNNNNNTAC 4 cut(s) 280, 312, 844, 876
Bbv12I GWGCWC 1 cut(s) 555
BccI CCATC 1 cut(s) 382
BcgI CGANNNNNNTGC 2 cut(s) 532, 566
BciT130I CCWGG 3 cut(s) 285, 426, 817
BclI TGATCA 1 cut(s) 652
BcoDI GTCTC 4 cut(s) 21, 93, 400, 434
BfmI CTRYAG 1 cut(s) 861
BfoI RGCGCY 3 cut(s) 68, 219, 377
BisI GCNGC 2 cut(s) 372, 455
BlpI GCTNAGC 1 cut(s) 219
BlsI GCNGC 2 cut(s) 373, 456
Bme1390I CCNGG 3 cut(s) 285, 426, 817
BmeRI GACNNNNNGTC 2 cut(s) 34, 52
BmgBI CACGTC 2 cut(s) 33, 779
BmiI GGNNCC 4 cut(s) 66, 289, 375, 774
BmrFI CCNGG 3 cut(s) 285, 426, 817
BmsI GCATC 1 cut(s) 26
Bpu1102I GCTNAGC 1 cut(s) 219
BpuEI CTTGAG 1 cut(s) 75
BsaHI GRCGYC 2 cut(s) 65, 374
BsaI GGTCTC 1 cut(s) 434
BsaJI CCNNGG 3 cut(s) 283, 377, 816
BsaXI ACNNNNNCTCC 2 cut(s) 32, 62
Bsc4I CCNNNNNNNGG 1 cut(s) 439
Bse118I RCCGGY 2 cut(s) 61, 367
Bse1I ACTGG 1 cut(s) 897
Bse3DI GCAATG 2 cut(s) 582, 875
BseBI CCWGG 3 cut(s) 285, 426, 817
BseDI CCNNGG 3 cut(s) 283, 377, 816
BseLI CCNNNNNNNGG 1 cut(s) 439
BseMI GCAATG 2 cut(s) 582, 875
BseMII CTCAG 5 cut(s) 57, 233, 614, 693, 750
BseNI ACTGG 1 cut(s) 897
BseRI GAGGAG 2 cut(s) 315, 418
BseSI GKGCMC 1 cut(s) 555
BseYI CCCAGC 1 cut(s) 224
BshNI GGYRCC 3 cut(s) 64, 287, 373
BsiHKAI GWGCWC 1 cut(s) 555
BsiSI CCGG 2 cut(s) 62, 368
BslFI GGGAC 1 cut(s) 765
BslI CCNNNNNNNGG 1 cut(s) 439
BsmAI GTCTC 4 cut(s) 21, 93, 400, 434
BsmBI CGTCTC 1 cut(s) 93
BsmFI GGGAC 1 cut(s) 765
Bso31I GGTCTC 1 cut(s) 434
Bsp1286I GDGCHC 1 cut(s) 555
Bsp143I GATC 4 cut(s) 303, 543, 652, 772
Bsp1720I GCTNAGC 1 cut(s) 219
BspACI CCGC 5 cut(s) 116, 122, 320, 371, 455
BspCNI CTCAG 5 cut(s) 56, 232, 613, 694, 751
BspLI GGNNCC 4 cut(s) 66, 289, 375, 774
BspPI GGATC 2 cut(s) 767, 780
BspT107I GGYRCC 3 cut(s) 64, 287, 373
BspTNI GGTCTC 1 cut(s) 434
BsrBI CCGCTC 1 cut(s) 124
BsrDI GCAATG 2 cut(s) 582, 875
BsrFI RCCGGY 2 cut(s) 61, 367
BsrI ACTGG 1 cut(s) 897
BssAI RCCGGY 2 cut(s) 61, 367
BssECI CCNNGG 3 cut(s) 283, 377, 816
BssMI GATC 4 cut(s) 303, 543, 652, 772
BssNI GRCGYC 2 cut(s) 65, 374
Bst2UI CCWGG 3 cut(s) 285, 426, 817
Bst4CI ACNGT 6 cut(s) 72, 172, 411, 538, 865, 920
BstACI GRCGYC 2 cut(s) 65, 374
BstC8I GCNNGC 1 cut(s) 63
BstDEI CTNAG 5 cut(s) 43, 219, 600, 702, 759
BstH2I RGCGCY 3 cut(s) 68, 219, 377
BstHHI GCGC 3 cut(s) 67, 218, 376
BstKTI GATC 4 cut(s) 306, 546, 655, 775
BstMAI GTCTC 4 cut(s) 21, 93, 400, 434
BstMBI GATC 4 cut(s) 303, 543, 652, 772
BstMWI GCNNNNNNNGC 2 cut(s) 14, 698
BstNI CCWGG 3 cut(s) 285, 426, 817
BstNSI RCATGY 1 cut(s) 275
BstSCI CCNGG 3 cut(s) 283, 424, 815
BstSFI CTRYAG 1 cut(s) 861
BstSLI GKGCMC 1 cut(s) 555
BstX2I RGATCY 1 cut(s) 772
BstYI RGATCY 1 cut(s) 772
BtrI CACGTC 2 cut(s) 33, 779
BtsIMutI CAGTG 3 cut(s) 8, 681, 913
Cac8I GCNNGC 1 cut(s) 63
CfoI GCGC 3 cut(s) 67, 218, 376
Cfr10I RCCGGY 2 cut(s) 61, 367
Csp6I GTAC 1 cut(s) 288
CviAII CATG 2 cut(s) 272, 434
CviJI RGCY 6 cut(s) 223, 487, 592, 701, 725, 745
CviKI_1 RGCY 6 cut(s) 223, 487, 592, 701, 725, 745
CviQI GTAC 1 cut(s) 288
DdeI CTNAG 5 cut(s) 43, 219, 600, 702, 759
DinI GGCGCC 2 cut(s) 66, 375
DpnI GATC 4 cut(s) 305, 545, 654, 774
DpnII GATC 4 cut(s) 303, 543, 652, 772
DriI GACNNNNNGTC 2 cut(s) 34, 52
Eam1105I GACNNNNNGTC 2 cut(s) 34, 52
EciI GGCGGA 2 cut(s) 105, 309
Eco31I GGTCTC 1 cut(s) 434
Eco47III AGCGCT 1 cut(s) 217
Eco57I CTGAAG 3 cut(s) 210, 578, 602
EcoRII CCWGG 3 cut(s) 283, 424, 815
EgeI GGCGCC 2 cut(s) 66, 375
EheI GGCGCC 2 cut(s) 66, 375
Esp3I CGTCTC 1 cut(s) 93
FaeI CATG 2 cut(s) 275, 437
FaqI GGGAC 1 cut(s) 765
FatI CATG 2 cut(s) 271, 433
FbaI TGATCA 1 cut(s) 652
Fnu4HI GCNGC 2 cut(s) 372, 455
Fsp4HI GCNGC 2 cut(s) 372, 455
GlaI GCGC 3 cut(s) 66, 217, 375
GluI GCNGC 2 cut(s) 372, 455
GsaI CCCAGC 1 cut(s) 228
HaeII RGCGCY 3 cut(s) 68, 219, 377
HapII CCGG 2 cut(s) 62, 368
HhaI GCGC 3 cut(s) 67, 218, 376
Hin1I GRCGYC 2 cut(s) 65, 374
Hin1II CATG 2 cut(s) 275, 437
Hin6I GCGC 3 cut(s) 65, 216, 374
HinP1I GCGC 3 cut(s) 65, 216, 374
HincII GTYRAC 1 cut(s) 646
HindII GTYRAC 1 cut(s) 646
HindIII AAGCTT 3 cut(s) 485, 590, 743
HinfI GANTC 9 cut(s) 41, 47, 53, 95, 563, 598, 718, 821, 903
HpaI GTTAAC 1 cut(s) 646
HpaII CCGG 2 cut(s) 62, 368
HphI GGTGA 1 cut(s) 821
Hpy166II GTNNAC 3 cut(s) 442, 553, 646
Hpy188I TCNGA 9 cut(s) 40, 46, 52, 76, 190, 303, 597, 603, 961
Hpy188III TCNNGA 4 cut(s) 92, 134, 200, 338
Hpy8I GTNNAC 3 cut(s) 442, 553, 646
Hpy99I CGWCG 5 cut(s) 37, 40, 61, 76, 180
HpyAV CCTTC 3 cut(s) 185, 248, 376
HpyCH4III ACNGT 6 cut(s) 72, 172, 411, 538, 865, 920
HpyCH4IV ACGT 6 cut(s) 32, 86, 178, 444, 462, 778
HpyCH4V TGCA 3 cut(s) 471, 553, 880
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 698
HpyF3I CTNAG 5 cut(s) 43, 219, 600, 702, 759
HpySE526I ACGT 6 cut(s) 32, 86, 178, 444, 462, 778
Hsp92I GRCGYC 2 cut(s) 65, 374
Hsp92II CATG 2 cut(s) 275, 437
HspAI GCGC 3 cut(s) 65, 216, 374
KasI GGCGCC 2 cut(s) 64, 373
KpnI GGTACC 1 cut(s) 291
KroI GCCGGC 1 cut(s) 61
KroNI GCCGGC 1 cut(s) 63
Ksp22I TGATCA 1 cut(s) 652
KspAI GTTAAC 1 cut(s) 646
Kzo9I GATC 4 cut(s) 303, 543, 652, 772
LmnI GCTCC 1 cut(s) 76
LweI GCATC 1 cut(s) 26
MaeII ACGT 6 cut(s) 32, 86, 178, 444, 462, 778
MaeIII GTNAC 1 cut(s) 809
MalI GATC 4 cut(s) 305, 545, 654, 774
MbiI CCGCTC 1 cut(s) 124
MboI GATC 4 cut(s) 303, 543, 652, 772
MboII GAAGA 4 cut(s) 101, 305, 854, 864
MflI RGATCY 1 cut(s) 772
MhlI GDGCHC 1 cut(s) 555
MluCI AATT 3 cut(s) 145, 349, 953
Mly113I GGCGCC 2 cut(s) 65, 374
MlyI GAGTC 5 cut(s) 35, 41, 62, 557, 592
MmeI TCCRAC 2 cut(s) 18, 54
MreI CGCCGGCG 1 cut(s) 61
MroNI GCCGGC 1 cut(s) 61
MroXI GAANNNNTTC 1 cut(s) 195
MseI TTAA 1 cut(s) 645
MslI CAYNNNNRTG 1 cut(s) 668
MspI CCGG 2 cut(s) 62, 368
MspR9I CCNGG 3 cut(s) 285, 426, 817
MvaI CCWGG 3 cut(s) 285, 426, 817
MwoI GCNNNNNNNGC 2 cut(s) 14, 698
NaeI GCCGGC 1 cut(s) 63
NarI GGCGCC 2 cut(s) 65, 374
NdeII GATC 4 cut(s) 303, 543, 652, 772
NgoMIV GCCGGC 1 cut(s) 61
NlaIII CATG 2 cut(s) 275, 437
NlaIV GGNNCC 4 cut(s) 66, 289, 375, 774
NmeAIII GCCGAG 2 cut(s) 237, 402
NmuCI GTSAC 1 cut(s) 809
NspI RCATGY 1 cut(s) 275
OliI CACNNNNGTG 1 cut(s) 668
PciI ACATGT 1 cut(s) 271
PdiI GCCGGC 1 cut(s) 63
PdmI GAANNNNTTC 1 cut(s) 195
PfeI GAWTC 4 cut(s) 95, 718, 821, 903
PflMI CCANNNNNTGG 1 cut(s) 439
PkrI GCNGC 2 cut(s) 373, 456
PleI GAGTC 5 cut(s) 35, 41, 61, 557, 592
PluTI GGCGCC 2 cut(s) 68, 377
PpsI GAGTC 5 cut(s) 35, 41, 61, 557, 592
PscI ACATGT 1 cut(s) 271
Psp6I CCWGG 3 cut(s) 283, 424, 815
PspFI CCCAGC 1 cut(s) 224
PspGI CCWGG 3 cut(s) 283, 424, 815
PspN4I GGNNCC 4 cut(s) 66, 289, 375, 774
PsuI RGATCY 1 cut(s) 772
RsaI GTAC 1 cut(s) 289
RsaNI GTAC 1 cut(s) 288
RseI CAYNNNNRTG 1 cut(s) 668
SaqAI TTAA 1 cut(s) 645
SatI GCNGC 2 cut(s) 372, 455
Sau3AI GATC 4 cut(s) 303, 543, 652, 772
SchI GAGTC 5 cut(s) 35, 41, 62, 557, 592
ScrFI CCNGG 3 cut(s) 285, 426, 817
SduI GDGCHC 1 cut(s) 555
SfaNI GCATC 1 cut(s) 26
SfcI CTRYAG 1 cut(s) 861
SfoI GGCGCC 2 cut(s) 66, 375
SgrAI CRCCGGYG 1 cut(s) 61
SmiMI CAYNNNNRTG 1 cut(s) 668
SmlI CTYRAG 1 cut(s) 90
SmoI CTYRAG 1 cut(s) 90
Sse9I AATT 3 cut(s) 145, 349, 953
SsiI CCGC 5 cut(s) 116, 122, 320, 371, 455
SspDI GGCGCC 2 cut(s) 64, 373
StyD4I CCNGG 3 cut(s) 283, 424, 815
TaaI ACNGT 6 cut(s) 72, 172, 411, 538, 865, 920
TaiI ACGT 6 cut(s) 35, 89, 181, 447, 465, 781
TaqI TCGA 3 cut(s) 135, 175, 339
TasI AATT 3 cut(s) 145, 349, 953
TauI GCSGC 2 cut(s) 374, 457
TfiI GAWTC 4 cut(s) 95, 718, 821, 903
Tru1I TTAA 1 cut(s) 645
Tru9I TTAA 1 cut(s) 645
TscAI CASTG 3 cut(s) 15, 681, 913
TseFI GTSAC 1 cut(s) 809
Tsp45I GTSAC 1 cut(s) 809
TspDTI ATGAA 5 cut(s) 138, 342, 492, 506, 861
TspGWI ACGGA 1 cut(s) 39
TspRI CASTG 3 cut(s) 15, 681, 913
Van91I CCANNNNNTGG 1 cut(s) 439
VneI GTGCAC 1 cut(s) 551
XapI RAATTY 1 cut(s) 953
XceI RCATGY 1 cut(s) 275
XmnI GAANNNNTTC 1 cut(s) 195
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.