MD07G1243300.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 (+)
31369519 .. 31370777
1259 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1243300.v1.1.491

Sequence Viewer

Length: 651 bp
ATGGAGGCCCTGATTGCCTCGTACGGAGACTCGTCGTCGGGCTCAGACTCCGAGTCGCCGGCTCCACCTCCACCACCACCTCCGGAGCTCAACAACCCTCAAGAACCGACCCCTGCGCTGCCTCCACCTCCTCTGTCACTTCTCGACAGCCCCAATTCCTTCGAATTTCTGGACTTATCGGCAAGCGCCCAGCCGAGCAGAGTTCGGAACTTTCCTCACGTCGAAGGGAACTACGCAGTACATGTATACATCCCAGTTTATATACCACCAGCACCAAGGAAAGAGATGGCCTTGTTTTTGAACAAGCTAGCTTCTCTGCTGCCTGGTCTCCATGCGGTTGACGTTGACTTCCCGCTTGACATTCTGCGTAAGGACGAGCACAAGCTTGAACAAGTTGCTTTAGGCAGAGAGTTCCATATAAGTCTCGGAAGAACTGTTCCGATGCGGGTGCACCAGATTGATTCCTTGGTGACAATGCTGCGGCAGAAGCTTCAGATTCAGAGGCGGTATGGTTACATTTACATTCTCTTGTCTGCATTGCGTGAATTTAGTTCTATAACAAAGCAGATTCAAGCTGTGAATGAGGTGTATAAGCTTCACAATCTTCCTGAATTTTACAAGGATCCACGCCCTCACATCTCGGTAGCTTGA
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

217

Amino Acids

24.21

Weight (kDa)

6.23

Isoelectric Point (pI)

62.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HVSL PF09749 41 - 216 1.2e-26 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)
AccI GTMKAC 1 cut(s) 246
AccIII TCCGGA 1 cut(s) 82
AciI CCGC 5 cut(s) 335, 353, 445, 481, 505
AclWI GGATC 2 cut(s) 617, 630
AcsI RAATTY 3 cut(s) 164, 545, 611
AcuI CTGAAG 1 cut(s) 476
AfaI GTAC 2 cut(s) 23, 240
AflIII ACRYGT 1 cut(s) 241
AgsI TTSAA 3 cut(s) 301, 389, 572
AhdI GACNNNNNGTC 2 cut(s) 34, 52
AjiI CACGTC 1 cut(s) 220
AjnI CCWGG 1 cut(s) 322
AloI GAACNNNNNNTCC 2 cut(s) 420, 452
AluBI AGCT 8 cut(s) 88, 307, 311, 385, 490, 575, 595, 647
AluI AGCT 8 cut(s) 88, 307, 311, 385, 490, 575, 595, 647
Alw21I GWGCWC 3 cut(s) 90, 381, 453
Alw26I GTCTC 3 cut(s) 21, 332, 428
Alw44I GTGCAC 1 cut(s) 449
AlwI GGATC 2 cut(s) 617, 630
Aor13HI TCCGGA 1 cut(s) 82
AoxI GGCC 2 cut(s) 6, 288
ApaLI GTGCAC 1 cut(s) 449
ApeKI GCWGC 3 cut(s) 118, 319, 478
ApoI RAATTY 3 cut(s) 164, 545, 611
AspLEI GCGC 2 cut(s) 118, 188
AspS9I GGNCC 1 cut(s) 7
AsuHPI GGTGA 1 cut(s) 481
AsuII TTCGAA 1 cut(s) 162
AsuNHI GCTAGC 1 cut(s) 307
BaeGI GKGCMC 1 cut(s) 453
BamHI GGATCC 1 cut(s) 622
BanII GRGCYC 2 cut(s) 44, 90
Bbv12I GWGCWC 3 cut(s) 90, 381, 453
BbvI GCAGC 3 cut(s) 105, 306, 465
BccI CCATC 1 cut(s) 280
BcgI CGANNNNNNTGC 2 cut(s) 430, 464
BciT130I CCWGG 1 cut(s) 324
BcoDI GTCTC 3 cut(s) 21, 332, 428
BfaI CTAG 1 cut(s) 308
BfoI RGCGCY 1 cut(s) 189
BisI GCNGC 4 cut(s) 119, 320, 479, 482
BlsI GCNGC 4 cut(s) 120, 321, 480, 483
Bme1390I CCNGG 1 cut(s) 324
BmeRI GACNNNNNGTC 2 cut(s) 34, 52
BmgBI CACGTC 1 cut(s) 220
BmgT120I GGNCC 1 cut(s) 7
BmiI GGNNCC 2 cut(s) 63, 624
BmrFI CCNGG 1 cut(s) 324
BmrI ACTGGG 1 cut(s) 248
BmsI GCATC 1 cut(s) 432
BmtI GCTAGC 1 cut(s) 311
BmuI ACTGGG 1 cut(s) 248
Bpu14I TTCGAA 1 cut(s) 162
BpuEI CTTGAG 1 cut(s) 84
BsaI GGTCTC 1 cut(s) 332
BsaJI CCNNGG 2 cut(s) 275, 465
BsaWI WCCGGW 1 cut(s) 82
Bse118I RCCGGY 1 cut(s) 58
Bse1I ACTGG 1 cut(s) 254
Bse3DI GCAATG 1 cut(s) 536
BseAI TCCGGA 1 cut(s) 82
BseBI CCWGG 1 cut(s) 324
BseDI CCNNGG 2 cut(s) 275, 465
BseGI GGATG 1 cut(s) 249
BseMI GCAATG 1 cut(s) 536
BseMII CTCAG 1 cut(s) 57
BseNI ACTGG 1 cut(s) 254
BseRI GAGGAG 1 cut(s) 120
BseSI GKGCMC 1 cut(s) 453
BseXI GCAGC 3 cut(s) 105, 306, 465
BseYI CCCAGC 1 cut(s) 189
BshFI GGCC 2 cut(s) 8, 290
BsiHKAI GWGCWC 3 cut(s) 90, 381, 453
BsiSI CCGG 2 cut(s) 59, 83
BsiWI CGTACG 1 cut(s) 21
BsmAI GTCTC 3 cut(s) 21, 332, 428
BsnI GGCC 2 cut(s) 8, 290
Bso31I GGTCTC 1 cut(s) 332
Bsp119I TTCGAA 1 cut(s) 162
Bsp1286I GDGCHC 4 cut(s) 44, 90, 381, 453
Bsp13I TCCGGA 1 cut(s) 82
Bsp143I GATC 1 cut(s) 622
BspACI CCGC 5 cut(s) 335, 353, 445, 481, 505
BspANI GGCC 2 cut(s) 8, 290
BspCNI CTCAG 1 cut(s) 56
BspEI TCCGGA 1 cut(s) 82
BspLI GGNNCC 2 cut(s) 63, 624
BspOI GCTAGC 1 cut(s) 311
BspPI GGATC 2 cut(s) 617, 630
BspT104I TTCGAA 1 cut(s) 162
BspTNI GGTCTC 1 cut(s) 332
BsrDI GCAATG 1 cut(s) 536
BsrFI RCCGGY 1 cut(s) 58
BsrI ACTGG 1 cut(s) 254
BssAI RCCGGY 1 cut(s) 58
BssECI CCNNGG 2 cut(s) 275, 465
BssMI GATC 1 cut(s) 622
BssNAI GTATAC 1 cut(s) 247
BssT1I CCWWGG 2 cut(s) 275, 465
Bst1107I GTATAC 1 cut(s) 247
Bst2UI CCWGG 1 cut(s) 324
Bst4CI ACNGT 1 cut(s) 436
BstBI TTCGAA 1 cut(s) 162
BstC8I GCNNGC 3 cut(s) 60, 184, 309
BstDEI CTNAG 1 cut(s) 43
BstF5I GGATG 1 cut(s) 249
BstH2I RGCGCY 1 cut(s) 189
BstHHI GCGC 2 cut(s) 118, 188
BstKTI GATC 1 cut(s) 625
BstMAI GTCTC 3 cut(s) 21, 332, 428
BstMBI GATC 1 cut(s) 622
BstMWI GCNNNNNNNGC 2 cut(s) 14, 487
BstNI CCWGG 1 cut(s) 324
BstNSI RCATGY 1 cut(s) 245
BstSCI CCNGG 1 cut(s) 322
BstSLI GKGCMC 1 cut(s) 453
BstV1I GCAGC 3 cut(s) 105, 306, 465
BstX2I RGATCY 1 cut(s) 622
BstYI RGATCY 1 cut(s) 622
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 3 cut(s) 60, 184, 309
CfoI GCGC 2 cut(s) 118, 188
Cfr10I RCCGGY 1 cut(s) 58
Cfr13I GGNCC 1 cut(s) 7
Csp6I GTAC 2 cut(s) 22, 239
CviAII CATG 2 cut(s) 242, 332
CviQI GTAC 2 cut(s) 22, 239
DdeI CTNAG 1 cut(s) 43
DpnI GATC 1 cut(s) 624
DpnII GATC 1 cut(s) 622
DriI GACNNNNNGTC 2 cut(s) 34, 52
Eam1105I GACNNNNNGTC 2 cut(s) 34, 52
Ecl136II GAGCTC 1 cut(s) 88
Eco130I CCWWGG 2 cut(s) 275, 465
Eco24I GRGCYC 2 cut(s) 44, 90
Eco31I GGTCTC 1 cut(s) 332
Eco53kI GAGCTC 1 cut(s) 88
Eco57I CTGAAG 1 cut(s) 476
EcoICRI GAGCTC 1 cut(s) 88
EcoO109I RGGNCCY 1 cut(s) 7
EcoRII CCWGG 1 cut(s) 322
EcoT14I CCWWGG 2 cut(s) 275, 465
EcoT38I GRGCYC 2 cut(s) 44, 90
ErhI CCWWGG 2 cut(s) 275, 465
FaeI CATG 2 cut(s) 245, 335
FatI CATG 2 cut(s) 241, 331
FauI CCCGC 2 cut(s) 360, 438
FblI GTMKAC 1 cut(s) 246
Fnu4HI GCNGC 4 cut(s) 119, 320, 479, 482
FokI GGATG 1 cut(s) 236
FriOI GRGCYC 2 cut(s) 44, 90
Fsp4HI GCNGC 4 cut(s) 119, 320, 479, 482
FspBI CTAG 1 cut(s) 308
GlaI GCGC 2 cut(s) 117, 187
GluI GCNGC 4 cut(s) 119, 320, 479, 482
GsaI CCCAGC 1 cut(s) 193
HaeII RGCGCY 1 cut(s) 189
HaeIII GGCC 2 cut(s) 8, 290
HapII CCGG 2 cut(s) 59, 83
HhaI GCGC 2 cut(s) 118, 188
Hin1II CATG 2 cut(s) 245, 335
Hin6I GCGC 2 cut(s) 116, 186
HinP1I GCGC 2 cut(s) 116, 186
HincII GTYRAC 2 cut(s) 340, 346
HindII GTYRAC 2 cut(s) 340, 346
HindIII AAGCTT 3 cut(s) 383, 488, 593
HinfI GANTC 6 cut(s) 29, 47, 53, 461, 496, 568
HpaII CCGG 2 cut(s) 59, 83
HphI GGTGA 1 cut(s) 481
Hpy166II GTNNAC 4 cut(s) 247, 340, 346, 451
Hpy188I TCNGA 7 cut(s) 46, 52, 207, 428, 441, 495, 501
Hpy188III TCNNGA 5 cut(s) 83, 101, 143, 170, 608
Hpy8I GTNNAC 4 cut(s) 247, 340, 346, 451
Hpy99I CGWCG 3 cut(s) 37, 40, 224
HpyAV CCTTC 2 cut(s) 169, 218
HpyCH4III ACNGT 1 cut(s) 436
HpyCH4IV ACGT 2 cut(s) 219, 342
HpyCH4V TGCA 2 cut(s) 451, 536
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 487
HpyF3I CTNAG 1 cut(s) 43
HpySE526I ACGT 2 cut(s) 219, 342
Hsp92II CATG 2 cut(s) 245, 335
HspAI GCGC 2 cut(s) 116, 186
Kpn2I TCCGGA 1 cut(s) 82
KroI GCCGGC 1 cut(s) 58
KroNI GCCGGC 1 cut(s) 60
Kzo9I GATC 1 cut(s) 622
LmnI GCTCC 2 cut(s) 67, 85
Lsp1109I GCAGC 3 cut(s) 105, 306, 465
LweI GCATC 1 cut(s) 432
MaeI CTAG 1 cut(s) 308
MaeII ACGT 2 cut(s) 219, 342
MaeIII GTNAC 3 cut(s) 135, 469, 512
MalI GATC 1 cut(s) 624
MboI GATC 1 cut(s) 622
MboII GAAGA 2 cut(s) 441, 596
MflI RGATCY 1 cut(s) 622
MhlI GDGCHC 4 cut(s) 44, 90, 381, 453
MluCI AATT 4 cut(s) 154, 164, 545, 611
MlyI GAGTC 3 cut(s) 23, 41, 62
MroI TCCGGA 1 cut(s) 82
MroNI GCCGGC 1 cut(s) 58
MspI CCGG 2 cut(s) 59, 83
MspR9I CCNGG 1 cut(s) 324
MvaI CCWGG 1 cut(s) 324
MwoI GCNNNNNNNGC 2 cut(s) 14, 487
NaeI GCCGGC 1 cut(s) 60
NdeII GATC 1 cut(s) 622
NgoMIV GCCGGC 1 cut(s) 58
NheI GCTAGC 1 cut(s) 307
NlaIII CATG 2 cut(s) 245, 335
NlaIV GGNNCC 2 cut(s) 63, 624
NmeAIII GCCGAG 1 cut(s) 219
NmuCI GTSAC 2 cut(s) 135, 469
NspI RCATGY 1 cut(s) 245
NspV TTCGAA 1 cut(s) 162
PciI ACATGT 1 cut(s) 241
PdiI GCCGGC 1 cut(s) 60
PfeI GAWTC 3 cut(s) 461, 496, 568
Pfl23II CGTACG 1 cut(s) 21
PkrI GCNGC 4 cut(s) 120, 321, 480, 483
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 1 cut(s) 189
PspGI CCWGG 1 cut(s) 322
PspLI CGTACG 1 cut(s) 21
PspN4I GGNNCC 2 cut(s) 63, 624
PspPI GGNCC 1 cut(s) 7
PsuI RGATCY 1 cut(s) 622
RsaI GTAC 2 cut(s) 23, 240
RsaNI GTAC 2 cut(s) 22, 239
SacI GAGCTC 1 cut(s) 90
SatI GCNGC 4 cut(s) 119, 320, 479, 482
Sau3AI GATC 1 cut(s) 622
Sau96I GGNCC 1 cut(s) 7
SchI GAGTC 3 cut(s) 23, 41, 62
ScrFI CCNGG 1 cut(s) 324
SduI GDGCHC 4 cut(s) 44, 90, 381, 453
SfaNI GCATC 1 cut(s) 432
SfuI TTCGAA 1 cut(s) 162
SmlI CTYRAG 1 cut(s) 99
SmoI CTYRAG 1 cut(s) 99
Sse9I AATT 4 cut(s) 154, 164, 545, 611
SsiI CCGC 5 cut(s) 335, 353, 445, 481, 505
SspMI CTAG 1 cut(s) 308
SstI GAGCTC 1 cut(s) 90
StyD4I CCNGG 1 cut(s) 322
StyI CCWWGG 2 cut(s) 275, 465
TaaI ACNGT 1 cut(s) 436
TaiI ACGT 2 cut(s) 222, 345
TaqI TCGA 3 cut(s) 144, 162, 222
TasI AATT 4 cut(s) 154, 164, 545, 611
TatI WGTACW 1 cut(s) 238
TauI GCSGC 1 cut(s) 484
TfiI GAWTC 3 cut(s) 461, 496, 568
TseFI GTSAC 2 cut(s) 135, 469
TseI GCWGC 3 cut(s) 118, 319, 478
Tsp45I GTSAC 2 cut(s) 135, 469
TspGWI ACGGA 1 cut(s) 39
VneI GTGCAC 1 cut(s) 449
XapI RAATTY 3 cut(s) 164, 545, 611
XceI RCATGY 1 cut(s) 245
XmiI GTMKAC 1 cut(s) 246
XspI CTAG 1 cut(s) 308
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.