Rw5G041300

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_wichuraiana
Chr5
OG0006090
Physical Location & Seq
Reverse (-)
72687200 .. 72688969
1770 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G041300.1

Sequence Viewer

Length: 720 bp
ATGGAGGCACTGATAGCATCTTACGGAGACACGTCGTCGGACTCAGACTCCGAGTCGTCGCCGGCGCCACCGTCGGAGCTGAAAACGTCTCAAGAATCAACCCCTGTTCTTCCTCCGCCTCCTCTCTCACTTCTCGACACCCCCAATTCATTAGGATTTCTGGACTACTTGCCGAGCGCTCAGCCCAGCAGAGTTAGGAACTTCCCTCATATAGAAATAAACTACGCTCTACATGTCTATATCCCAGTGTATATACCGGCGGCGCCGAGGAAGGAGATGGCATTGTTTATGAGGAGACTGTCATCTGTTGTGTCTGGTCTCCATGTTGTGGACGTTGATGTGCCACTTGATGTTTTGTGCAAAGATGAACAAAAGCTTGAACAGGTTGGTTTAGGGAGGAAGTTTCATATAAGTCTGGGGAGGACTGTGCCGATCCGGGTGCACCAGATTGACTCATTGGTGGCAATGCTGAAGCTGAAGCTTCAGACTCAGAGGCGTTATTGGATTGATTTTAGCAAGTGGGAGGTTTTTGTTAACGATGATCATACTCGCACCTTTGTATCAGTAGAAGTTATTACTACTGGATTAGCTGAGATAACAAAGCAGTTTCAAGCTGTCAATGAGGTGTATAAGCTTCACAATCTCCCTGAGTTTTACAAGGAAGCAAGTGCAATGTCTTGGAAAGTATCTAAGCATGAGTTTAATTTTGTGCTGCTTTAA
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

239

Amino Acids

27.08

Weight (kDa)

6.06

Isoelectric Point (pI)

49.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 38 - 221 8.1e-39 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
AciI CCGC 2 cut(s) 116, 260
AclWI GGATC 1 cut(s) 427
AcuI CTGAAG 3 cut(s) 467, 491, 497
AcyI GRCGYC 2 cut(s) 65, 263
AfeI AGCGCT 1 cut(s) 178
AfiI CCNNNNNNNGG 1 cut(s) 328
AflIII ACRYGT 2 cut(s) 30, 232
AgsI TTSAA 2 cut(s) 380, 611
AhdI GACNNNNNGTC 2 cut(s) 34, 52
AjiI CACGTC 1 cut(s) 33
AluBI AGCT 7 cut(s) 79, 376, 475, 481, 590, 614, 634
AluI AGCT 7 cut(s) 79, 376, 475, 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 1 cut(s) 427
Aor51HI AGCGCT 1 cut(s) 178
ApaLI GTGCAC 1 cut(s) 440
ApeKI GCWGC 1 cut(s) 712
AspLEI GCGC 3 cut(s) 67, 179, 265
AsuC2I CCSGG 1 cut(s) 437
BaeGI GKGCMC 1 cut(s) 444
BaeI ACNNNNGTAYC 2 cut(s) 543, 576
BanI GGYRCC 2 cut(s) 64, 262
Bbv12I GWGCWC 1 cut(s) 444
BbvI GCAGC 1 cut(s) 699
BccI CCATC 1 cut(s) 271
BcgI CGANNNNNNTGC 2 cut(s) 421, 455
BclI TGATCA 1 cut(s) 541
BcnI CCSGG 1 cut(s) 437
BcoDI GTCTC 4 cut(s) 21, 93, 289, 323
BfoI RGCGCY 3 cut(s) 68, 180, 266
BisI GCNGC 2 cut(s) 261, 713
BlpI GCTNAGC 1 cut(s) 180
BlsI GCNGC 2 cut(s) 262, 714
Bme1390I CCNGG 1 cut(s) 437
BmeRI GACNNNNNGTC 2 cut(s) 34, 52
BmgBI CACGTC 1 cut(s) 33
BmiI GGNNCC 2 cut(s) 66, 264
BmrFI CCNGG 1 cut(s) 437
BmrI ACTGGG 1 cut(s) 239
BmsI GCATC 1 cut(s) 26
BmuI ACTGGG 1 cut(s) 239
Bpu1102I GCTNAGC 1 cut(s) 180
BpuEI CTTGAG 1 cut(s) 75
BpuMI CCSGG 1 cut(s) 437
BsaHI GRCGYC 2 cut(s) 65, 263
BsaI GGTCTC 1 cut(s) 323
BsaJI CCNNGG 1 cut(s) 266
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, 586
Bse3DI GCAATG 2 cut(s) 471, 678
BseDI CCNNGG 1 cut(s) 266
BseLI CCNNNNNNNGG 1 cut(s) 328
BseMI GCAATG 2 cut(s) 471, 678
BseMII CTCAG 5 cut(s) 57, 194, 503, 582, 639
BseNI ACTGG 2 cut(s) 245, 586
BseRI GAGGAG 2 cut(s) 111, 307
BseSI GKGCMC 1 cut(s) 444
BseXI GCAGC 1 cut(s) 699
BseYI CCCAGC 1 cut(s) 185
BshNI GGYRCC 2 cut(s) 64, 262
BsiHKAI GWGCWC 1 cut(s) 444
BsiSI CCGG 3 cut(s) 62, 257, 436
BslI CCNNNNNNNGG 1 cut(s) 328
BsmAI GTCTC 4 cut(s) 21, 93, 289, 323
BsmBI CGTCTC 1 cut(s) 93
Bso31I GGTCTC 1 cut(s) 323
Bsp1286I GDGCHC 1 cut(s) 444
Bsp143I GATC 2 cut(s) 432, 541
Bsp1720I GCTNAGC 1 cut(s) 180
BspACI CCGC 2 cut(s) 116, 260
BspCNI CTCAG 5 cut(s) 56, 193, 502, 583, 640
BspLI GGNNCC 2 cut(s) 66, 264
BspPI GGATC 1 cut(s) 427
BspT107I GGYRCC 2 cut(s) 64, 262
BspTNI GGTCTC 1 cut(s) 323
BsrDI GCAATG 2 cut(s) 471, 678
BsrFI RCCGGY 2 cut(s) 61, 256
BsrI ACTGG 2 cut(s) 245, 586
BssAI RCCGGY 2 cut(s) 61, 256
BssECI CCNNGG 1 cut(s) 266
BssMI GATC 2 cut(s) 432, 541
BssNI GRCGYC 2 cut(s) 65, 263
Bst4CI ACNGT 3 cut(s) 72, 300, 427
BstACI GRCGYC 2 cut(s) 65, 263
BstC8I GCNNGC 1 cut(s) 63
BstDEI CTNAG 6 cut(s) 43, 180, 489, 591, 648, 690
BstH2I RGCGCY 3 cut(s) 68, 180, 266
BstHHI GCGC 3 cut(s) 67, 179, 265
BstKTI GATC 2 cut(s) 435, 544
BstMAI GTCTC 4 cut(s) 21, 93, 289, 323
BstMBI GATC 2 cut(s) 432, 541
BstMWI GCNNNNNNNGC 1 cut(s) 14
BstNSI RCATGY 1 cut(s) 236
BstSCI CCNGG 1 cut(s) 435
BstSLI GKGCMC 1 cut(s) 444
BstV1I GCAGC 1 cut(s) 699
BtrI CACGTC 1 cut(s) 33
BtsIMutI CAGTG 2 cut(s) 8, 252
Cac8I GCNNGC 1 cut(s) 63
CfoI GCGC 3 cut(s) 67, 179, 265
Cfr10I RCCGGY 2 cut(s) 61, 256
CviAII CATG 3 cut(s) 233, 323, 695
CviJI RGCY 8 cut(s) 79, 184, 376, 475, 481, 590, 614, 634
CviKI_1 RGCY 8 cut(s) 79, 184, 376, 475, 481, 590, 614, 634
DdeI CTNAG 6 cut(s) 43, 180, 489, 591, 648, 690
DinI GGCGCC 2 cut(s) 66, 264
DpnI GATC 2 cut(s) 434, 543
DpnII GATC 2 cut(s) 432, 541
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 3 cut(s) 467, 491, 497
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) 236, 326, 698
FatI CATG 3 cut(s) 232, 322, 694
FbaI TGATCA 1 cut(s) 541
Fnu4HI GCNGC 2 cut(s) 261, 713
Fsp4HI GCNGC 2 cut(s) 261, 713
GlaI GCGC 3 cut(s) 66, 178, 264
GluI GCNGC 2 cut(s) 261, 713
GsaI CCCAGC 1 cut(s) 189
HaeII RGCGCY 3 cut(s) 68, 180, 266
HapII CCGG 3 cut(s) 62, 257, 436
HhaI GCGC 3 cut(s) 67, 179, 265
Hin1I GRCGYC 2 cut(s) 65, 263
Hin1II CATG 3 cut(s) 236, 326, 698
Hin6I GCGC 3 cut(s) 65, 177, 263
HinP1I GCGC 3 cut(s) 65, 177, 263
HincII GTYRAC 1 cut(s) 535
HindII GTYRAC 1 cut(s) 535
HindIII AAGCTT 3 cut(s) 374, 479, 632
HinfI GANTC 6 cut(s) 41, 47, 53, 95, 452, 487
HpaI GTTAAC 1 cut(s) 535
HpaII CCGG 3 cut(s) 62, 257, 436
Hpy166II GTNNAC 3 cut(s) 331, 442, 535
Hpy188I TCNGA 6 cut(s) 40, 46, 52, 76, 486, 492
Hpy188III TCNNGA 3 cut(s) 92, 134, 161
Hpy8I GTNNAC 3 cut(s) 331, 442, 535
Hpy99I CGWCG 4 cut(s) 37, 40, 61, 76
HpyAV CCTTC 1 cut(s) 265
HpyCH4III ACNGT 3 cut(s) 72, 300, 427
HpyCH4IV ACGT 3 cut(s) 32, 86, 333
HpyCH4V TGCA 3 cut(s) 360, 442, 671
HpyF10VI GCNNNNNNNGC 1 cut(s) 14
HpyF3I CTNAG 6 cut(s) 43, 180, 489, 591, 648, 690
HpySE526I ACGT 3 cut(s) 32, 86, 333
Hsp92I GRCGYC 2 cut(s) 65, 263
Hsp92II CATG 3 cut(s) 236, 326, 698
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 2 cut(s) 432, 541
LmnI GCTCC 1 cut(s) 76
Lsp1109I GCAGC 1 cut(s) 699
LweI GCATC 1 cut(s) 26
MaeII ACGT 3 cut(s) 32, 86, 333
MalI GATC 2 cut(s) 434, 543
MboI GATC 2 cut(s) 432, 541
MboII GAAGA 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 444
MluCI AATT 2 cut(s) 145, 703
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 3 cut(s) 534, 702, 718
MspI CCGG 3 cut(s) 62, 257, 436
MspR9I CCNGG 1 cut(s) 437
MwoI GCNNNNNNNGC 1 cut(s) 14
NaeI GCCGGC 1 cut(s) 63
NarI GGCGCC 2 cut(s) 65, 263
NciI CCSGG 1 cut(s) 437
NdeII GATC 2 cut(s) 432, 541
NgoMIV GCCGGC 1 cut(s) 61
NlaIII CATG 3 cut(s) 236, 326, 698
NlaIV GGNNCC 2 cut(s) 66, 264
NmeAIII GCCGAG 2 cut(s) 198, 291
NspI RCATGY 1 cut(s) 236
PciI ACATGT 1 cut(s) 232
PdiI GCCGGC 1 cut(s) 63
PfeI GAWTC 1 cut(s) 95
PflMI CCANNNNNTGG 1 cut(s) 328
PkrI GCNGC 2 cut(s) 262, 714
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
PspFI CCCAGC 1 cut(s) 185
PspN4I GGNNCC 2 cut(s) 66, 264
SaqAI TTAA 3 cut(s) 534, 702, 718
SatI GCNGC 2 cut(s) 261, 713
Sau3AI GATC 2 cut(s) 432, 541
SchI GAGTC 5 cut(s) 35, 41, 62, 446, 481
ScrFI CCNGG 1 cut(s) 437
SduI GDGCHC 1 cut(s) 444
SfaNI GCATC 1 cut(s) 26
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 2 cut(s) 145, 703
SsiI CCGC 2 cut(s) 116, 260
SspDI GGCGCC 2 cut(s) 64, 262
StyD4I CCNGG 1 cut(s) 435
TaaI ACNGT 3 cut(s) 72, 300, 427
TaiI ACGT 3 cut(s) 35, 89, 336
TaqI TCGA 1 cut(s) 135
TasI AATT 2 cut(s) 145, 703
TauI GCSGC 1 cut(s) 263
TfiI GAWTC 1 cut(s) 95
Tru1I TTAA 3 cut(s) 534, 702, 718
Tru9I TTAA 3 cut(s) 534, 702, 718
TscAI CASTG 2 cut(s) 15, 252
TseI GCWGC 1 cut(s) 712
TspDTI ATGAA 3 cut(s) 138, 381, 395
TspGWI ACGGA 1 cut(s) 39
TspRI CASTG 2 cut(s) 15, 252
Van91I CCANNNNNTGG 1 cut(s) 328
VneI GTGCAC 1 cut(s) 440
XceI RCATGY 1 cut(s) 236
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.