MD13G1109900.v1.1

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0014008
Physical Location & Seq
Forward (+)
7991041 .. 7993307
2267 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1109900.v1.1.491

Sequence Viewer

Length: 1158 bp
ATGAAGCTCATCCAAGTCTCTGCCGCCCGGTCCAGAGCTTCTCTGTATTTTATTCATGGAGGAGTGACCTCTCGGACTCCCAAGCCACGCCCTGCTTCCTCTGCAGCTCCCAAAGTCGGAACCTTTAGTCGGAGCCGTCTCTCAGTGTGTGGCTTTTGCAGGACCCTTCAACGAAACAAAGTAGCTATGGATGGCATTGTCAGATCAGCAACAAGTAATGCCTATTGCTCCATGTTCTGCAGATCTCACCATAAAGCAGTAGCATTGCTATCCTCAAGAAAGATATGGTTTAGGAAAGATATTTTGAGACCTTTTTCCACGTGCACCGAACCATTGATCTCTCCAATTTCCCCTCTTATCATTCGTCGCCCCCCATCGTCGCTAGTGCTAGCCACCCGGCTTTCACCATCTGATGCTCCCCAGCGATCAGAGGAGTGGTTTGCCCTACGCAAGGACAAGCTGACCACGAGCACCTTCAGCACTGCCTTGGGATTTTGGAAGGGGACACGCCGGCCAGAGCTCTGGCAGGAGAAGGTATTTGAATCCGAGAAACAAATTGTGGAAGCTTCTAAGAGAGCCATGGAGTGGGGCGTGCTCAATGAAGAAGTGGCCATTGAAAAGTACAAAAGCATCACAGGTCGCGAAGTGAGTTCATACGGATTTGCTACCCACGCAGATGAGCGATATGGTTGGATTGGTGCCTCCCCTGATGGTCTTCTCGAGGGTCTTATTGATTGCTATCAAGGTGGTGGGATACTGGAAGTGAAGTGTCCGTACAACAAGGGCAAGCCAGACAAGGCTCTTCCGTGGTCAACCATGCCTTTCTATTACATGCCTCAGATGCAGGGCCAAATGGAGGTAATGGACAGAGAGTGGGTTGATCTGTACTGCTGGACACCGAATGGAAGCACAATATTTCGCGTGTGCAGGGACCGGAGTTATTGGAACTTGATGCATGGAATTTTACGGGAATTCTGGTGGGAAAATGTGGTTCCGGCGAGGGAGGCTCTATTGCTGGGGAAAGAAGAAGAGGCCAAGCAATATATTCCGACTTCCACACACAAACAAACAGGGCTTGCCATTGTCAAAAGCTTGAAGCTTGCCAGTGAGTCTAAGCTGTTGTGCAGAGAAATTGCAGGTCATGTCGAATTTTTCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04714 map04714
Pfam Domains
Protein Families
YqaJ

Protein Analysis

386

Amino Acids

43.73

Weight (kDa)

9.47

Isoelectric Point (pI)

54.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 145 - 289 9.2e-22 YqaJ-like viral recombinase domain
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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Orthologous Genes (Group: OG0014008)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67660 AT1G67660
fragaria_vesca FvH4_4g24601
malus_domestica MD13G1109900.v1.1
prunus_persica Prupe.1G235100_v2.0.a1 Prupe.1G235100_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0431611
rosa_laevigata RLG00000006904
rosa_multiflora Rmu_sc0031555.1_g000001
rosa_roxburghii Rroxscaffold_5G00373070
rosa_rugosa Rorug04G0251200 Rorug04G0251300
rosa_samantha Rh4AG308100 Rh4BG315700 Rh4CG331200 Rh4DG310500
rosa_wichuraiana Rw4G026700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1127
AccB1I GGYRCC 1 cut(s) 698
AccB7I CCANNNNNTGG 1 cut(s) 585
AccII CGCG 2 cut(s) 642, 921
AciI CCGC 1 cut(s) 24
AcoI YGGCCR 2 cut(s) 512, 609
AcsI RAATTY 3 cut(s) 960, 971, 1148
AcuI CTGAAG 1 cut(s) 460
AcvI CACGTG 1 cut(s) 321
AfaI GTAC 3 cut(s) 623, 776, 887
AfiI CCNNNNNNNGG 5 cut(s) 116, 129, 451, 585, 856
AgsI TTSAA 4 cut(s) 170, 542, 617, 1096
Alw21I GWGCWC 4 cut(s) 326, 473, 522, 597
Alw26I GTCTC 3 cut(s) 22, 143, 301
Alw44I GTGCAC 1 cut(s) 322
Ama87I CYCGRG 1 cut(s) 719
AoxI GGCC 4 cut(s) 512, 609, 847, 1032
ApaLI GTGCAC 1 cut(s) 322
ApeKI GCWGC 1 cut(s) 104
ApoI RAATTY 3 cut(s) 960, 971, 1148
AspS9I GGNCC 4 cut(s) 30, 162, 847, 931
AsuC2I CCSGG 2 cut(s) 28, 397
AsuHPI GGTGA 2 cut(s) 239, 396
AsuNHI GCTAGC 1 cut(s) 388
AvaI CYCGRG 1 cut(s) 719
AvaII GGWCC 3 cut(s) 30, 162, 931
BaeGI GKGCMC 1 cut(s) 326
BalI TGGCCA 1 cut(s) 611
BanI GGYRCC 1 cut(s) 698
BanII GRGCYC 1 cut(s) 522
BarI GAAGNNNNNNTAC 2 cut(s) 758, 790
BauI CACGAG 1 cut(s) 466
BbrPI CACGTG 1 cut(s) 321
BbsI GAAGAC 1 cut(s) 707
Bbv12I GWGCWC 4 cut(s) 326, 473, 522, 597
BbvI GCAGC 1 cut(s) 116
BccI CCATC 4 cut(s) 185, 382, 415, 704
BceAI ACGGC 1 cut(s) 120
BciVI GTATCC 1 cut(s) 747
BcnI CCSGG 2 cut(s) 28, 397
BcoDI GTCTC 3 cut(s) 22, 143, 301
BfaI CTAG 3 cut(s) 383, 389, 1156
BfmI CTRYAG 2 cut(s) 102, 238
BfuAI ACCTGC 1 cut(s) 1127
BfuI GTATCC 1 cut(s) 747
BglII AGATCT 1 cut(s) 242
BisI GCNGC 2 cut(s) 24, 105
BlsI GCNGC 2 cut(s) 25, 106
Bme1390I CCNGG 2 cut(s) 28, 397
Bme18I GGWCC 3 cut(s) 30, 162, 931
BmeT110I CYCGRG 1 cut(s) 719
BmgT120I GGNCC 4 cut(s) 30, 162, 847, 931
BmiI GGNNCC 6 cut(s) 121, 134, 164, 700, 932, 993
BmrFI CCNGG 2 cut(s) 28, 397
BmsI GCATC 4 cut(s) 403, 639, 831, 942
BmtI GCTAGC 1 cut(s) 392
BpiI GAAGAC 1 cut(s) 707
BplI GAGNNNNNCTC 2 cut(s) 991, 1023
BpuEI CTTGAG 1 cut(s) 259
BpuMI CCSGG 2 cut(s) 28, 397
BsaAI YACGTR 1 cut(s) 321
BsaBI GATNNNNATC 1 cut(s) 738
BsaI GGTCTC 1 cut(s) 301
BsaJI CCNNGG 3 cut(s) 486, 579, 806
BsaWI WCCGGW 1 cut(s) 933
Bsc4I CCNNNNNNNGG 5 cut(s) 116, 129, 451, 585, 856
Bse118I RCCGGY 1 cut(s) 510
Bse1I ACTGG 2 cut(s) 762, 1104
Bse3DI GCAATG 1 cut(s) 263
Bse8I GATNNNNATC 1 cut(s) 738
BseDI CCNNGG 3 cut(s) 486, 579, 806
BseGI GGATG 2 cut(s) 9, 196
BseJI GATNNNNATC 1 cut(s) 738
BseLI CCNNNNNNNGG 5 cut(s) 116, 129, 451, 585, 856
BseMI GCAATG 1 cut(s) 263
BseMII CTCAG 2 cut(s) 156, 851
BseNI ACTGG 2 cut(s) 762, 1104
BseRI GAGGAG 2 cut(s) 75, 446
BseSI GKGCMC 1 cut(s) 326
BseXI GCAGC 1 cut(s) 116
BseYI CCCAGC 2 cut(s) 420, 1015
BsgI GTGCAG 2 cut(s) 946, 1144
Bsh1236I CGCG 2 cut(s) 642, 921
BshFI GGCC 4 cut(s) 514, 611, 849, 1034
BshNI GGYRCC 1 cut(s) 698
BsiHKAI GWGCWC 4 cut(s) 326, 473, 522, 597
BsiHKCI CYCGRG 1 cut(s) 719
BsiSI CCGG 5 cut(s) 28, 397, 511, 934, 995
BslFI GGGAC 2 cut(s) 517, 944
BslI CCNNNNNNNGG 5 cut(s) 116, 129, 451, 585, 856
BsmAI GTCTC 3 cut(s) 22, 143, 301
BsmBI CGTCTC 1 cut(s) 143
BsmFI GGGAC 2 cut(s) 517, 944
BsnI GGCC 4 cut(s) 514, 611, 849, 1034
Bso31I GGTCTC 1 cut(s) 301
BsoBI CYCGRG 1 cut(s) 719
Bsp1286I GDGCHC 4 cut(s) 326, 473, 522, 597
Bsp143I GATC 5 cut(s) 203, 242, 336, 425, 880
Bsp19I CCATGG 1 cut(s) 579
Bsp68I TCGCGA 1 cut(s) 642
BspACI CCGC 1 cut(s) 24
BspANI GGCC 4 cut(s) 514, 611, 849, 1034
BspCNI CTCAG 2 cut(s) 155, 850
BspFNI CGCG 2 cut(s) 642, 921
BspLI GGNNCC 6 cut(s) 121, 134, 164, 700, 932, 993
BspMAI CTGCAG 2 cut(s) 106, 242
BspMI ACCTGC 1 cut(s) 1127
BspOI GCTAGC 1 cut(s) 392
BspQI GCTCTTC 1 cut(s) 807
BspT107I GGYRCC 1 cut(s) 698
BspTNI GGTCTC 1 cut(s) 301
BsrDI GCAATG 1 cut(s) 263
BsrFI RCCGGY 1 cut(s) 510
BsrI ACTGG 2 cut(s) 762, 1104
BssAI RCCGGY 1 cut(s) 510
BssECI CCNNGG 3 cut(s) 486, 579, 806
BssMI GATC 5 cut(s) 203, 242, 336, 425, 880
BssSI CACGAG 1 cut(s) 466
BssT1I CCWWGG 2 cut(s) 486, 579
Bst2BI CACGAG 1 cut(s) 466
Bst6I CTCTTC 2 cut(s) 807, 1023
BstBAI YACGTR 1 cut(s) 321
BstC8I GCNNGC 6 cut(s) 390, 512, 593, 788, 1077, 1101
BstDEI CTNAG 4 cut(s) 142, 570, 837, 1113
BstDSI CCRYGG 2 cut(s) 579, 806
BstENI CCTNNNNNAGG 1 cut(s) 449
BstF5I GGATG 2 cut(s) 9, 196
BstFNI CGCG 2 cut(s) 642, 921
BstKTI GATC 5 cut(s) 206, 245, 339, 428, 883
BstMAI GTCTC 3 cut(s) 22, 143, 301
BstMBI GATC 5 cut(s) 203, 242, 336, 425, 880
BstMWI GCNNNNNNNGC 5 cut(s) 101, 477, 671, 841, 1004
BstNSI RCATGY 1 cut(s) 835
BstSCI CCNGG 2 cut(s) 26, 395
BstSFI CTRYAG 2 cut(s) 102, 238
BstSLI GKGCMC 1 cut(s) 326
BstUI CGCG 2 cut(s) 642, 921
BstV1I GCAGC 1 cut(s) 116
BstV2I GAAGAC 1 cut(s) 707
BstX2I RGATCY 1 cut(s) 242
BstXI CCANNNNNNTGG 1 cut(s) 522
BstYI RGATCY 1 cut(s) 242
BsuI GTATCC 1 cut(s) 747
BsuRI GGCC 4 cut(s) 514, 611, 849, 1034
BtgI CCRYGG 2 cut(s) 579, 806
BtsCI GGATG 2 cut(s) 9, 196
BtsI GCAGTG 1 cut(s) 480
BtsIMutI CAGTG 3 cut(s) 150, 480, 1111
BtuMI TCGCGA 1 cut(s) 642
BveI ACCTGC 1 cut(s) 1127
Cac8I GCNNGC 6 cut(s) 390, 512, 593, 788, 1077, 1101
Cfr10I RCCGGY 1 cut(s) 510
Cfr13I GGNCC 4 cut(s) 30, 162, 847, 931
Csp6I GTAC 3 cut(s) 622, 775, 886
CviAII CATG 7 cut(s) 56, 232, 580, 817, 832, 956, 1142
CviQI GTAC 3 cut(s) 622, 775, 886
DdeI CTNAG 4 cut(s) 142, 570, 837, 1113
DpnI GATC 5 cut(s) 205, 244, 338, 427, 882
DpnII GATC 5 cut(s) 203, 242, 336, 425, 880
EaeI YGGCCR 2 cut(s) 512, 609
Eam1104I CTCTTC 2 cut(s) 807, 1023
EarI CTCTTC 2 cut(s) 807, 1023
Ecl136II GAGCTC 1 cut(s) 520
Eco130I CCWWGG 2 cut(s) 486, 579
Eco24I GRGCYC 1 cut(s) 522
Eco31I GGTCTC 1 cut(s) 301
Eco47I GGWCC 3 cut(s) 30, 162, 931
Eco53kI GAGCTC 1 cut(s) 520
Eco57I CTGAAG 1 cut(s) 460
Eco72I CACGTG 1 cut(s) 321
Eco88I CYCGRG 1 cut(s) 719
EcoICRI GAGCTC 1 cut(s) 520
EcoNI CCTNNNNNAGG 1 cut(s) 449
EcoO109I RGGNCCY 1 cut(s) 162
EcoRI GAATTC 1 cut(s) 971
EcoT14I CCWWGG 2 cut(s) 486, 579
EcoT22I ATGCAT 1 cut(s) 957
EcoT38I GRGCYC 1 cut(s) 522
ErhI CCWWGG 2 cut(s) 486, 579
Esp3I CGTCTC 1 cut(s) 143
FaeI CATG 7 cut(s) 59, 235, 583, 820, 835, 959, 1145
FaqI GGGAC 2 cut(s) 517, 944
FatI CATG 7 cut(s) 55, 231, 579, 816, 831, 955, 1141
Fnu4HI GCNGC 2 cut(s) 24, 105
FokI GGATG 1 cut(s) 203
FriOI GRGCYC 1 cut(s) 522
Fsp4HI GCNGC 2 cut(s) 24, 105
FspBI CTAG 3 cut(s) 383, 389, 1156
GluI GCNGC 2 cut(s) 24, 105
GsaI CCCAGC 2 cut(s) 424, 1019
HaeIII GGCC 4 cut(s) 514, 611, 849, 1034
HapII CCGG 5 cut(s) 28, 397, 511, 934, 995
Hin1II CATG 7 cut(s) 59, 235, 583, 820, 835, 959, 1145
HincII GTYRAC 1 cut(s) 813
HindII GTYRAC 1 cut(s) 813
HindIII AAGCTT 3 cut(s) 564, 1090, 1097
HinfI GANTC 3 cut(s) 76, 542, 1109
HpaII CCGG 5 cut(s) 28, 397, 511, 934, 995
HphI GGTGA 2 cut(s) 239, 396
Hpy166II GTNNAC 2 cut(s) 324, 813
Hpy188I TCNGA 9 cut(s) 75, 119, 132, 203, 412, 430, 547, 840, 1050
Hpy188III TCNNGA 4 cut(s) 33, 276, 641, 719
Hpy8I GTNNAC 2 cut(s) 324, 813
Hpy99I CGWCG 2 cut(s) 369, 382
HpyAV CCTTC 4 cut(s) 176, 484, 493, 526
HpyCH4IV ACGT 1 cut(s) 320
HpyCH4V TGCA 9 cut(s) 104, 159, 240, 324, 844, 927, 955, 1125, 1136
HpyF10VI GCNNNNNNNGC 5 cut(s) 101, 477, 671, 841, 1004
HpyF3I CTNAG 4 cut(s) 142, 570, 837, 1113
HpySE526I ACGT 1 cut(s) 320
Hsp92II CATG 7 cut(s) 59, 235, 583, 820, 835, 959, 1145
KroI GCCGGC 1 cut(s) 510
KroNI GCCGGC 1 cut(s) 512
Kzo9I GATC 5 cut(s) 203, 242, 336, 425, 880
LguI GCTCTTC 1 cut(s) 807
LmnI GCTCC 4 cut(s) 112, 132, 233, 421
Lsp1109I GCAGC 1 cut(s) 116
LweI GCATC 4 cut(s) 403, 639, 831, 942
MaeI CTAG 3 cut(s) 383, 389, 1156
MaeII ACGT 1 cut(s) 320
MaeIII GTNAC 1 cut(s) 64
MalI GATC 5 cut(s) 205, 244, 338, 427, 882
MboI GATC 5 cut(s) 203, 242, 336, 425, 880
MboII GAAGA 5 cut(s) 614, 707, 794, 1037, 1040
MflI RGATCY 1 cut(s) 242
MhlI GDGCHC 4 cut(s) 326, 473, 522, 597
MlsI TGGCCA 1 cut(s) 611
MluCI AATT 6 cut(s) 345, 555, 960, 971, 1131, 1148
MluNI TGGCCA 1 cut(s) 611
MlyI GAGTC 2 cut(s) 70, 1118
MmeI TCCRAC 4 cut(s) 97, 110, 671, 1073
Mox20I TGGCCA 1 cut(s) 611
Mph1103I ATGCAT 1 cut(s) 957
MroNI GCCGGC 1 cut(s) 510
MscI TGGCCA 1 cut(s) 611
MslI CAYNNNNRTG 1 cut(s) 675
Msp20I TGGCCA 1 cut(s) 611
MspI CCGG 5 cut(s) 28, 397, 511, 934, 995
MspR9I CCNGG 2 cut(s) 28, 397
MvnI CGCG 2 cut(s) 642, 921
MwoI GCNNNNNNNGC 5 cut(s) 101, 477, 671, 841, 1004
NaeI GCCGGC 1 cut(s) 512
NciI CCSGG 2 cut(s) 28, 397
NcoI CCATGG 1 cut(s) 579
NdeII GATC 5 cut(s) 203, 242, 336, 425, 880
NgoMIV GCCGGC 1 cut(s) 510
NheI GCTAGC 1 cut(s) 388
NlaIII CATG 7 cut(s) 59, 235, 583, 820, 835, 959, 1145
NlaIV GGNNCC 6 cut(s) 121, 134, 164, 700, 932, 993
NmuCI GTSAC 1 cut(s) 64
NruI TCGCGA 1 cut(s) 642
NsiI ATGCAT 1 cut(s) 957
NspI RCATGY 1 cut(s) 835
PaeR7I CTCGAG 1 cut(s) 719
PciSI GCTCTTC 1 cut(s) 807
PdiI GCCGGC 1 cut(s) 512
PfeI GAWTC 1 cut(s) 542
PflMI CCANNNNNTGG 1 cut(s) 585
PkrI GCNGC 2 cut(s) 25, 106
PleI GAGTC 2 cut(s) 70, 1117
PmaCI CACGTG 1 cut(s) 321
PmlI CACGTG 1 cut(s) 321
PpsI GAGTC 2 cut(s) 70, 1117
Ppu21I YACGTR 1 cut(s) 321
PpuMI RGGWCCY 1 cut(s) 162
Psp124BI GAGCTC 1 cut(s) 522
Psp5II RGGWCCY 1 cut(s) 162
PspCI CACGTG 1 cut(s) 321
PspFI CCCAGC 2 cut(s) 420, 1015
PspN4I GGNNCC 6 cut(s) 121, 134, 164, 700, 932, 993
PspPI GGNCC 4 cut(s) 30, 162, 847, 931
PspPPI RGGWCCY 1 cut(s) 162
PstI CTGCAG 2 cut(s) 106, 242
PsuI RGATCY 1 cut(s) 242
RruI TCGCGA 1 cut(s) 642
RsaI GTAC 3 cut(s) 623, 776, 887
RsaNI GTAC 3 cut(s) 622, 775, 886
RseI CAYNNNNRTG 1 cut(s) 675
SacI GAGCTC 1 cut(s) 522
SapI GCTCTTC 1 cut(s) 807
SatI GCNGC 2 cut(s) 24, 105
Sau3AI GATC 5 cut(s) 203, 242, 336, 425, 880
Sau96I GGNCC 4 cut(s) 30, 162, 847, 931
SchI GAGTC 2 cut(s) 70, 1118
ScrFI CCNGG 2 cut(s) 28, 397
SduI GDGCHC 4 cut(s) 326, 473, 522, 597
SfaNI GCATC 4 cut(s) 403, 639, 831, 942
SfcI CTRYAG 2 cut(s) 102, 238
Sfr274I CTCGAG 1 cut(s) 719
SinI GGWCC 3 cut(s) 30, 162, 931
SlaI CTCGAG 1 cut(s) 719
SmiMI CAYNNNNRTG 1 cut(s) 675
SmlI CTYRAG 2 cut(s) 274, 719
SmoI CTYRAG 2 cut(s) 274, 719
Sse9I AATT 6 cut(s) 345, 555, 960, 971, 1131, 1148
SsiI CCGC 1 cut(s) 24
SspI AATATT 1 cut(s) 915
SspMI CTAG 3 cut(s) 383, 389, 1156
SstI GAGCTC 1 cut(s) 522
StyD4I CCNGG 2 cut(s) 26, 395
StyI CCWWGG 2 cut(s) 486, 579
TaiI ACGT 1 cut(s) 323
TaqI TCGA 2 cut(s) 720, 1146
TasI AATT 6 cut(s) 345, 555, 960, 971, 1131, 1148
TatI WGTACW 2 cut(s) 621, 885
TauI GCSGC 1 cut(s) 26
TfiI GAWTC 1 cut(s) 542
TscAI CASTG 3 cut(s) 150, 487, 1111
TseFI GTSAC 1 cut(s) 64
TseI GCWGC 1 cut(s) 104
Tsp45I GTSAC 1 cut(s) 64
TspDTI ATGAA 4 cut(s) 17, 44, 615, 642
TspGWI ACGGA 3 cut(s) 672, 762, 795
TspRI CASTG 3 cut(s) 150, 487, 1111
Van91I CCANNNNNTGG 1 cut(s) 585
VneI GTGCAC 1 cut(s) 322
VpaK11BI GGWCC 3 cut(s) 30, 162, 931
XagI CCTNNNNNAGG 1 cut(s) 449
XapI RAATTY 3 cut(s) 960, 971, 1148
XceI RCATGY 1 cut(s) 835
XhoI CTCGAG 1 cut(s) 719
XspI CTAG 3 cut(s) 383, 389, 1156
Zsp2I ATGCAT 1 cut(s) 957
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.