RLG00000026828

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_laevigata
Chr6
OG0006090
Physical Location & Seq
Reverse (-)
6322210 .. 6324021
1812 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000026828

Sequence Viewer

Length: 831 bp
ATGGAGGCACTGATAGCATCTTACGGAGACACGTCGTCGGACTCAGACTCCGAGTCGTCGCCGGCGCCACCGTCGGAGCAGAAAACGTCTCAAGAATCAACCCCTGTTCTTCCTCCGCCTCCTCTCTCACTTCTCGACACCCCCAATTCATTAGGATTTCTGGACTACTTGCCGAGCGCTCAGCCCAGCAGAGTTAGGAACTTCCCTCATGTTGAAGGAAACTATGCTCTACATGTCTATATTCCAGTTTATATACCGGCGGCGCCGAGGAAAGAGATGGCATTGTTTATGAGGAGACTGTCATCTGTTGTGCCTGGTCTCCATGCTGTGGACGTTGATGTGCCACTTGATGTTTTGAGCAAAGATGAACAAAAGCTTGAACAGGTTGGTTTAGGGAGGGAGTTTCATATAAGTCTGGGGAGGACTGTGCCGATCCGGGTGCACCAGATTGACTCATTGGTGACAATGCTGAAGCAGAAGCTTCAGACTCTGAGGCGTTATTGGATTGATTTTAGCAAGTGGGAGGTGTTTGTTAACGATGATCATACACGCACCTTTGTATCAGTGGAAGTTATTACTGCTGGATTAGCTGAGATAACAAAGCAGATTCAAGCTGTCAATGAGGTGTATAAGCTTCACAATCTCCCTGAGTTTTACAAGGATCCGCGTCCCCATATATCAGTCGCTTGGGCATTGGGTGACACCAGGGAATCCCTAAAGAAAGTGGTTGAAGATGAAAGAAGAAAATCTACAGTTGGGGGGTCATTGCAGAAATGTATTTTTACCAGTAGATTCAGTGGCATAGACTGTTGTGTGTACCGGGTTGACTAG
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

277

Amino Acids

31.05

Weight (kDa)

6.08

Isoelectric Point (pI)

47.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 38 - 270 4.4e-52 Uncharacterised conserved protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 64, 262
AccB7I CCANNNNNTGG 1 cut(s) 328
AccII CGCG 1 cut(s) 667
AciI CCGC 3 cut(s) 116, 260, 665
AclWI GGATC 3 cut(s) 427, 656, 669
AcuI CTGAAG 2 cut(s) 467, 491
AcyI GRCGYC 2 cut(s) 65, 263
AfaI GTAC 1 cut(s) 818
AfeI AGCGCT 1 cut(s) 178
AfiI CCNNNNNNNGG 1 cut(s) 328
AflIII ACRYGT 2 cut(s) 30, 232
AgsI TTSAA 4 cut(s) 215, 380, 611, 731
AhdI GACNNNNNGTC 2 cut(s) 34, 52
AjiI CACGTC 1 cut(s) 33
AjnI CCWGG 2 cut(s) 313, 704
AluBI AGCT 5 cut(s) 376, 481, 590, 614, 634
AluI AGCT 5 cut(s) 376, 481, 590, 614, 634
Alw21I GWGCWC 1 cut(s) 444
Alw26I GTCTC 4 cut(s) 21, 93, 289, 323
Alw44I GTGCAC 1 cut(s) 440
AlwI GGATC 3 cut(s) 427, 656, 669
AlwNI CAGNNNCTG 1 cut(s) 490
Aor51HI AGCGCT 1 cut(s) 178
ApaLI GTGCAC 1 cut(s) 440
AspLEI GCGC 3 cut(s) 67, 179, 265
AsuC2I CCSGG 2 cut(s) 437, 821
AsuHPI GGTGA 2 cut(s) 472, 710
BaeGI GKGCMC 1 cut(s) 444
BaeI ACNNNNGTAYC 2 cut(s) 543, 576
BamHI GGATCC 1 cut(s) 661
BanI GGYRCC 2 cut(s) 64, 262
BarI GAAGNNNNNNTAC 2 cut(s) 733, 765
Bbv12I GWGCWC 1 cut(s) 444
BccI CCATC 1 cut(s) 271
BcgI CGANNNNNNTGC 2 cut(s) 421, 455
BciT130I CCWGG 2 cut(s) 315, 706
BclI TGATCA 1 cut(s) 541
BcnI CCSGG 2 cut(s) 437, 821
BcoDI GTCTC 4 cut(s) 21, 93, 289, 323
BfaI CTAG 1 cut(s) 829
BfmI CTRYAG 1 cut(s) 750
BfoI RGCGCY 3 cut(s) 68, 180, 266
BisI GCNGC 1 cut(s) 261
BlpI GCTNAGC 1 cut(s) 180
BlsI GCNGC 1 cut(s) 262
Bme1390I CCNGG 4 cut(s) 315, 437, 706, 821
BmeRI GACNNNNNGTC 2 cut(s) 34, 52
BmgBI CACGTC 1 cut(s) 33
BmiI GGNNCC 3 cut(s) 66, 264, 663
BmrFI CCNGG 4 cut(s) 315, 437, 706, 821
BmsI GCATC 1 cut(s) 26
Bpu1102I GCTNAGC 1 cut(s) 180
BpuEI CTTGAG 1 cut(s) 75
BpuMI CCSGG 2 cut(s) 437, 821
BsaHI GRCGYC 2 cut(s) 65, 263
BsaI GGTCTC 1 cut(s) 323
BsaJI CCNNGG 2 cut(s) 266, 705
BsaXI ACNNNNNCTCC 2 cut(s) 32, 62
Bsc4I CCNNNNNNNGG 1 cut(s) 328
Bse118I RCCGGY 2 cut(s) 61, 256
Bse1I ACTGG 2 cut(s) 245, 786
Bse3DI GCAATG 1 cut(s) 764
BseBI CCWGG 2 cut(s) 315, 706
BseDI CCNNGG 2 cut(s) 266, 705
BseLI CCNNNNNNNGG 1 cut(s) 328
BseMI GCAATG 1 cut(s) 764
BseMII CTCAG 5 cut(s) 57, 194, 482, 582, 639
BseNI ACTGG 2 cut(s) 245, 786
BseRI GAGGAG 2 cut(s) 111, 307
BseSI GKGCMC 1 cut(s) 444
BseYI CCCAGC 1 cut(s) 185
Bsh1236I CGCG 1 cut(s) 667
BshNI GGYRCC 2 cut(s) 64, 262
BsiHKAI GWGCWC 1 cut(s) 444
BsiSI CCGG 4 cut(s) 62, 257, 436, 820
BslFI GGGAC 1 cut(s) 654
BslI CCNNNNNNNGG 1 cut(s) 328
BsmAI GTCTC 4 cut(s) 21, 93, 289, 323
BsmBI CGTCTC 1 cut(s) 93
BsmFI GGGAC 1 cut(s) 654
Bso31I GGTCTC 1 cut(s) 323
Bsp1286I GDGCHC 1 cut(s) 444
Bsp143I GATC 3 cut(s) 432, 541, 661
Bsp1720I GCTNAGC 1 cut(s) 180
BspACI CCGC 3 cut(s) 116, 260, 665
BspCNI CTCAG 5 cut(s) 56, 193, 483, 583, 640
BspFNI CGCG 1 cut(s) 667
BspLI GGNNCC 3 cut(s) 66, 264, 663
BspPI GGATC 3 cut(s) 427, 656, 669
BspT107I GGYRCC 2 cut(s) 64, 262
BspTNI GGTCTC 1 cut(s) 323
BsrDI GCAATG 1 cut(s) 764
BsrFI RCCGGY 2 cut(s) 61, 256
BsrI ACTGG 2 cut(s) 245, 786
BssAI RCCGGY 2 cut(s) 61, 256
BssECI CCNNGG 2 cut(s) 266, 705
BssMI GATC 3 cut(s) 432, 541, 661
BssNI GRCGYC 2 cut(s) 65, 263
Bst2UI CCWGG 2 cut(s) 315, 706
Bst4CI ACNGT 5 cut(s) 72, 300, 427, 754, 809
BstACI GRCGYC 2 cut(s) 65, 263
BstC8I GCNNGC 1 cut(s) 63
BstDEI CTNAG 5 cut(s) 43, 180, 491, 591, 648
BstFNI CGCG 1 cut(s) 667
BstH2I RGCGCY 3 cut(s) 68, 180, 266
BstHHI GCGC 3 cut(s) 67, 179, 265
BstKTI GATC 3 cut(s) 435, 544, 664
BstMAI GTCTC 4 cut(s) 21, 93, 289, 323
BstMBI GATC 3 cut(s) 432, 541, 661
BstMWI GCNNNNNNNGC 2 cut(s) 14, 587
BstNI CCWGG 2 cut(s) 315, 706
BstNSI RCATGY 1 cut(s) 236
BstSCI CCNGG 4 cut(s) 313, 435, 704, 819
BstSFI CTRYAG 1 cut(s) 750
BstSLI GKGCMC 1 cut(s) 444
BstUI CGCG 1 cut(s) 667
BstX2I RGATCY 1 cut(s) 661
BstYI RGATCY 1 cut(s) 661
BtrI CACGTC 1 cut(s) 33
BtsIMutI CAGTG 3 cut(s) 8, 570, 802
Cac8I GCNNGC 1 cut(s) 63
CaiI CAGNNNCTG 1 cut(s) 490
CfoI GCGC 3 cut(s) 67, 179, 265
Cfr10I RCCGGY 2 cut(s) 61, 256
CseI GACGC 1 cut(s) 656
Csp6I GTAC 1 cut(s) 817
CviAII CATG 3 cut(s) 209, 233, 323
CviJI RGCY 6 cut(s) 184, 376, 481, 590, 614, 634
CviKI_1 RGCY 6 cut(s) 184, 376, 481, 590, 614, 634
CviQI GTAC 1 cut(s) 817
DdeI CTNAG 5 cut(s) 43, 180, 491, 591, 648
DinI GGCGCC 2 cut(s) 66, 264
DpnI GATC 3 cut(s) 434, 543, 663
DpnII GATC 3 cut(s) 432, 541, 661
DriI GACNNNNNGTC 2 cut(s) 34, 52
Eam1105I GACNNNNNGTC 2 cut(s) 34, 52
EciI GGCGGA 1 cut(s) 105
Eco31I GGTCTC 1 cut(s) 323
Eco47III AGCGCT 1 cut(s) 178
Eco57I CTGAAG 2 cut(s) 467, 491
EcoRII CCWGG 2 cut(s) 313, 704
EgeI GGCGCC 2 cut(s) 66, 264
EheI GGCGCC 2 cut(s) 66, 264
Esp3I CGTCTC 1 cut(s) 93
FaeI CATG 3 cut(s) 212, 236, 326
FaqI GGGAC 1 cut(s) 654
FatI CATG 3 cut(s) 208, 232, 322
FbaI TGATCA 1 cut(s) 541
Fnu4HI GCNGC 1 cut(s) 261
Fsp4HI GCNGC 1 cut(s) 261
FspBI CTAG 1 cut(s) 829
GlaI GCGC 3 cut(s) 66, 178, 264
GluI GCNGC 1 cut(s) 261
GsaI CCCAGC 1 cut(s) 189
HaeII RGCGCY 3 cut(s) 68, 180, 266
HapII CCGG 4 cut(s) 62, 257, 436, 820
HgaI GACGC 1 cut(s) 656
HhaI GCGC 3 cut(s) 67, 179, 265
Hin1I GRCGYC 2 cut(s) 65, 263
Hin1II CATG 3 cut(s) 212, 236, 326
Hin6I GCGC 3 cut(s) 65, 177, 263
HinP1I GCGC 3 cut(s) 65, 177, 263
HincII GTYRAC 2 cut(s) 535, 826
HindII GTYRAC 2 cut(s) 535, 826
HindIII AAGCTT 3 cut(s) 374, 479, 632
HinfI GANTC 9 cut(s) 41, 47, 53, 95, 452, 487, 607, 710, 792
HpaI GTTAAC 1 cut(s) 535
HpaII CCGG 4 cut(s) 62, 257, 436, 820
HphI GGTGA 2 cut(s) 472, 710
Hpy166II GTNNAC 5 cut(s) 331, 442, 535, 817, 826
Hpy188I TCNGA 6 cut(s) 40, 46, 52, 76, 486, 492
Hpy188III TCNNGA 3 cut(s) 92, 134, 161
Hpy8I GTNNAC 5 cut(s) 331, 442, 535, 817, 826
Hpy99I CGWCG 4 cut(s) 37, 40, 61, 76
HpyAV CCTTC 1 cut(s) 209
HpyCH4III ACNGT 5 cut(s) 72, 300, 427, 754, 809
HpyCH4IV ACGT 3 cut(s) 32, 86, 333
HpyCH4V TGCA 2 cut(s) 442, 769
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 587
HpyF3I CTNAG 5 cut(s) 43, 180, 491, 591, 648
HpySE526I ACGT 3 cut(s) 32, 86, 333
Hsp92I GRCGYC 2 cut(s) 65, 263
Hsp92II CATG 3 cut(s) 212, 236, 326
HspAI GCGC 3 cut(s) 65, 177, 263
KasI GGCGCC 2 cut(s) 64, 262
KroI GCCGGC 1 cut(s) 61
KroNI GCCGGC 1 cut(s) 63
Ksp22I TGATCA 1 cut(s) 541
KspAI GTTAAC 1 cut(s) 535
Kzo9I GATC 3 cut(s) 432, 541, 661
LmnI GCTCC 1 cut(s) 76
LweI GCATC 1 cut(s) 26
MaeI CTAG 1 cut(s) 829
MaeII ACGT 3 cut(s) 32, 86, 333
MaeIII GTNAC 2 cut(s) 460, 698
MalI GATC 3 cut(s) 434, 543, 663
MboI GATC 3 cut(s) 432, 541, 661
MboII GAAGA 3 cut(s) 101, 743, 753
MflI RGATCY 1 cut(s) 661
MhlI GDGCHC 1 cut(s) 444
MluCI AATT 1 cut(s) 145
Mly113I GGCGCC 2 cut(s) 65, 263
MlyI GAGTC 5 cut(s) 35, 41, 62, 446, 481
MmeI TCCRAC 2 cut(s) 18, 54
MreI CGCCGGCG 1 cut(s) 61
MroNI GCCGGC 1 cut(s) 61
MseI TTAA 1 cut(s) 534
MspI CCGG 4 cut(s) 62, 257, 436, 820
MspR9I CCNGG 4 cut(s) 315, 437, 706, 821
MvaI CCWGG 2 cut(s) 315, 706
MvnI CGCG 1 cut(s) 667
MwoI GCNNNNNNNGC 2 cut(s) 14, 587
NaeI GCCGGC 1 cut(s) 63
NarI GGCGCC 2 cut(s) 65, 263
NciI CCSGG 2 cut(s) 437, 821
NdeII GATC 3 cut(s) 432, 541, 661
NgoMIV GCCGGC 1 cut(s) 61
NlaIII CATG 3 cut(s) 212, 236, 326
NlaIV GGNNCC 3 cut(s) 66, 264, 663
NmeAIII GCCGAG 2 cut(s) 198, 291
NmuCI GTSAC 2 cut(s) 460, 698
NspI RCATGY 1 cut(s) 236
PciI ACATGT 1 cut(s) 232
PdiI GCCGGC 1 cut(s) 63
PfeI GAWTC 4 cut(s) 95, 607, 710, 792
PflMI CCANNNNNTGG 1 cut(s) 328
PkrI GCNGC 1 cut(s) 262
PleI GAGTC 5 cut(s) 35, 41, 61, 446, 481
PluTI GGCGCC 2 cut(s) 68, 266
PpsI GAGTC 5 cut(s) 35, 41, 61, 446, 481
PscI ACATGT 1 cut(s) 232
Psp6I CCWGG 2 cut(s) 313, 704
PspFI CCCAGC 1 cut(s) 185
PspGI CCWGG 2 cut(s) 313, 704
PspN4I GGNNCC 3 cut(s) 66, 264, 663
PstNI CAGNNNCTG 1 cut(s) 490
PsuI RGATCY 1 cut(s) 661
RsaI GTAC 1 cut(s) 818
RsaNI GTAC 1 cut(s) 817
SaqAI TTAA 1 cut(s) 534
SatI GCNGC 1 cut(s) 261
Sau3AI GATC 3 cut(s) 432, 541, 661
SchI GAGTC 5 cut(s) 35, 41, 62, 446, 481
ScrFI CCNGG 4 cut(s) 315, 437, 706, 821
SduI GDGCHC 1 cut(s) 444
SfaNI GCATC 1 cut(s) 26
SfcI CTRYAG 1 cut(s) 750
SfoI GGCGCC 2 cut(s) 66, 264
SgrAI CRCCGGYG 1 cut(s) 61
SmlI CTYRAG 1 cut(s) 90
SmoI CTYRAG 1 cut(s) 90
Sse9I AATT 1 cut(s) 145
SsiI CCGC 3 cut(s) 116, 260, 665
SspDI GGCGCC 2 cut(s) 64, 262
SspMI CTAG 1 cut(s) 829
StyD4I CCNGG 4 cut(s) 313, 435, 704, 819
TaaI ACNGT 5 cut(s) 72, 300, 427, 754, 809
TaiI ACGT 3 cut(s) 35, 89, 336
TaqI TCGA 1 cut(s) 135
TasI AATT 1 cut(s) 145
TauI GCSGC 1 cut(s) 263
TfiI GAWTC 4 cut(s) 95, 607, 710, 792
Tru1I TTAA 1 cut(s) 534
Tru9I TTAA 1 cut(s) 534
TscAI CASTG 3 cut(s) 15, 570, 802
TseFI GTSAC 2 cut(s) 460, 698
Tsp45I GTSAC 2 cut(s) 460, 698
TspDTI ATGAA 4 cut(s) 138, 381, 395, 750
TspGWI ACGGA 1 cut(s) 39
TspRI CASTG 3 cut(s) 15, 570, 802
Van91I CCANNNNNTGG 1 cut(s) 328
VneI GTGCAC 1 cut(s) 440
XceI RCATGY 1 cut(s) 236
XspI CTAG 1 cut(s) 829
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.