MD07G1241800.v1.1

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
malus_domestica
Chr07
OG0006090
Physical Location & Seq
Forward (+)
31248047 .. 31250176
2130 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1241800.v1.1.491

Sequence Viewer

Length: 867 bp
ATGGAGGCCCTGATTGCCTCGTACGGAGACTCGTCGTCGGGCTCAGACTCCGAGTCGCCGGCTCCACCTCCACCACCACCTCGGGAGCTCAACAACCCTCAAGAACCGACCCCTGCGCTGCCTGCACCTCCTCTGTCACTTCTCGACAGCCCCAATTCCTTCGGATTTCTGGACTTCTCGGCAAGCGCCCAGCTGAGCAGAGTTAGGAACTTTCCTCACGTCGAAGGGAACTACGCAGTACATGTATACATCCCAGTTTATATACCATCAGCATCAAGGAAAGAGATGGCCTTGTTTTTGAACAAGCTAGCTTCTCTGGTGCCTGGTTTCCATGCCGTTGACGTCGACGTCCCGCTTGACATTCTGCGTAAGGACGAGCATAAGCTTGAACAAGTTGCTTTAAGCAGAGAGTTCCATATAAGTCTCGGACGAACTGTTCCGATTCGGGTGCACCAGATTGATTCCTTGGTGACAATGCTGCGGCAGAAGCTTCAGATTCAGAGGCGGTATTGGATTGATTTTAGCAAGTGGGAGGTTTTTGTTAACGATGATCAGACCCGGACCTTTGTGTCGATCGAAGTCATTGCTGCTGGGTTAGCTGAGATAACAAAGCAGATTCAAGCTGTGAATGAGGTGTATAAGCTTCACAATCTTCCTGAATTTTACAAGGATCCGCGCCCTCACATCTCGGTAGCTTGGGCATTGGGTGACATCAGCAATTCCCTGAAGAAAGTGGTTGAAGAAGAAAGACGAAGATCTACCATCGGAGGATCGTTACAGAAATGTATTTTTACCAGTAAATTCAATGGTATCGAATGTAGGATTGGTAATAAAACACACAAAATATGTAAATTTTCTGAACAATAA
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

289

Amino Acids

32.4

Weight (kDa)

7.13

Isoelectric Point (pI)

60.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 58 - 283 3.5e-57 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)
AasI GACNNNNNNGTC 2 cut(s) 347, 568
AatII GACGTC 2 cut(s) 345, 351
AccB1I GGYRCC 1 cut(s) 319
AccI GTMKAC 2 cut(s) 246, 345
AccII CGCG 1 cut(s) 676
AciI CCGC 4 cut(s) 353, 481, 505, 674
AclWI GGATC 3 cut(s) 665, 678, 778
AcsI RAATTY 3 cut(s) 659, 800, 851
AcuI CTGAAG 2 cut(s) 476, 746
AcyI GRCGYC 2 cut(s) 342, 348
AfaI GTAC 2 cut(s) 23, 240
AflIII ACRYGT 1 cut(s) 241
AgsI TTSAA 5 cut(s) 301, 389, 620, 740, 805
AhdI GACNNNNNGTC 2 cut(s) 34, 52
AjiI CACGTC 1 cut(s) 220
AjnI CCWGG 1 cut(s) 322
AjuI GAANNNNNNNTTGG 2 cut(s) 807, 839
AloI GAACNNNNNNTCC 2 cut(s) 420, 452
Alw21I GWGCWC 2 cut(s) 90, 453
Alw26I GTCTC 2 cut(s) 21, 428
Alw44I GTGCAC 1 cut(s) 449
AlwI GGATC 3 cut(s) 665, 678, 778
Ama87I CYCGRG 1 cut(s) 81
AoxI GGCC 2 cut(s) 6, 288
ApaLI GTGCAC 1 cut(s) 449
ApeKI GCWGC 3 cut(s) 118, 478, 587
ApoI RAATTY 3 cut(s) 659, 800, 851
AspLEI GCGC 3 cut(s) 118, 188, 678
AspS9I GGNCC 2 cut(s) 7, 561
AsuC2I CCSGG 1 cut(s) 559
AsuHPI GGTGA 2 cut(s) 481, 719
AsuNHI GCTAGC 1 cut(s) 307
AvaI CYCGRG 1 cut(s) 81
AvaII GGWCC 1 cut(s) 561
BaeGI GKGCMC 1 cut(s) 453
BamHI GGATCC 1 cut(s) 670
BanI GGYRCC 1 cut(s) 319
BanII GRGCYC 2 cut(s) 44, 90
Bbv12I GWGCWC 2 cut(s) 90, 453
BbvI GCAGC 3 cut(s) 105, 465, 574
BccI CCATC 3 cut(s) 274, 280, 770
BceAI ACGGC 1 cut(s) 320
BcgI CGANNNNNNTGC 4 cut(s) 430, 464, 566, 600
BciT130I CCWGG 1 cut(s) 324
BclI TGATCA 1 cut(s) 550
BcnI CCSGG 1 cut(s) 559
BcoDI GTCTC 2 cut(s) 21, 428
BfaI CTAG 1 cut(s) 308
BfoI RGCGCY 1 cut(s) 189
BglII AGATCT 1 cut(s) 755
BisI GCNGC 4 cut(s) 119, 479, 482, 588
BlpI GCTNAGC 1 cut(s) 194
BlsI GCNGC 4 cut(s) 120, 480, 483, 589
Bme1390I CCNGG 2 cut(s) 324, 559
Bme18I GGWCC 1 cut(s) 561
BmeRI GACNNNNNGTC 2 cut(s) 34, 52
BmeT110I CYCGRG 1 cut(s) 81
BmgBI CACGTC 1 cut(s) 220
BmgT120I GGNCC 2 cut(s) 7, 561
BmiI GGNNCC 3 cut(s) 63, 321, 672
BmrFI CCNGG 2 cut(s) 324, 559
BmrI ACTGGG 1 cut(s) 248
BmsI GCATC 1 cut(s) 281
BmtI GCTAGC 1 cut(s) 311
BmuI ACTGGG 1 cut(s) 248
Bpu1102I GCTNAGC 1 cut(s) 194
BpuEI CTTGAG 1 cut(s) 84
BpuMI CCSGG 1 cut(s) 559
BsaHI GRCGYC 2 cut(s) 342, 348
BsaJI CCNNGG 2 cut(s) 80, 465
Bse118I RCCGGY 1 cut(s) 58
Bse1I ACTGG 2 cut(s) 254, 795
Bse3DI GCAATG 1 cut(s) 582
BseBI CCWGG 1 cut(s) 324
BseDI CCNNGG 2 cut(s) 80, 465
BseGI GGATG 1 cut(s) 249
BseMI GCAATG 1 cut(s) 582
BseMII CTCAG 3 cut(s) 57, 185, 591
BseNI ACTGG 2 cut(s) 254, 795
BseRI GAGGAG 1 cut(s) 120
BseSI GKGCMC 1 cut(s) 453
BseXI GCAGC 3 cut(s) 105, 465, 574
BseYI CCCAGC 2 cut(s) 189, 590
BsgI GTGCAG 1 cut(s) 108
Bsh1236I CGCG 1 cut(s) 676
Bsh1285I CGRYCG 1 cut(s) 576
BshFI GGCC 2 cut(s) 8, 290
BshNI GGYRCC 1 cut(s) 319
BsiEI CGRYCG 1 cut(s) 576
BsiHKAI GWGCWC 2 cut(s) 90, 453
BsiHKCI CYCGRG 1 cut(s) 81
BsiSI CCGG 2 cut(s) 59, 559
BsiWI CGTACG 1 cut(s) 21
BslFI GGGAC 1 cut(s) 335
BsmAI GTCTC 2 cut(s) 21, 428
BsmFI GGGAC 1 cut(s) 335
BsnI GGCC 2 cut(s) 8, 290
BsoBI CYCGRG 1 cut(s) 81
Bsp1286I GDGCHC 3 cut(s) 44, 90, 453
Bsp143I GATC 5 cut(s) 550, 573, 670, 755, 770
Bsp1720I GCTNAGC 1 cut(s) 194
BspACI CCGC 4 cut(s) 353, 481, 505, 674
BspANI GGCC 2 cut(s) 8, 290
BspCNI CTCAG 3 cut(s) 56, 186, 592
BspFNI CGCG 1 cut(s) 676
BspLI GGNNCC 3 cut(s) 63, 321, 672
BspOI GCTAGC 1 cut(s) 311
BspPI GGATC 3 cut(s) 665, 678, 778
BspT107I GGYRCC 1 cut(s) 319
BsrDI GCAATG 1 cut(s) 582
BsrFI RCCGGY 1 cut(s) 58
BsrI ACTGG 2 cut(s) 254, 795
BssAI RCCGGY 1 cut(s) 58
BssECI CCNNGG 2 cut(s) 80, 465
BssMI GATC 5 cut(s) 550, 573, 670, 755, 770
BssNAI GTATAC 1 cut(s) 247
BssNI GRCGYC 2 cut(s) 342, 348
BssT1I CCWWGG 1 cut(s) 465
Bst1107I GTATAC 1 cut(s) 247
Bst2UI CCWGG 1 cut(s) 324
Bst4CI ACNGT 1 cut(s) 436
BstACI GRCGYC 2 cut(s) 342, 348
BstC8I GCNNGC 4 cut(s) 60, 123, 184, 309
BstDEI CTNAG 3 cut(s) 43, 194, 600
BstF5I GGATG 1 cut(s) 249
BstFNI CGCG 1 cut(s) 676
BstH2I RGCGCY 1 cut(s) 189
BstHHI GCGC 3 cut(s) 118, 188, 678
BstKTI GATC 5 cut(s) 553, 576, 673, 758, 773
BstMAI GTCTC 2 cut(s) 21, 428
BstMBI GATC 5 cut(s) 550, 573, 670, 755, 770
BstMCI CGRYCG 1 cut(s) 576
BstMWI GCNNNNNNNGC 4 cut(s) 14, 122, 487, 596
BstNI CCWGG 1 cut(s) 324
BstNSI RCATGY 1 cut(s) 245
BstSCI CCNGG 2 cut(s) 322, 557
BstSLI GKGCMC 1 cut(s) 453
BstUI CGCG 1 cut(s) 676
BstV1I GCAGC 3 cut(s) 105, 465, 574
BstX2I RGATCY 2 cut(s) 670, 755
BstYI RGATCY 2 cut(s) 670, 755
BstZ17I GTATAC 1 cut(s) 247
BsuRI GGCC 2 cut(s) 8, 290
BtrI CACGTC 1 cut(s) 220
BtsCI GGATG 1 cut(s) 249
Cac8I GCNNGC 4 cut(s) 60, 123, 184, 309
CfoI GCGC 3 cut(s) 118, 188, 678
Cfr10I RCCGGY 1 cut(s) 58
Cfr13I GGNCC 2 cut(s) 7, 561
Csp6I GTAC 2 cut(s) 22, 239
CviAII CATG 2 cut(s) 242, 332
CviQI GTAC 2 cut(s) 22, 239
DdeI CTNAG 3 cut(s) 43, 194, 600
DpnI GATC 5 cut(s) 552, 575, 672, 757, 772
DpnII GATC 5 cut(s) 550, 573, 670, 755, 770
DrdI GACNNNNNNGTC 2 cut(s) 347, 568
DriI GACNNNNNGTC 2 cut(s) 34, 52
DseDI GACNNNNNNGTC 2 cut(s) 347, 568
Eam1105I GACNNNNNGTC 2 cut(s) 34, 52
Ecl136II GAGCTC 1 cut(s) 88
Eco130I CCWWGG 1 cut(s) 465
Eco24I GRGCYC 2 cut(s) 44, 90
Eco47I GGWCC 1 cut(s) 561
Eco53kI GAGCTC 1 cut(s) 88
Eco57I CTGAAG 2 cut(s) 476, 746
Eco88I CYCGRG 1 cut(s) 81
EcoICRI GAGCTC 1 cut(s) 88
EcoO109I RGGNCCY 1 cut(s) 7
EcoRII CCWGG 1 cut(s) 322
EcoT14I CCWWGG 1 cut(s) 465
EcoT38I GRGCYC 2 cut(s) 44, 90
ErhI CCWWGG 1 cut(s) 465
FaeI CATG 2 cut(s) 245, 335
FaqI GGGAC 1 cut(s) 335
FatI CATG 2 cut(s) 241, 331
FauI CCCGC 1 cut(s) 360
FbaI TGATCA 1 cut(s) 550
FblI GTMKAC 2 cut(s) 246, 345
Fnu4HI GCNGC 4 cut(s) 119, 479, 482, 588
FokI GGATG 1 cut(s) 236
FriOI GRGCYC 2 cut(s) 44, 90
Fsp4HI GCNGC 4 cut(s) 119, 479, 482, 588
FspBI CTAG 1 cut(s) 308
GlaI GCGC 3 cut(s) 117, 187, 677
GluI GCNGC 4 cut(s) 119, 479, 482, 588
GsaI CCCAGC 2 cut(s) 193, 594
HaeII RGCGCY 1 cut(s) 189
HaeIII GGCC 2 cut(s) 8, 290
HapII CCGG 2 cut(s) 59, 559
HhaI GCGC 3 cut(s) 118, 188, 678
Hin1I GRCGYC 2 cut(s) 342, 348
Hin1II CATG 2 cut(s) 245, 335
Hin6I GCGC 3 cut(s) 116, 186, 676
HinP1I GCGC 3 cut(s) 116, 186, 676
HincII GTYRAC 3 cut(s) 340, 346, 544
HindII GTYRAC 3 cut(s) 340, 346, 544
HindIII AAGCTT 3 cut(s) 383, 488, 641
HinfI GANTC 7 cut(s) 29, 47, 53, 442, 461, 496, 616
HpaI GTTAAC 1 cut(s) 544
HpaII CCGG 2 cut(s) 59, 559
HphI GGTGA 2 cut(s) 481, 719
Hpy166II GTNNAC 5 cut(s) 247, 340, 346, 451, 544
Hpy188III TCNNGA 5 cut(s) 83, 101, 143, 170, 656
Hpy8I GTNNAC 5 cut(s) 247, 340, 346, 451, 544
Hpy99I CGWCG 5 cut(s) 37, 40, 224, 347, 350
HpyAV CCTTC 2 cut(s) 169, 218
HpyCH4III ACNGT 1 cut(s) 436
HpyCH4IV ACGT 3 cut(s) 219, 342, 348
HpyCH4V TGCA 2 cut(s) 125, 451
HpyF10VI GCNNNNNNNGC 4 cut(s) 14, 122, 487, 596
HpyF3I CTNAG 3 cut(s) 43, 194, 600
HpySE526I ACGT 3 cut(s) 219, 342, 348
Hsp92I GRCGYC 2 cut(s) 342, 348
Hsp92II CATG 2 cut(s) 245, 335
HspAI GCGC 3 cut(s) 116, 186, 676
KroI GCCGGC 1 cut(s) 58
KroNI GCCGGC 1 cut(s) 60
Ksp22I TGATCA 1 cut(s) 550
KspAI GTTAAC 1 cut(s) 544
Kzo9I GATC 5 cut(s) 550, 573, 670, 755, 770
LmnI GCTCC 2 cut(s) 67, 85
Lsp1109I GCAGC 3 cut(s) 105, 465, 574
LweI GCATC 1 cut(s) 281
MaeI CTAG 1 cut(s) 308
MaeII ACGT 3 cut(s) 219, 342, 348
MaeIII GTNAC 4 cut(s) 135, 469, 707, 774
MalI GATC 5 cut(s) 552, 575, 672, 757, 772
MboI GATC 5 cut(s) 550, 573, 670, 755, 770
MboII GAAGA 5 cut(s) 644, 739, 752, 755, 765
MflI RGATCY 2 cut(s) 670, 755
MhlI GDGCHC 3 cut(s) 44, 90, 453
MluCI AATT 5 cut(s) 154, 659, 718, 800, 851
MlyI GAGTC 3 cut(s) 23, 41, 62
MroNI GCCGGC 1 cut(s) 58
MseI TTAA 2 cut(s) 401, 543
MspA1I CMGCKG 1 cut(s) 193
MspI CCGG 2 cut(s) 59, 559
MspR9I CCNGG 2 cut(s) 324, 559
MvaI CCWGG 1 cut(s) 324
MvnI CGCG 1 cut(s) 676
MwoI GCNNNNNNNGC 4 cut(s) 14, 122, 487, 596
NaeI GCCGGC 1 cut(s) 60
NciI CCSGG 1 cut(s) 559
NdeII GATC 5 cut(s) 550, 573, 670, 755, 770
NgoMIV GCCGGC 1 cut(s) 58
NheI GCTAGC 1 cut(s) 307
NlaIII CATG 2 cut(s) 245, 335
NlaIV GGNNCC 3 cut(s) 63, 321, 672
NmeAIII GCCGAG 1 cut(s) 158
NmuCI GTSAC 3 cut(s) 135, 469, 707
NspI RCATGY 1 cut(s) 245
PciI ACATGT 1 cut(s) 241
PdiI GCCGGC 1 cut(s) 60
PfeI GAWTC 4 cut(s) 442, 461, 496, 616
Pfl23II CGTACG 1 cut(s) 21
PkrI GCNGC 4 cut(s) 120, 480, 483, 589
Ple19I CGATCG 1 cut(s) 576
PleI GAGTC 3 cut(s) 23, 41, 61
PpsI GAGTC 3 cut(s) 23, 41, 61
PscI ACATGT 1 cut(s) 241
Psp124BI GAGCTC 1 cut(s) 90
Psp6I CCWGG 1 cut(s) 322
PspFI CCCAGC 2 cut(s) 189, 590
PspGI CCWGG 1 cut(s) 322
PspLI CGTACG 1 cut(s) 21
PspN4I GGNNCC 3 cut(s) 63, 321, 672
PspPI GGNCC 2 cut(s) 7, 561
PsuI RGATCY 2 cut(s) 670, 755
PvuI CGATCG 1 cut(s) 576
PvuII CAGCTG 1 cut(s) 193
RsaI GTAC 2 cut(s) 23, 240
RsaNI GTAC 2 cut(s) 22, 239
SacI GAGCTC 1 cut(s) 90
SalI GTCGAC 1 cut(s) 344
SaqAI TTAA 2 cut(s) 401, 543
SatI GCNGC 4 cut(s) 119, 479, 482, 588
Sau3AI GATC 5 cut(s) 550, 573, 670, 755, 770
Sau96I GGNCC 2 cut(s) 7, 561
SchI GAGTC 3 cut(s) 23, 41, 62
ScrFI CCNGG 2 cut(s) 324, 559
SduI GDGCHC 3 cut(s) 44, 90, 453
SfaNI GCATC 1 cut(s) 281
SgrDI CGTCGACG 1 cut(s) 344
SinI GGWCC 1 cut(s) 561
SmlI CTYRAG 1 cut(s) 99
SmoI CTYRAG 1 cut(s) 99
Sse9I AATT 5 cut(s) 154, 659, 718, 800, 851
SsiI CCGC 4 cut(s) 353, 481, 505, 674
SspMI CTAG 1 cut(s) 308
SstI GAGCTC 1 cut(s) 90
StyD4I CCNGG 2 cut(s) 322, 557
StyI CCWWGG 1 cut(s) 465
TaaI ACNGT 1 cut(s) 436
TaiI ACGT 3 cut(s) 222, 345, 351
TaqI TCGA 6 cut(s) 144, 222, 345, 572, 576, 813
TasI AATT 5 cut(s) 154, 659, 718, 800, 851
TatI WGTACW 1 cut(s) 238
TauI GCSGC 1 cut(s) 484
TfiI GAWTC 4 cut(s) 442, 461, 496, 616
Tru1I TTAA 2 cut(s) 401, 543
Tru9I TTAA 2 cut(s) 401, 543
TseFI GTSAC 3 cut(s) 135, 469, 707
TseI GCWGC 3 cut(s) 118, 478, 587
Tsp45I GTSAC 3 cut(s) 135, 469, 707
TspGWI ACGGA 1 cut(s) 39
VneI GTGCAC 1 cut(s) 449
VpaK11BI GGWCC 1 cut(s) 561
XapI RAATTY 3 cut(s) 659, 800, 851
XceI RCATGY 1 cut(s) 245
XmiI GTMKAC 2 cut(s) 246, 345
XspI CTAG 1 cut(s) 308
ZraI GACGTC 2 cut(s) 343, 349
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.