RchiOBHm_Chr1g0373311

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_chinensis
1
OG0006090
Physical Location & Seq
Forward (+)
61616841 .. 61618480
1640 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 696 bp
ATGGAGGCACTGATAGCATCTTACGGAGACACGTCGTCGGACTCAGACTCCGAGTCGTCGCCGGCGCCACCGTCGGAGCAGAAAACGTCTCAAGAATCAACTCCTGTTCTTCCTCCGCCTCCGCTCTCACTTCTCGGCACCCCCAATTCATTAGGATTTCTGGACTACTTGCCGAGCGCTCAGCCCAGCAGAGTTAGGAACTTCCCTCATATAGAAGGAAACTACGCTCTACATGTCTATATCCCAGTGTATATACCGGCGGCGCCGAGGAAGGAGATGGCATTGTTTATGAGGAGACTGTCATCTGTTGTGCCTGGTCTCCATGCTGTGGACGTTGATGTGCCGCTTGACGTTTTGTGCAAAGATGAACAAAAGCTTGAACAGGTTGGGTTAGGGAGAGAGTTTCATATAAGCCTGGGGAGGACTGTGCCGATCAGGGTGCACCAGATTGACTCATTGGTGGCAATGCTGAAGCAGAAGCTTCAGACTCAGAGGCGTTATTGGATTGATTTTAGCAAGTGGGAGGTTTTTGTTAACGATGATCATACACGCACCTTTGTATCAGTGGAAGTTATTACTGCTGGATTAGCTGAGATAACAAAGCAGATTCAAGCTGTCAATGAGGTGTATAAGCTTCACAATCTCCCTGAGTTTTACAAGTCGCTTGGGCATTGGGTGACACCAGGGAATCCCTAA
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

231

Amino Acids

25.85

Weight (kDa)

5.89

Isoelectric Point (pI)

52.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 55 - 220 4.8e-41 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 3 cut(s) 64, 137, 262
AccB7I CCANNNNNTGG 1 cut(s) 328
AccBSI CCGCTC 1 cut(s) 124
AciI CCGC 4 cut(s) 116, 122, 260, 344
AcuI CTGAAG 2 cut(s) 467, 491
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
AjnI CCWGG 3 cut(s) 313, 414, 682
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
Aor51HI AGCGCT 1 cut(s) 178
ApaLI GTGCAC 1 cut(s) 440
AspLEI GCGC 3 cut(s) 67, 179, 265
AsuHPI GGTGA 1 cut(s) 688
BaeGI GKGCMC 1 cut(s) 444
BaeI ACNNNNGTAYC 2 cut(s) 543, 576
BanI GGYRCC 3 cut(s) 64, 137, 262
Bbv12I GWGCWC 1 cut(s) 444
BccI CCATC 1 cut(s) 271
BcgI CGANNNNNNTGC 2 cut(s) 421, 455
BciT130I CCWGG 3 cut(s) 315, 416, 684
BclI TGATCA 1 cut(s) 541
BcoDI GTCTC 4 cut(s) 21, 93, 289, 323
BfoI RGCGCY 3 cut(s) 68, 180, 266
BisI GCNGC 2 cut(s) 261, 344
BlpI GCTNAGC 1 cut(s) 180
BlsI GCNGC 2 cut(s) 262, 345
Bme1390I CCNGG 3 cut(s) 315, 416, 684
BmeRI GACNNNNNGTC 2 cut(s) 34, 52
BmgBI CACGTC 1 cut(s) 33
BmiI GGNNCC 3 cut(s) 66, 139, 264
BmrFI CCNGG 3 cut(s) 315, 416, 684
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
BsaHI GRCGYC 2 cut(s) 65, 263
BsaI GGTCTC 1 cut(s) 323
BsaJI CCNNGG 3 cut(s) 266, 415, 683
BsaXI ACNNNNNCTCC 2 cut(s) 32, 62
Bsc4I CCNNNNNNNGG 1 cut(s) 328
Bse118I RCCGGY 2 cut(s) 61, 256
Bse1I ACTGG 1 cut(s) 245
Bse3DI GCAATG 1 cut(s) 471
BseBI CCWGG 3 cut(s) 315, 416, 684
BseDI CCNNGG 3 cut(s) 266, 415, 683
BseLI CCNNNNNNNGG 1 cut(s) 328
BseMI GCAATG 1 cut(s) 471
BseMII CTCAG 5 cut(s) 57, 194, 503, 582, 639
BseNI ACTGG 1 cut(s) 245
BseRI GAGGAG 1 cut(s) 307
BseSI GKGCMC 1 cut(s) 444
BseYI CCCAGC 1 cut(s) 185
BshNI GGYRCC 3 cut(s) 64, 137, 262
BsiHKAI GWGCWC 1 cut(s) 444
BsiSI CCGG 2 cut(s) 62, 257
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 4 cut(s) 116, 122, 260, 344
BspCNI CTCAG 5 cut(s) 56, 193, 502, 583, 640
BspLI GGNNCC 3 cut(s) 66, 139, 264
BspT107I GGYRCC 3 cut(s) 64, 137, 262
BspTNI GGTCTC 1 cut(s) 323
BsrBI CCGCTC 1 cut(s) 124
BsrDI GCAATG 1 cut(s) 471
BsrFI RCCGGY 2 cut(s) 61, 256
BsrI ACTGG 1 cut(s) 245
BssAI RCCGGY 2 cut(s) 61, 256
BssECI CCNNGG 3 cut(s) 266, 415, 683
BssMI GATC 2 cut(s) 432, 541
BssNI GRCGYC 2 cut(s) 65, 263
Bst2UI CCWGG 3 cut(s) 315, 416, 684
Bst4CI ACNGT 3 cut(s) 72, 300, 427
BstACI GRCGYC 2 cut(s) 65, 263
BstC8I GCNNGC 1 cut(s) 63
BstDEI CTNAG 5 cut(s) 43, 180, 489, 591, 648
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 2 cut(s) 14, 587
BstNI CCWGG 3 cut(s) 315, 416, 684
BstNSI RCATGY 1 cut(s) 236
BstSCI CCNGG 3 cut(s) 313, 414, 682
BstSLI GKGCMC 1 cut(s) 444
BtrI CACGTC 1 cut(s) 33
BtsIMutI CAGTG 3 cut(s) 8, 252, 570
Cac8I GCNNGC 1 cut(s) 63
CfoI GCGC 3 cut(s) 67, 179, 265
Cfr10I RCCGGY 2 cut(s) 61, 256
CviAII CATG 2 cut(s) 233, 323
CviJI RGCY 7 cut(s) 184, 376, 414, 481, 590, 614, 634
CviKI_1 RGCY 7 cut(s) 184, 376, 414, 481, 590, 614, 634
DdeI CTNAG 5 cut(s) 43, 180, 489, 591, 648
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 2 cut(s) 467, 491
EcoRII CCWGG 3 cut(s) 313, 414, 682
EgeI GGCGCC 2 cut(s) 66, 264
EheI GGCGCC 2 cut(s) 66, 264
Esp3I CGTCTC 1 cut(s) 93
FaeI CATG 2 cut(s) 236, 326
FatI CATG 2 cut(s) 232, 322
FbaI TGATCA 1 cut(s) 541
Fnu4HI GCNGC 2 cut(s) 261, 344
Fsp4HI GCNGC 2 cut(s) 261, 344
GlaI GCGC 3 cut(s) 66, 178, 264
GluI GCNGC 2 cut(s) 261, 344
GsaI CCCAGC 1 cut(s) 189
HaeII RGCGCY 3 cut(s) 68, 180, 266
HapII CCGG 2 cut(s) 62, 257
HhaI GCGC 3 cut(s) 67, 179, 265
Hin1I GRCGYC 2 cut(s) 65, 263
Hin1II CATG 2 cut(s) 236, 326
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 8 cut(s) 41, 47, 53, 95, 452, 487, 607, 688
HpaI GTTAAC 1 cut(s) 535
HpaII CCGG 2 cut(s) 62, 257
HphI GGTGA 1 cut(s) 688
Hpy166II GTNNAC 3 cut(s) 331, 442, 535
Hpy188I TCNGA 6 cut(s) 40, 46, 52, 76, 486, 492
Hpy188III TCNNGA 2 cut(s) 92, 161
Hpy8I GTNNAC 3 cut(s) 331, 442, 535
Hpy99I CGWCG 4 cut(s) 37, 40, 61, 76
HpyAV CCTTC 2 cut(s) 209, 265
HpyCH4III ACNGT 3 cut(s) 72, 300, 427
HpyCH4IV ACGT 4 cut(s) 32, 86, 333, 351
HpyCH4V TGCA 2 cut(s) 360, 442
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 587
HpyF3I CTNAG 5 cut(s) 43, 180, 489, 591, 648
HpySE526I ACGT 4 cut(s) 32, 86, 333, 351
Hsp92I GRCGYC 2 cut(s) 65, 263
Hsp92II CATG 2 cut(s) 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 2 cut(s) 432, 541
LmnI GCTCC 1 cut(s) 76
LweI GCATC 1 cut(s) 26
MaeII ACGT 4 cut(s) 32, 86, 333, 351
MaeIII GTNAC 1 cut(s) 676
MalI GATC 2 cut(s) 434, 543
MbiI CCGCTC 1 cut(s) 124
MboI GATC 2 cut(s) 432, 541
MboII GAAGA 1 cut(s) 101
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
MnlI CCTC 9 cut(s) 123, 129, 216, 261, 285, 414, 486, 517, 616
MreI CGCCGGCG 1 cut(s) 61
MroNI GCCGGC 1 cut(s) 61
MseI TTAA 1 cut(s) 534
MspI CCGG 2 cut(s) 62, 257
MspR9I CCNGG 3 cut(s) 315, 416, 684
MvaI CCWGG 3 cut(s) 315, 416, 684
MwoI GCNNNNNNNGC 2 cut(s) 14, 587
NaeI GCCGGC 1 cut(s) 63
NarI GGCGCC 2 cut(s) 65, 263
NdeII GATC 2 cut(s) 432, 541
NgoMIV GCCGGC 1 cut(s) 61
NlaIII CATG 2 cut(s) 236, 326
NlaIV GGNNCC 3 cut(s) 66, 139, 264
NmeAIII GCCGAG 3 cut(s) 114, 198, 291
NmuCI GTSAC 1 cut(s) 676
NspI RCATGY 1 cut(s) 236
PciI ACATGT 1 cut(s) 232
PdiI GCCGGC 1 cut(s) 63
PfeI GAWTC 3 cut(s) 95, 607, 688
PflMI CCANNNNNTGG 1 cut(s) 328
PkrI GCNGC 2 cut(s) 262, 345
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 3 cut(s) 313, 414, 682
PspFI CCCAGC 1 cut(s) 185
PspGI CCWGG 3 cut(s) 313, 414, 682
PspN4I GGNNCC 3 cut(s) 66, 139, 264
SaqAI TTAA 1 cut(s) 534
SatI GCNGC 2 cut(s) 261, 344
Sau3AI GATC 2 cut(s) 432, 541
SchI GAGTC 5 cut(s) 35, 41, 62, 446, 481
ScrFI CCNGG 3 cut(s) 315, 416, 684
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 1 cut(s) 145
SsiI CCGC 4 cut(s) 116, 122, 260, 344
SspDI GGCGCC 2 cut(s) 64, 262
StyD4I CCNGG 3 cut(s) 313, 414, 682
TaaI ACNGT 3 cut(s) 72, 300, 427
TaiI ACGT 4 cut(s) 35, 89, 336, 354
TasI AATT 1 cut(s) 145
TauI GCSGC 2 cut(s) 263, 346
TfiI GAWTC 3 cut(s) 95, 607, 688
Tru1I TTAA 1 cut(s) 534
Tru9I TTAA 1 cut(s) 534
TscAI CASTG 3 cut(s) 15, 252, 570
TseFI GTSAC 1 cut(s) 676
Tsp45I GTSAC 1 cut(s) 676
TspDTI ATGAA 3 cut(s) 138, 381, 395
TspGWI ACGGA 1 cut(s) 39
TspRI CASTG 3 cut(s) 15, 252, 570
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.