MD07G1176900.v1.1

synthase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr07
OG0004698
Physical Location & Seq
Reverse (-)
25622095 .. 25629924
7830 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1176900.v1.1.491

Sequence Viewer

Length: 1161 bp
ATGTCTAGCTCCTCGCGAGCATGTCAGCCTCAGACGTTTGGATTGCCGTGGCCCGATCTCAACGACGGATTGTTCTACAACGACGTCGTTCGAACCCCCGATTCCGAACTGACACTGATCGAGTTCTACTCTAGCAAGTACAATAATTCAGCTCCATTGCAAGGTTGGTTGCAGAGAATTCGGAGCGGACAGATAACAGTTGATGGTGAAGTTGTTAGAGATCCCGATACGATCCTCAGGGTTGGTTCGAAATTGGCATATCATAGACTTCCGTGGAGAGAGCCCGATGCACCATACTTGCTCGAGGTTCTGTATGAGGATGATGATATGATTGCTCTAAATAAGCCTTCTGGGCTGCAAGTTTTACCTCAAGGTCTTTTCCAGCAACGAACAGTTCTCACACAGCTTCTATGGCGTGCAACACAGAAGATTTCTCCCTTATCGTGCCAACAACCACATCCTGTTCCTGCCCATCGCTTAGGAAGAGGCACTTCAGGAATATTACTCTGTGCAAAGACAAAGCATGCCAAAACTCAGCTTGCAGCATACTTAGCTGACGGGACATCTAAAATTGGAGATGGCAGTAATGCTGACATGGAGCCTCGTACAGAGAGGAAAATATCAAAGATTTACCGGGCACTAGTGACTGGGATAGTTTGTGAGGATAAGGTGATTGTAAAGCAGCCAATTGGAATGGTGCGATATCCTGGTGTGGCTAAAGGGCTGTATGTTGCTTCTCCTACAGGAAAGCCAGCTCTGAGTAAAGTTGAAGTTCTTGAGAGAGAGATTCATAAAAACCAAACGCTAGTCCAGGTTGAGATTCAGTCAGGAAGGCCACACCAAATTCGCATCCATCTTTCTTACATAGGACACCCATTGTTAGGAGATCCTCTTTATGTTCCTGGTGGACAACCAAAGTGCTCAGATTTCGACTTGGTCGATGAAAGTTTTGCCGATGATGGAGGGTTTAAGAGGCCTACAAATCCCGTTCCTGGTGACTGTGGCTACAACTTGCATGCTCATCAAGTCACTCTCTCTCACCCCGCATCCAATGAGGTAATCAAAGTTATAGCACCACTTCCACCAGTTCTTCGGACGCAGCAAGAAACCGAACAACTTACTCGCGGTAAACCCGAACAACTTACACATCCGCACAAATAA

Protein Analysis

387

Amino Acids

42.81

Weight (kDa)

8.41

Isoelectric Point (pI)

42.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PseudoU_synth_2 PF00849 110 - 287 2.4e-22 RNA pseudouridylate synthase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 87
AccBSI CCGCTC 1 cut(s) 186
AccII CGCG 2 cut(s) 16, 1125
AciI CCGC 4 cut(s) 186, 1044, 1125, 1151
AclWI GGATC 3 cut(s) 215, 226, 881
AcsI RAATTY 2 cut(s) 177, 843
AcuI CTGAAG 1 cut(s) 477
AcyI GRCGYC 1 cut(s) 84
AfaI GTAC 2 cut(s) 140, 607
AfiI CCNNNNNNNGG 3 cut(s) 161, 881, 992
AgsI TTSAA 1 cut(s) 770
AhlI ACTAGT 1 cut(s) 640
AjnI CCWGG 4 cut(s) 706, 810, 901, 991
AluBI AGCT 6 cut(s) 9, 152, 406, 538, 554, 755
AluI AGCT 6 cut(s) 9, 152, 406, 538, 554, 755
Alw21I GWGCWC 1 cut(s) 923
AlwI GGATC 3 cut(s) 215, 226, 881
Ama87I CYCGRG 1 cut(s) 302
AoxI GGCC 3 cut(s) 50, 833, 974
ApeKI GCWGC 4 cut(s) 355, 542, 682, 1099
ApoI RAATTY 2 cut(s) 177, 843
AspS9I GGNCC 1 cut(s) 51
AsuC2I CCSGG 1 cut(s) 635
AsuHPI GGTGA 4 cut(s) 218, 682, 1007, 1031
AsuII TTCGAA 2 cut(s) 91, 248
AvaI CYCGRG 1 cut(s) 302
AxyI CCTNAGG 1 cut(s) 236
BaeGI GKGCMC 1 cut(s) 640
BanII GRGCYC 1 cut(s) 285
Bbv12I GWGCWC 1 cut(s) 923
BbvI GCAGC 4 cut(s) 342, 554, 694, 1111
BccI CCATC 5 cut(s) 197, 480, 572, 861, 953
BceAI ACGGC 1 cut(s) 31
BcgI CGANNNNNNTGC 2 cut(s) 161, 195
BciT130I CCWGG 4 cut(s) 708, 812, 903, 993
BcnI CCSGG 1 cut(s) 635
BcuI ACTAGT 1 cut(s) 640
BfaI CTAG 4 cut(s) 6, 132, 641, 806
BfmI CTRYAG 1 cut(s) 741
BglI GCCNNNNNGGC 1 cut(s) 352
BisI GCNGC 4 cut(s) 356, 543, 683, 1100
BlsI GCNGC 4 cut(s) 357, 544, 684, 1101
Bme1390I CCNGG 5 cut(s) 635, 708, 812, 903, 993
BmeT110I CYCGRG 1 cut(s) 302
BmgT120I GGNCC 1 cut(s) 51
BmiI GGNNCC 1 cut(s) 600
BmrFI CCNGG 5 cut(s) 635, 708, 812, 903, 993
BmrI ACTGGG 1 cut(s) 657
BmsI GCATC 3 cut(s) 277, 858, 1055
BmuI ACTGGG 1 cut(s) 657
BplI GAGNNNNNCTC 2 cut(s) 113, 145
Bpu10I CCTNAGC 1 cut(s) 478
Bpu14I TTCGAA 2 cut(s) 91, 248
BpuEI CTTGAG 2 cut(s) 354, 797
BpuMI CCSGG 1 cut(s) 635
BsaHI GRCGYC 1 cut(s) 84
BsaJI CCNNGG 2 cut(s) 47, 272
Bsc4I CCNNNNNNNGG 3 cut(s) 161, 881, 992
Bse1I ACTGG 2 cut(s) 652, 1085
Bse21I CCTNAGG 1 cut(s) 236
Bse3DI GCAATG 1 cut(s) 155
BseBI CCWGG 4 cut(s) 708, 812, 903, 993
BseDI CCNNGG 2 cut(s) 47, 272
BseGI GGATG 5 cut(s) 325, 457, 849, 1046, 1147
BseLI CCNNNNNNNGG 3 cut(s) 161, 881, 992
BseMI GCAATG 1 cut(s) 155
BseMII CTCAG 5 cut(s) 44, 250, 548, 749, 936
BseNI ACTGG 2 cut(s) 652, 1085
BseSI GKGCMC 1 cut(s) 640
BseXI GCAGC 4 cut(s) 342, 554, 694, 1111
Bsh1236I CGCG 2 cut(s) 16, 1125
BshFI GGCC 3 cut(s) 52, 835, 976
BsiHKAI GWGCWC 1 cut(s) 923
BsiHKCI CYCGRG 1 cut(s) 302
BsiSI CCGG 1 cut(s) 634
BslFI GGGAC 1 cut(s) 574
BslI CCNNNNNNNGG 3 cut(s) 161, 881, 992
BsmFI GGGAC 1 cut(s) 574
BsnI GGCC 3 cut(s) 52, 835, 976
BsoBI CYCGRG 1 cut(s) 302
Bsp119I TTCGAA 2 cut(s) 91, 248
Bsp1286I GDGCHC 3 cut(s) 285, 640, 923
Bsp143I GATC 5 cut(s) 55, 117, 220, 231, 886
Bsp68I TCGCGA 1 cut(s) 16
BspACI CCGC 4 cut(s) 186, 1044, 1125, 1151
BspANI GGCC 3 cut(s) 52, 835, 976
BspCNI CTCAG 5 cut(s) 43, 249, 547, 750, 935
BspFNI CGCG 2 cut(s) 16, 1125
BspLI GGNNCC 1 cut(s) 600
BspPI GGATC 3 cut(s) 215, 226, 881
BspT104I TTCGAA 2 cut(s) 91, 248
BsrBI CCGCTC 1 cut(s) 186
BsrDI GCAATG 1 cut(s) 155
BsrI ACTGG 2 cut(s) 652, 1085
BssECI CCNNGG 2 cut(s) 47, 272
BssMI GATC 5 cut(s) 55, 117, 220, 231, 886
BssNI GRCGYC 1 cut(s) 84
Bst2UI CCWGG 4 cut(s) 708, 812, 903, 993
Bst4CI ACNGT 3 cut(s) 199, 394, 1001
Bst6I CTCTTC 1 cut(s) 478
BstACI GRCGYC 1 cut(s) 84
BstBI TTCGAA 2 cut(s) 91, 248
BstC8I GCNNGC 6 cut(s) 18, 417, 525, 540, 753, 1017
BstDEI CTNAG 7 cut(s) 30, 236, 478, 534, 550, 758, 922
BstDSI CCRYGG 2 cut(s) 47, 272
BstF5I GGATG 5 cut(s) 325, 457, 849, 1046, 1147
BstFNI CGCG 2 cut(s) 16, 1125
BstKTI GATC 5 cut(s) 58, 120, 223, 234, 889
BstMBI GATC 5 cut(s) 55, 117, 220, 231, 886
BstMWI GCNNNNNNNGC 3 cut(s) 352, 412, 551
BstNI CCWGG 4 cut(s) 708, 812, 903, 993
BstNSI RCATGY 3 cut(s) 24, 527, 1019
BstSCI CCNGG 5 cut(s) 633, 706, 810, 901, 991
BstSFI CTRYAG 1 cut(s) 741
BstSLI GKGCMC 1 cut(s) 640
BstUI CGCG 2 cut(s) 16, 1125
BstV1I GCAGC 4 cut(s) 342, 554, 694, 1111
BstX2I RGATCY 2 cut(s) 220, 886
BstYI RGATCY 2 cut(s) 220, 886
Bsu36I CCTNAGG 1 cut(s) 236
BsuRI GGCC 3 cut(s) 52, 835, 976
BtgI CCRYGG 2 cut(s) 47, 272
BtgZI GCGATG 1 cut(s) 458
BtsCI GGATG 5 cut(s) 325, 457, 849, 1046, 1147
BtsIMutI CAGTG 1 cut(s) 113
BtuMI TCGCGA 1 cut(s) 16
Cac8I GCNNGC 6 cut(s) 18, 417, 525, 540, 753, 1017
Cfr13I GGNCC 1 cut(s) 51
CseI GACGC 1 cut(s) 1105
Csp6I GTAC 2 cut(s) 139, 606
CviAII CATG 4 cut(s) 21, 524, 595, 1016
CviQI GTAC 2 cut(s) 139, 606
DdeI CTNAG 7 cut(s) 30, 236, 478, 534, 550, 758, 922
DpnI GATC 5 cut(s) 57, 119, 222, 233, 888
DpnII GATC 5 cut(s) 55, 117, 220, 231, 886
Eam1104I CTCTTC 1 cut(s) 478
EarI CTCTTC 1 cut(s) 478
Eco147I AGGCCT 1 cut(s) 976
Eco24I GRGCYC 1 cut(s) 285
Eco32I GATATC 1 cut(s) 704
Eco57I CTGAAG 1 cut(s) 477
Eco81I CCTNAGG 1 cut(s) 236
Eco88I CYCGRG 1 cut(s) 302
EcoRI GAATTC 1 cut(s) 177
EcoRII CCWGG 4 cut(s) 706, 810, 901, 991
EcoRV GATATC 1 cut(s) 704
EcoT38I GRGCYC 1 cut(s) 285
FaeI CATG 4 cut(s) 24, 527, 598, 1019
FalI AAGNNNNNCTT 2 cut(s) 475, 507
FaqI GGGAC 1 cut(s) 574
FatI CATG 4 cut(s) 20, 523, 594, 1015
FauI CCCGC 1 cut(s) 1051
Fnu4HI GCNGC 4 cut(s) 356, 543, 683, 1100
FokI GGATG 5 cut(s) 332, 444, 836, 1033, 1134
FriOI GRGCYC 1 cut(s) 285
Fsp4HI GCNGC 4 cut(s) 356, 543, 683, 1100
FspBI CTAG 4 cut(s) 6, 132, 641, 806
GluI GCNGC 4 cut(s) 356, 543, 683, 1100
HaeIII GGCC 3 cut(s) 52, 835, 976
HapII CCGG 1 cut(s) 634
HgaI GACGC 1 cut(s) 1105
Hin1I GRCGYC 1 cut(s) 84
Hin1II CATG 4 cut(s) 24, 527, 598, 1019
HinfI GANTC 3 cut(s) 101, 787, 820
HpaII CCGG 1 cut(s) 634
HphI GGTGA 4 cut(s) 218, 682, 1007, 1031
Hpy166II GTNNAC 2 cut(s) 908, 1130
Hpy188I TCNGA 6 cut(s) 33, 106, 183, 759, 925, 1095
Hpy188III TCNNGA 5 cut(s) 15, 224, 495, 776, 828
Hpy8I GTNNAC 2 cut(s) 908, 1130
Hpy99I CGWCG 3 cut(s) 68, 86, 89
HpyAV CCTTC 2 cut(s) 357, 825
HpyCH4III ACNGT 3 cut(s) 199, 394, 1001
HpyCH4IV ACGT 2 cut(s) 35, 84
HpyCH4V TGCA 8 cut(s) 160, 172, 290, 358, 419, 512, 542, 1015
HpyF10VI GCNNNNNNNGC 3 cut(s) 352, 412, 551
HpyF3I CTNAG 7 cut(s) 30, 236, 478, 534, 550, 758, 922
HpySE526I ACGT 2 cut(s) 35, 84
Hsp92I GRCGYC 1 cut(s) 84
Hsp92II CATG 4 cut(s) 24, 527, 598, 1019
Kzo9I GATC 5 cut(s) 55, 117, 220, 231, 886
LmnI GCTCC 4 cut(s) 14, 157, 183, 598
Lsp1109I GCAGC 4 cut(s) 342, 554, 694, 1111
LweI GCATC 3 cut(s) 277, 858, 1055
MaeI CTAG 4 cut(s) 6, 132, 641, 806
MaeII ACGT 2 cut(s) 35, 84
MaeIII GTNAC 3 cut(s) 643, 995, 1027
MalI GATC 5 cut(s) 57, 119, 222, 233, 888
MbiI CCGCTC 1 cut(s) 186
MboI GATC 5 cut(s) 55, 117, 220, 231, 886
MboII GAAGA 3 cut(s) 439, 495, 1082
MfeI CAATTG 1 cut(s) 687
MflI RGATCY 2 cut(s) 220, 886
MhlI GDGCHC 3 cut(s) 285, 640, 923
MluCI AATT 6 cut(s) 145, 177, 251, 570, 687, 843
MseI TTAA 1 cut(s) 969
MspI CCGG 1 cut(s) 634
MspR9I CCNGG 5 cut(s) 635, 708, 812, 903, 993
MunI CAATTG 1 cut(s) 687
MvaI CCWGG 4 cut(s) 708, 812, 903, 993
MvnI CGCG 2 cut(s) 16, 1125
MwoI GCNNNNNNNGC 3 cut(s) 352, 412, 551
NciI CCSGG 1 cut(s) 635
NdeII GATC 5 cut(s) 55, 117, 220, 231, 886
NlaIII CATG 4 cut(s) 24, 527, 598, 1019
NlaIV GGNNCC 1 cut(s) 600
NmuCI GTSAC 3 cut(s) 643, 995, 1027
NruI TCGCGA 1 cut(s) 16
NspI RCATGY 3 cut(s) 24, 527, 1019
NspV TTCGAA 2 cut(s) 91, 248
PaeI GCATGC 2 cut(s) 527, 1019
PaeR7I CTCGAG 1 cut(s) 302
PceI AGGCCT 1 cut(s) 976
PcsI WCGNNNNNNNCGW 1 cut(s) 936
PfeI GAWTC 3 cut(s) 101, 787, 820
PflFI GACNNNGTC 1 cut(s) 935
PkrI GCNGC 4 cut(s) 357, 544, 684, 1101
Psp6I CCWGG 4 cut(s) 706, 810, 901, 991
PspGI CCWGG 4 cut(s) 706, 810, 901, 991
PspN4I GGNNCC 1 cut(s) 600
PspPI GGNCC 1 cut(s) 51
PspXI VCTCGAGB 1 cut(s) 302
PsuI RGATCY 2 cut(s) 220, 886
PsyI GACNNNGTC 1 cut(s) 935
RruI TCGCGA 1 cut(s) 16
RsaI GTAC 2 cut(s) 140, 607
RsaNI GTAC 2 cut(s) 139, 606
SaqAI TTAA 1 cut(s) 969
SatI GCNGC 4 cut(s) 356, 543, 683, 1100
Sau3AI GATC 5 cut(s) 55, 117, 220, 231, 886
Sau96I GGNCC 1 cut(s) 51
ScrFI CCNGG 5 cut(s) 635, 708, 812, 903, 993
SduI GDGCHC 3 cut(s) 285, 640, 923
SfaNI GCATC 3 cut(s) 277, 858, 1055
SfcI CTRYAG 1 cut(s) 741
Sfr274I CTCGAG 1 cut(s) 302
SfuI TTCGAA 2 cut(s) 91, 248
SlaI CTCGAG 1 cut(s) 302
SmlI CTYRAG 3 cut(s) 302, 369, 776
SmoI CTYRAG 3 cut(s) 302, 369, 776
SpeI ACTAGT 1 cut(s) 640
SphI GCATGC 2 cut(s) 527, 1019
Sse9I AATT 6 cut(s) 145, 177, 251, 570, 687, 843
SseBI AGGCCT 1 cut(s) 976
SsiI CCGC 4 cut(s) 186, 1044, 1125, 1151
SspI AATATT 1 cut(s) 501
SspMI CTAG 4 cut(s) 6, 132, 641, 806
StuI AGGCCT 1 cut(s) 976
StyD4I CCNGG 5 cut(s) 633, 706, 810, 901, 991
TaaI ACNGT 3 cut(s) 199, 394, 1001
TaiI ACGT 2 cut(s) 38, 87
TaqI TCGA 6 cut(s) 91, 120, 248, 303, 930, 939
TasI AATT 6 cut(s) 145, 177, 251, 570, 687, 843
TatI WGTACW 1 cut(s) 138
TfiI GAWTC 3 cut(s) 101, 787, 820
Tru1I TTAA 1 cut(s) 969
Tru9I TTAA 1 cut(s) 969
TscAI CASTG 1 cut(s) 120
TseFI GTSAC 3 cut(s) 643, 995, 1027
TseI GCWGC 4 cut(s) 355, 542, 682, 1099
Tsp45I GTSAC 3 cut(s) 643, 995, 1027
TspDTI ATGAA 2 cut(s) 779, 957
TspGWI ACGGA 2 cut(s) 81, 261
TspRI CASTG 1 cut(s) 120
Tth111I GACNNNGTC 1 cut(s) 935
XapI RAATTY 2 cut(s) 177, 843
XceI RCATGY 3 cut(s) 24, 527, 1019
XcmI CCANNNNNNNNNTGG 1 cut(s) 162
XhoI CTCGAG 1 cut(s) 302
XspI CTAG 4 cut(s) 6, 132, 641, 806
ZraI GACGTC 1 cut(s) 85
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.