MD03G1055200.v1.1

Catalytic subunit of a heterodimeric structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
Physical Location & Seq
Forward (+)
4396488 .. 4398581
2094 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1055200.v1.1.491

Sequence Viewer

Length: 1191 bp
ATGAGGCAGAAGAAAAAGGCAGGATCAGAAATCCCAGAAACCCTAACGGCGATGGCAGCAGTAGAAGAAGAAGGAGAAGGTCGATTCTTTGCTTGCTATCTGTTGAGCTCTCGCAGCCCTCGCTACAAAGGCCACACTTATATTGGATTCACTGTGAATCCGCGGCGGCGAATAAGGCAGCACAACGGAGAAATATCGCAAGGAGCTTGGAGAACGAAGCGAAAGCGGCCTTGGGAGATGGTTTTGTGCATCTATGGTTTCCCAACAAACGTTTCTGCTCTCCAGTTTGAATGGGCCTGGCAGAATCCAACTGTATCAAAGGCAGTTAGGCAGGCTGCTGCAAGCTTTAAAACCCTTGGAGGACTTGTCAGCAAGATCAAGCTTGCATACACAATGCTCACTCTTCCGCCTTGGCACAGCTTGAACCTCACTGTGAACTTCTTTTCAAGCCAGTACATCAAGCATTCTACTGGCTGTCCACACCTGCCGGAGCAGATGAAGGTCAAAGTTTGTTCCATGGATGATCTTCCTTCCTCAACCAAACTATCTGATGACATTTTCGAAAATGAAGATGATTGGTGCAATGAAAGGGAATGTGACGAAGATATGTGTACCAGTAGTTCACCACAGGAAGACACATTATCAGACATCATGGTTCATAATTCACCAGGCGATCAGCAAAATGATATCGGCAATAAAGTTGGAAATTATGAGTGCTACAATGAAAAAGAATGCGATGAATTCTTGAATGATAGCACACTACAGGAAGAAACATTATCAGATTTTATAGTTCATAATTCAGAAGACGATCAGCAGGATGATCCAGGAAAGACAATTAACGACGTATATGGAGACAGTCAAGAAGTAAGAGAAGATTTCACAGAGCAGTTTGGTTTTATAACATCACCGGTGAGAATTCCATCTTCGAATGTGGCTGCCAGTACCACATCTTCTGATGACTGTAGCGTTGAATTGAGGCATCCTGTAAGGGAACAATTGACAACTACAGTTACAGACGATGATCAGTCACCGGGCAAAAGCTATCTCAGGCCTTGTGGAGGCGAGATAATAGATTTGACAACTCCAGCTCCCCAATGCAGAGGCGGTTTATGCGGGAAAAAGAGCAGAGTTACTAGTGCTTATCCTCAGATTATTGACTTGACTATGTCTCCAAATTTCATCCAGTTGTAG

Protein Analysis

397

Amino Acids

44.54

Weight (kDa)

4.93

Isoelectric Point (pI)

56.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
GIY-YIG PF01541 32 - 104 1.4e-13 GIY-YIG catalytic domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 899
AarI CACCTGC 1 cut(s) 492
Acc36I ACCTGC 1 cut(s) 492
AccII CGCG 1 cut(s) 163
AciI CCGC 7 cut(s) 161, 163, 166, 226, 407, 1104, 1113
AclI AACGTT 1 cut(s) 270
AclWI GGATC 2 cut(s) 31, 815
AcsI RAATTY 3 cut(s) 740, 915, 1174
AfaI GTAC 3 cut(s) 455, 613, 943
AfiI CCNNNNNNNGG 1 cut(s) 1058
AgeI ACCGGT 1 cut(s) 907
AgsI TTSAA 5 cut(s) 290, 424, 447, 748, 971
AhlI ACTAGT 1 cut(s) 1133
AjnI CCWGG 3 cut(s) 296, 667, 823
AjuI GAANNNNNNNTTGG 4 cut(s) 214, 246, 256, 288
AluBI AGCT 7 cut(s) 108, 206, 345, 382, 420, 1041, 1088
AluI AGCT 7 cut(s) 108, 206, 345, 382, 420, 1041, 1088
Alw21I GWGCWC 1 cut(s) 110
Alw26I GTCTC 2 cut(s) 846, 1173
AlwI GGATC 2 cut(s) 31, 815
AoxI GGCC 4 cut(s) 130, 227, 294, 1049
ApeKI GCWGC 6 cut(s) 56, 114, 178, 335, 338, 935
ApoI RAATTY 3 cut(s) 740, 915, 1174
AsiGI ACCGGT 1 cut(s) 907
AspS9I GGNCC 1 cut(s) 294
AsuC2I CCSGG 1 cut(s) 1032
AsuHPI GGTGA 5 cut(s) 615, 657, 897, 922, 1020
AsuII TTCGAA 2 cut(s) 561, 926
BanII GRGCYC 1 cut(s) 110
BarI GAAGNNNNNNTAC 2 cut(s) 934, 966
BbsI GAAGAC 2 cut(s) 639, 810
Bbv12I GWGCWC 1 cut(s) 110
BbvI GCAGC 6 cut(s) 68, 126, 190, 322, 325, 922
BccI CCATC 3 cut(s) 46, 232, 928
BceAI ACGGC 1 cut(s) 63
BciT130I CCWGG 3 cut(s) 298, 669, 825
BclI TGATCA 1 cut(s) 1021
BcnI CCSGG 1 cut(s) 1032
BcoDI GTCTC 2 cut(s) 846, 1173
BcuI ACTAGT 1 cut(s) 1133
BfaI CTAG 1 cut(s) 1134
BfmI CTRYAG 3 cut(s) 761, 961, 1005
BfuAI ACCTGC 1 cut(s) 492
BisI GCNGC 9 cut(s) 57, 115, 164, 167, 179, 227, 336, 339, 936
BlsI GCNGC 9 cut(s) 58, 116, 165, 168, 180, 228, 337, 340, 937
Bme1390I CCNGG 4 cut(s) 298, 669, 825, 1032
BmgT120I GGNCC 1 cut(s) 294
BmrFI CCNGG 4 cut(s) 298, 669, 825, 1032
BmsI GCATC 2 cut(s) 258, 988
BpiI GAAGAC 2 cut(s) 639, 810
BpmI CTGGAG 2 cut(s) 266, 1068
Bpu14I TTCGAA 2 cut(s) 561, 926
BpuMI CCSGG 1 cut(s) 1032
BsaJI CCNNGG 5 cut(s) 161, 230, 355, 410, 516
BsaWI WCCGGW 1 cut(s) 907
BsaXI ACNNNNNCTCC 6 cut(s) 351, 381, 1072, 1102, 1153, 1183
Bsc4I CCNNNNNNNGG 1 cut(s) 1058
Bse118I RCCGGY 1 cut(s) 907
Bse1I ACTGG 6 cut(s) 283, 451, 475, 615, 939, 1183
Bse3DI GCAATG 1 cut(s) 589
BseBI CCWGG 3 cut(s) 298, 669, 825
BseDI CCNNGG 5 cut(s) 161, 230, 355, 410, 516
BseGI GGATG 4 cut(s) 526, 823, 979, 1179
BseLI CCNNNNNNNGG 1 cut(s) 1058
BseMI GCAATG 1 cut(s) 589
BseMII CTCAG 2 cut(s) 1060, 1160
BseNI ACTGG 6 cut(s) 283, 451, 475, 615, 939, 1183
BseXI GCAGC 6 cut(s) 68, 126, 190, 322, 325, 922
Bsh1236I CGCG 1 cut(s) 163
BshFI GGCC 4 cut(s) 132, 229, 296, 1051
BshTI ACCGGT 1 cut(s) 907
BsiHKAI GWGCWC 1 cut(s) 110
BsiSI CCGG 3 cut(s) 488, 908, 1031
BslI CCNNNNNNNGG 1 cut(s) 1058
BsmAI GTCTC 2 cut(s) 846, 1173
BsmI GAATGC 2 cut(s) 463, 737
BsnI GGCC 4 cut(s) 132, 229, 296, 1051
Bsp119I TTCGAA 2 cut(s) 561, 926
Bsp1286I GDGCHC 1 cut(s) 110
Bsp143I GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
Bsp19I CCATGG 1 cut(s) 516
BspACI CCGC 7 cut(s) 161, 163, 166, 226, 407, 1104, 1113
BspANI GGCC 4 cut(s) 132, 229, 296, 1051
BspCNI CTCAG 2 cut(s) 1059, 1159
BspFNI CGCG 1 cut(s) 163
BspMI ACCTGC 1 cut(s) 492
BspPI GGATC 2 cut(s) 31, 815
BspT104I TTCGAA 2 cut(s) 561, 926
BsrDI GCAATG 1 cut(s) 589
BsrFI RCCGGY 1 cut(s) 907
BsrI ACTGG 6 cut(s) 283, 451, 475, 615, 939, 1183
BssAI RCCGGY 1 cut(s) 907
BssECI CCNNGG 5 cut(s) 161, 230, 355, 410, 516
BssMI GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
BssT1I CCWWGG 4 cut(s) 230, 355, 410, 516
Bst2UI CCWGG 3 cut(s) 298, 669, 825
Bst4CI ACNGT 6 cut(s) 154, 313, 433, 857, 962, 1009
Bst6I CTCTTC 1 cut(s) 408
BstBI TTCGAA 2 cut(s) 561, 926
BstC8I GCNNGC 4 cut(s) 94, 333, 343, 384
BstDEI CTNAG 2 cut(s) 1046, 1146
BstDSI CCRYGG 2 cut(s) 161, 516
BstENI CCTNNNNNAGG 1 cut(s) 1056
BstF5I GGATG 4 cut(s) 526, 823, 979, 1179
BstFNI CGCG 1 cut(s) 163
BstKTI GATC 7 cut(s) 26, 378, 526, 676, 811, 823, 1024
BstMAI GTCTC 2 cut(s) 846, 1173
BstMBI GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
BstMWI GCNNNNNNNGC 7 cut(s) 56, 114, 120, 129, 175, 226, 1110
BstNI CCWGG 3 cut(s) 298, 669, 825
BstSCI CCNGG 4 cut(s) 296, 667, 823, 1030
BstSFI CTRYAG 3 cut(s) 761, 961, 1005
BstUI CGCG 1 cut(s) 163
BstV1I GCAGC 6 cut(s) 68, 126, 190, 322, 325, 922
BstV2I GAAGAC 2 cut(s) 639, 810
BsuRI GGCC 4 cut(s) 132, 229, 296, 1051
BtgI CCRYGG 2 cut(s) 161, 516
BtgZI GCGATG 2 cut(s) 65, 750
BtsCI GGATG 4 cut(s) 526, 823, 979, 1179
BtsIMutI CAGTG 2 cut(s) 150, 429
BveI ACCTGC 1 cut(s) 492
Cac8I GCNNGC 4 cut(s) 94, 333, 343, 384
Cfr10I RCCGGY 1 cut(s) 907
Cfr13I GGNCC 1 cut(s) 294
Cfr42I CCGCGG 1 cut(s) 164
Csp6I GTAC 3 cut(s) 454, 612, 942
CspAI ACCGGT 1 cut(s) 907
CviAII CATG 2 cut(s) 517, 652
CviQI GTAC 3 cut(s) 454, 612, 942
DdeI CTNAG 2 cut(s) 1046, 1146
DpnI GATC 7 cut(s) 25, 377, 525, 675, 810, 822, 1023
DpnII GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
DraI TTTAAA 1 cut(s) 349
Eam1104I CTCTTC 1 cut(s) 408
EarI CTCTTC 1 cut(s) 408
EciI GGCGGA 1 cut(s) 396
Ecl136II GAGCTC 1 cut(s) 108
Eco130I CCWWGG 4 cut(s) 230, 355, 410, 516
Eco147I AGGCCT 1 cut(s) 1051
Eco24I GRGCYC 1 cut(s) 110
Eco32I GATATC 1 cut(s) 688
Eco53kI GAGCTC 1 cut(s) 108
EcoICRI GAGCTC 1 cut(s) 108
EcoNI CCTNNNNNAGG 1 cut(s) 1056
EcoRI GAATTC 2 cut(s) 740, 915
EcoRII CCWGG 3 cut(s) 296, 667, 823
EcoRV GATATC 1 cut(s) 688
EcoT14I CCWWGG 4 cut(s) 230, 355, 410, 516
EcoT38I GRGCYC 1 cut(s) 110
ErhI CCWWGG 4 cut(s) 230, 355, 410, 516
FaeI CATG 2 cut(s) 520, 655
FatI CATG 2 cut(s) 516, 651
FauI CCCGC 1 cut(s) 1106
FbaI TGATCA 1 cut(s) 1021
Fnu4HI GCNGC 9 cut(s) 57, 115, 164, 167, 179, 227, 336, 339, 936
FokI GGATG 4 cut(s) 533, 830, 966, 1166
FriOI GRGCYC 1 cut(s) 110
Fsp4HI GCNGC 9 cut(s) 57, 115, 164, 167, 179, 227, 336, 339, 936
FspBI CTAG 1 cut(s) 1134
GluI GCNGC 9 cut(s) 57, 115, 164, 167, 179, 227, 336, 339, 936
GsuI CTGGAG 2 cut(s) 266, 1068
HaeIII GGCC 4 cut(s) 132, 229, 296, 1051
HapII CCGG 3 cut(s) 488, 908, 1031
Hin1II CATG 2 cut(s) 520, 655
HindIII AAGCTT 2 cut(s) 343, 380
HinfI GANTC 4 cut(s) 84, 147, 157, 304
HpaII CCGG 3 cut(s) 488, 908, 1031
HphI GGTGA 5 cut(s) 615, 657, 897, 922, 1020
Hpy166II GTNNAC 4 cut(s) 436, 479, 612, 623
Hpy188I TCNGA 7 cut(s) 28, 550, 646, 781, 802, 955, 1149
Hpy188III TCNNGA 2 cut(s) 745, 860
Hpy8I GTNNAC 4 cut(s) 436, 479, 612, 623
Hpy99I CGWCG 1 cut(s) 845
HpyAV CCTTC 4 cut(s) 65, 71, 493, 540
HpyCH4III ACNGT 6 cut(s) 154, 313, 433, 857, 962, 1009
HpyCH4IV ACGT 2 cut(s) 270, 843
HpyCH4V TGCA 5 cut(s) 249, 341, 386, 582, 1098
HpyF10VI GCNNNNNNNGC 7 cut(s) 56, 114, 120, 129, 175, 226, 1110
HpyF3I CTNAG 2 cut(s) 1046, 1146
HpySE526I ACGT 2 cut(s) 270, 843
Hsp92II CATG 2 cut(s) 520, 655
Ksp22I TGATCA 1 cut(s) 1021
KspI CCGCGG 1 cut(s) 164
Kzo9I GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
LmnI GCTCC 3 cut(s) 203, 490, 1093
Lsp1109I GCAGC 6 cut(s) 68, 126, 190, 322, 325, 922
LweI GCATC 2 cut(s) 258, 988
MaeI CTAG 1 cut(s) 1134
MaeII ACGT 2 cut(s) 270, 843
MaeIII GTNAC 4 cut(s) 596, 1009, 1026, 1129
MalI GATC 7 cut(s) 25, 377, 525, 675, 810, 822, 1023
MboI GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
MfeI CAATTG 1 cut(s) 995
MhlI GDGCHC 1 cut(s) 110
MluCI AATT 9 cut(s) 661, 706, 740, 796, 834, 915, 971, 995, 1174
MmeI TCCRAC 2 cut(s) 332, 682
MnlI CCTC 8 cut(s) 129, 353, 437, 544, 969, 1052, 1094, 1155
MseI TTAA 2 cut(s) 348, 837
MspA1I CMGCKG 1 cut(s) 163
MspI CCGG 3 cut(s) 488, 908, 1031
MspR9I CCNGG 4 cut(s) 298, 669, 825, 1032
MunI CAATTG 1 cut(s) 995
Mva1269I GAATGC 2 cut(s) 463, 737
MvaI CCWGG 3 cut(s) 298, 669, 825
MvnI CGCG 1 cut(s) 163
MwoI GCNNNNNNNGC 7 cut(s) 56, 114, 120, 129, 175, 226, 1110
NciI CCSGG 1 cut(s) 1032
NcoI CCATGG 1 cut(s) 516
NdeII GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
NlaIII CATG 2 cut(s) 520, 655
NmuCI GTSAC 2 cut(s) 596, 1026
NspV TTCGAA 2 cut(s) 561, 926
PaqCI CACCTGC 1 cut(s) 492
PceI AGGCCT 1 cut(s) 1051
PctI GAATGC 2 cut(s) 463, 737
PfeI GAWTC 4 cut(s) 84, 147, 157, 304
PflFI GACNNNGTC 1 cut(s) 1165
PfoI TCCNGGA 1 cut(s) 823
PinAI ACCGGT 1 cut(s) 907
PkrI GCNGC 9 cut(s) 58, 116, 165, 168, 180, 228, 337, 340, 937
PsiI TTATAA 1 cut(s) 899
Psp124BI GAGCTC 1 cut(s) 110
Psp1406I AACGTT 1 cut(s) 270
Psp6I CCWGG 3 cut(s) 296, 667, 823
PspGI CCWGG 3 cut(s) 296, 667, 823
PspPI GGNCC 1 cut(s) 294
PsrI GAACNNNNNNTAC 2 cut(s) 604, 636
PsyI GACNNNGTC 1 cut(s) 1165
RsaI GTAC 3 cut(s) 455, 613, 943
RsaNI GTAC 3 cut(s) 454, 612, 942
SacI GAGCTC 1 cut(s) 110
SacII CCGCGG 1 cut(s) 164
SaqAI TTAA 2 cut(s) 348, 837
SatI GCNGC 9 cut(s) 57, 115, 164, 167, 179, 227, 336, 339, 936
Sau3AI GATC 7 cut(s) 23, 375, 523, 673, 808, 820, 1021
Sau96I GGNCC 1 cut(s) 294
ScrFI CCNGG 4 cut(s) 298, 669, 825, 1032
SduI GDGCHC 1 cut(s) 110
SfaNI GCATC 2 cut(s) 258, 988
SfcI CTRYAG 3 cut(s) 761, 961, 1005
Sfr303I CCGCGG 1 cut(s) 164
SfuI TTCGAA 2 cut(s) 561, 926
SgrAI CRCCGGYG 1 cut(s) 907
SgrBI CCGCGG 1 cut(s) 164
SpeI ACTAGT 1 cut(s) 1133
Sse9I AATT 9 cut(s) 661, 706, 740, 796, 834, 915, 971, 995, 1174
SseBI AGGCCT 1 cut(s) 1051
SsiI CCGC 7 cut(s) 161, 163, 166, 226, 407, 1104, 1113
SspMI CTAG 1 cut(s) 1134
SstI GAGCTC 1 cut(s) 110
StuI AGGCCT 1 cut(s) 1051
StyD4I CCNGG 4 cut(s) 296, 667, 823, 1030
StyI CCWWGG 4 cut(s) 230, 355, 410, 516
TaaI ACNGT 6 cut(s) 154, 313, 433, 857, 962, 1009
TaiI ACGT 2 cut(s) 273, 846
TaqI TCGA 3 cut(s) 82, 561, 926
TasI AATT 9 cut(s) 661, 706, 740, 796, 834, 915, 971, 995, 1174
TatI WGTACW 1 cut(s) 453
TauI GCSGC 3 cut(s) 166, 169, 229
TfiI GAWTC 4 cut(s) 84, 147, 157, 304
Tru1I TTAA 2 cut(s) 348, 837
Tru9I TTAA 2 cut(s) 348, 837
TscAI CASTG 2 cut(s) 157, 436
TseFI GTSAC 2 cut(s) 596, 1026
TseI GCWGC 6 cut(s) 56, 114, 178, 335, 338, 935
Tsp45I GTSAC 2 cut(s) 596, 1026
TspDTI ATGAA 8 cut(s) 512, 582, 600, 647, 738, 753, 782, 1168
TspGWI ACGGA 1 cut(s) 201
TspRI CASTG 2 cut(s) 157, 436
Tth111I GACNNNGTC 1 cut(s) 1165
XagI CCTNNNNNAGG 1 cut(s) 1056
XapI RAATTY 3 cut(s) 740, 915, 1174
XcmI CCANNNNNNNNNTGG 1 cut(s) 140
XspI CTAG 1 cut(s) 1134
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.