MD07G1244900.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 (+)
31468890 .. 31470564
1675 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1244900.v1.1.491

Sequence Viewer

Length: 714 bp
ATGTATACATCCCAGGTTATCAAAATTCTCGAAATTTTCAGCTCCATTAGCAAATGCGATCGCTTTGCACTTAGTTTTTGCTTGTTTAATTGTGTGGTTCCAGTTTATATACCACCAGCACCAAGGAAAGAGATGGCCTTGTTTTTGAACAAGCTAGCTTCTCTGGTGCCTTGTCTCCATGCGGTTGACGTTGACTTCCCGCTTGACATTCTGCGTAAGGACGAGCACAAGCTTGAACAAGTTGCTTTAGGCAGAGAGTTCCATATAAGTCTCGGAAGAACTGTTCCGATTCGGGTGCACCAGATTGATTCCTTGGTGACAATGCTGCGGCAGAAGCTTCAGATTCAGAGGCGGTATTGGATTGATTTTAGCAAGTGGGAGGTTTTTGTTAATGATGATCAGACCCGGACCTTTGTGTCTATCGAAATCATTGCTGCTGGGTTAGCTGAGATAACAAAGCAGATTCAAGCTGTGAATGAGGTGTATAAGCTTCACAATCTTCCTGAATTTTACAAGGATCCGCGCCCTCACATCTCGGTAGCTTGGGCATTGGGTGACATCGGCAATTCCCTGAAGAAAGTGGTTGAAGAAGAAAGACGAAGATCTACCATCGGAGGATCGTTACAGAAATGTATTTTTACCAGTAAATTCAATGGTATTGAATGTAGGATTGGTAATAAAACACACAAAATATGTAAATTTTCTGAACAATAA
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

238

Amino Acids

27.32

Weight (kDa)

9.05

Isoelectric Point (pI)

54.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 35 - 232 6.2e-43 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 1 cut(s) 415
AccB1I GGYRCC 1 cut(s) 166
AccI GTMKAC 1 cut(s) 5
AccII CGCG 1 cut(s) 523
AciI CCGC 5 cut(s) 182, 200, 328, 352, 521
AclWI GGATC 3 cut(s) 512, 525, 625
AcsI RAATTY 5 cut(s) 24, 33, 506, 647, 698
AcuI CTGAAG 2 cut(s) 323, 593
AgsI TTSAA 6 cut(s) 148, 236, 467, 587, 652, 662
AjnI CCWGG 1 cut(s) 12
AjuI GAANNNNNNNTTGG 2 cut(s) 654, 686
AloI GAACNNNNNNTCC 2 cut(s) 267, 299
AluBI AGCT 9 cut(s) 42, 154, 158, 232, 337, 446, 470, 490, 542
AluI AGCT 9 cut(s) 42, 154, 158, 232, 337, 446, 470, 490, 542
Alw21I GWGCWC 2 cut(s) 228, 300
Alw26I GTCTC 2 cut(s) 179, 275
Alw44I GTGCAC 1 cut(s) 296
AlwI GGATC 3 cut(s) 512, 525, 625
AoxI GGCC 1 cut(s) 135
ApaLI GTGCAC 1 cut(s) 296
ApeKI GCWGC 2 cut(s) 325, 434
ApoI RAATTY 5 cut(s) 24, 33, 506, 647, 698
AsiSI GCGATCGC 1 cut(s) 61
AspLEI GCGC 1 cut(s) 525
AspS9I GGNCC 1 cut(s) 408
AsuC2I CCSGG 1 cut(s) 406
AsuHPI GGTGA 2 cut(s) 328, 566
AsuNHI GCTAGC 1 cut(s) 154
AvaII GGWCC 1 cut(s) 408
BaeGI GKGCMC 1 cut(s) 300
BamHI GGATCC 1 cut(s) 517
BanI GGYRCC 1 cut(s) 166
Bbv12I GWGCWC 2 cut(s) 228, 300
BbvI GCAGC 2 cut(s) 312, 421
BccI CCATC 2 cut(s) 127, 617
BcgI CGANNNNNNTGC 6 cut(s) 47, 81, 277, 311, 413, 447
BciT130I CCWGG 1 cut(s) 14
BclI TGATCA 1 cut(s) 397
BcnI CCSGG 1 cut(s) 406
BcoDI GTCTC 2 cut(s) 179, 275
BfaI CTAG 1 cut(s) 155
BglII AGATCT 1 cut(s) 602
BisI GCNGC 3 cut(s) 326, 329, 435
BlsI GCNGC 3 cut(s) 327, 330, 436
Bme1390I CCNGG 2 cut(s) 14, 406
Bme18I GGWCC 1 cut(s) 408
BmgT120I GGNCC 1 cut(s) 408
BmiI GGNNCC 3 cut(s) 99, 168, 519
BmrFI CCNGG 2 cut(s) 14, 406
BmtI GCTAGC 1 cut(s) 158
BpuMI CCSGG 1 cut(s) 406
BsaJI CCNNGG 3 cut(s) 12, 122, 312
Bse1I ACTGG 2 cut(s) 101, 642
Bse3DI GCAATG 1 cut(s) 429
BseBI CCWGG 1 cut(s) 14
BseDI CCNNGG 3 cut(s) 12, 122, 312
BseGI GGATG 1 cut(s) 8
BseMI GCAATG 1 cut(s) 429
BseMII CTCAG 1 cut(s) 438
BseNI ACTGG 2 cut(s) 101, 642
BseSI GKGCMC 1 cut(s) 300
BseXI GCAGC 2 cut(s) 312, 421
BseYI CCCAGC 1 cut(s) 437
Bsh1236I CGCG 1 cut(s) 523
Bsh1285I CGRYCG 1 cut(s) 61
BshFI GGCC 1 cut(s) 137
BshNI GGYRCC 1 cut(s) 166
BsiEI CGRYCG 1 cut(s) 61
BsiHKAI GWGCWC 2 cut(s) 228, 300
BsiSI CCGG 1 cut(s) 406
BsmAI GTCTC 2 cut(s) 179, 275
BsnI GGCC 1 cut(s) 137
Bsp1286I GDGCHC 2 cut(s) 228, 300
Bsp143I GATC 5 cut(s) 58, 397, 517, 602, 617
BspACI CCGC 5 cut(s) 182, 200, 328, 352, 521
BspANI GGCC 1 cut(s) 137
BspCNI CTCAG 1 cut(s) 439
BspFNI CGCG 1 cut(s) 523
BspLI GGNNCC 3 cut(s) 99, 168, 519
BspOI GCTAGC 1 cut(s) 158
BspPI GGATC 3 cut(s) 512, 525, 625
BspT107I GGYRCC 1 cut(s) 166
BsrDI GCAATG 1 cut(s) 429
BsrI ACTGG 2 cut(s) 101, 642
BssECI CCNNGG 3 cut(s) 12, 122, 312
BssMI GATC 5 cut(s) 58, 397, 517, 602, 617
BssNAI GTATAC 1 cut(s) 6
BssT1I CCWWGG 2 cut(s) 122, 312
Bst1107I GTATAC 1 cut(s) 6
Bst2UI CCWGG 1 cut(s) 14
Bst4CI ACNGT 1 cut(s) 283
BstC8I GCNNGC 1 cut(s) 156
BstDEI CTNAG 2 cut(s) 71, 447
BstF5I GGATG 1 cut(s) 8
BstFNI CGCG 1 cut(s) 523
BstHHI GCGC 1 cut(s) 525
BstKTI GATC 5 cut(s) 61, 400, 520, 605, 620
BstMAI GTCTC 2 cut(s) 179, 275
BstMBI GATC 5 cut(s) 58, 397, 517, 602, 617
BstMCI CGRYCG 1 cut(s) 61
BstMWI GCNNNNNNNGC 3 cut(s) 48, 334, 443
BstNI CCWGG 1 cut(s) 14
BstSCI CCNGG 2 cut(s) 12, 404
BstSLI GKGCMC 1 cut(s) 300
BstUI CGCG 1 cut(s) 523
BstV1I GCAGC 2 cut(s) 312, 421
BstX2I RGATCY 2 cut(s) 517, 602
BstYI RGATCY 2 cut(s) 517, 602
BstZ17I GTATAC 1 cut(s) 6
BsuRI GGCC 1 cut(s) 137
BtsCI GGATG 1 cut(s) 8
Cac8I GCNNGC 1 cut(s) 156
CfoI GCGC 1 cut(s) 525
Cfr13I GGNCC 1 cut(s) 408
CviAII CATG 1 cut(s) 179
DdeI CTNAG 2 cut(s) 71, 447
DpnI GATC 5 cut(s) 60, 399, 519, 604, 619
DpnII GATC 5 cut(s) 58, 397, 517, 602, 617
DrdI GACNNNNNNGTC 1 cut(s) 415
DseDI GACNNNNNNGTC 1 cut(s) 415
Eco130I CCWWGG 2 cut(s) 122, 312
Eco47I GGWCC 1 cut(s) 408
Eco57I CTGAAG 2 cut(s) 323, 593
EcoRII CCWGG 1 cut(s) 12
EcoT14I CCWWGG 2 cut(s) 122, 312
ErhI CCWWGG 2 cut(s) 122, 312
FaeI CATG 1 cut(s) 182
FaiI YATR 8 cut(s) 6, 108, 110, 180, 264, 266, 486, 694
FatI CATG 1 cut(s) 178
FauI CCCGC 1 cut(s) 207
FbaI TGATCA 1 cut(s) 397
FblI GTMKAC 1 cut(s) 5
Fnu4HI GCNGC 3 cut(s) 326, 329, 435
Fsp4HI GCNGC 3 cut(s) 326, 329, 435
FspBI CTAG 1 cut(s) 155
GlaI GCGC 1 cut(s) 524
GluI GCNGC 3 cut(s) 326, 329, 435
GsaI CCCAGC 1 cut(s) 441
HaeIII GGCC 1 cut(s) 137
HapII CCGG 1 cut(s) 406
HhaI GCGC 1 cut(s) 525
Hin1II CATG 1 cut(s) 182
Hin6I GCGC 1 cut(s) 523
HinP1I GCGC 1 cut(s) 523
HincII GTYRAC 2 cut(s) 187, 193
HindII GTYRAC 2 cut(s) 187, 193
HindIII AAGCTT 3 cut(s) 230, 335, 488
HinfI GANTC 4 cut(s) 289, 308, 343, 463
HpaII CCGG 1 cut(s) 406
HphI GGTGA 2 cut(s) 328, 566
Hpy166II GTNNAC 4 cut(s) 6, 187, 193, 298
Hpy188I TCNGA 7 cut(s) 275, 288, 342, 348, 402, 614, 706
Hpy188III TCNNGA 2 cut(s) 29, 503
Hpy8I GTNNAC 4 cut(s) 6, 187, 193, 298
HpyCH4III ACNGT 1 cut(s) 283
HpyCH4IV ACGT 1 cut(s) 189
HpyCH4V TGCA 2 cut(s) 68, 298
HpyF10VI GCNNNNNNNGC 3 cut(s) 48, 334, 443
HpyF3I CTNAG 2 cut(s) 71, 447
HpySE526I ACGT 1 cut(s) 189
Hsp92II CATG 1 cut(s) 182
HspAI GCGC 1 cut(s) 523
Ksp22I TGATCA 1 cut(s) 397
Kzo9I GATC 5 cut(s) 58, 397, 517, 602, 617
LmnI GCTCC 1 cut(s) 47
Lsp1109I GCAGC 2 cut(s) 312, 421
MaeI CTAG 1 cut(s) 155
MaeII ACGT 1 cut(s) 189
MaeIII GTNAC 3 cut(s) 316, 554, 621
MalI GATC 5 cut(s) 60, 399, 519, 604, 619
MboI GATC 5 cut(s) 58, 397, 517, 602, 617
MboII GAAGA 6 cut(s) 288, 491, 586, 599, 602, 612
MflI RGATCY 2 cut(s) 517, 602
MhlI GDGCHC 2 cut(s) 228, 300
MluCI AATT 7 cut(s) 24, 33, 88, 506, 565, 647, 698
MnlI CCTC 5 cut(s) 342, 373, 472, 537, 608
MseI TTAA 2 cut(s) 87, 390
MspI CCGG 1 cut(s) 406
MspR9I CCNGG 2 cut(s) 14, 406
MvaI CCWGG 1 cut(s) 14
MvnI CGCG 1 cut(s) 523
MwoI GCNNNNNNNGC 3 cut(s) 48, 334, 443
NciI CCSGG 1 cut(s) 406
NdeII GATC 5 cut(s) 58, 397, 517, 602, 617
NheI GCTAGC 1 cut(s) 154
NlaIII CATG 1 cut(s) 182
NlaIV GGNNCC 3 cut(s) 99, 168, 519
NmuCI GTSAC 2 cut(s) 316, 554
PfeI GAWTC 4 cut(s) 289, 308, 343, 463
PkrI GCNGC 3 cut(s) 327, 330, 436
Ple19I CGATCG 1 cut(s) 61
Psp6I CCWGG 1 cut(s) 12
PspFI CCCAGC 1 cut(s) 437
PspGI CCWGG 1 cut(s) 12
PspN4I GGNNCC 3 cut(s) 99, 168, 519
PspPI GGNCC 1 cut(s) 408
PsuI RGATCY 2 cut(s) 517, 602
PvuI CGATCG 1 cut(s) 61
RgaI GCGATCGC 1 cut(s) 61
SaqAI TTAA 2 cut(s) 87, 390
SatI GCNGC 3 cut(s) 326, 329, 435
Sau3AI GATC 5 cut(s) 58, 397, 517, 602, 617
Sau96I GGNCC 1 cut(s) 408
ScrFI CCNGG 2 cut(s) 14, 406
SduI GDGCHC 2 cut(s) 228, 300
SfaAI GCGATCGC 1 cut(s) 61
SgfI GCGATCGC 1 cut(s) 61
SinI GGWCC 1 cut(s) 408
Sse9I AATT 7 cut(s) 24, 33, 88, 506, 565, 647, 698
SsiI CCGC 5 cut(s) 182, 200, 328, 352, 521
SspMI CTAG 1 cut(s) 155
StyD4I CCNGG 2 cut(s) 12, 404
StyI CCWWGG 2 cut(s) 122, 312
TaaI ACNGT 1 cut(s) 283
TaiI ACGT 1 cut(s) 192
TaqI TCGA 2 cut(s) 30, 423
TasI AATT 7 cut(s) 24, 33, 88, 506, 565, 647, 698
TauI GCSGC 1 cut(s) 331
TfiI GAWTC 4 cut(s) 289, 308, 343, 463
Tru1I TTAA 2 cut(s) 87, 390
Tru9I TTAA 2 cut(s) 87, 390
TseFI GTSAC 2 cut(s) 316, 554
TseI GCWGC 2 cut(s) 325, 434
Tsp45I GTSAC 2 cut(s) 316, 554
VneI GTGCAC 1 cut(s) 296
VpaK11BI GGWCC 1 cut(s) 408
XapI RAATTY 5 cut(s) 24, 33, 506, 647, 698
XmiI GTMKAC 1 cut(s) 5
XspI CTAG 1 cut(s) 155
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.