MD13G1097900.v1.1

synapsis

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0008767
Physical Location & Seq
Reverse (-)
6941474 .. 6943771
2298 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1097900.v1.1.491

Sequence Viewer

Length: 1014 bp
ATGGGGGACCTCACTGCTCTTGCTTTCTTACCAAGGAAACGTAGAGGGAAGAACCCGGCGAAAACGACTTCCGGGGCCGCCGTCAGAGAGCGGTGGGAGGTCCATTTCTCCCGCTTCTTCCGCTACCCTCCGGCCCACTCCACGTGTCCTGATCTCGTTCCTCTGCCCACCAGGATCAGAAATCGATCTCCAGCTGGCAACTGGGTCTCCTCCTCCTCCTCCTCCCTGGCTATGCTCCAGCTCGCTCACGATCACTCCTCCTCCGACGTCCTCCTCACCGTCTGCTTCGCCGGCAGGGTTATGGAGGAGCACTATGTTTCCAAGCTGCAGTATGTTTGGCCTCACGTTTCATGCAACCCGGGACTTCCTGCCAGGGGTACCAGGGCCGTGTTTATCAGCTACCGAGACTGCATGGGCGAGGTCCAGAAGTTCGCGTTGCGATTTTTGTCAGTTGATGAGGCAGAGAGATTTATGAACTCTTTGAAGGCGATCTTTGACATTGAACCTCCTCATACTGACATGGGATCTGAAATTTCAGCACAGTCTGAGTTCACTTATTCGACTGGACCACCCCTCGAACGGGTTTGCACGGACTTTGTCATGACTCCGGCTCAGACTTATACCGCTCAAATACCGCCAAGCTTCGGCAGTGCAGCTCAACAATACTCACAGGCTCAGCAGATGATGCACATTCATAACTTTCAGCAAAACCTTCCAGTCGTTCGTCCAGGTTTCACCGCATTGCTGAATGACTATCACCACGCTGTTGAACAAGCACGATCAACTGCATCAGAGGCGGTAAATCTCAACTCCCATGTCATGCCTCCAAGTTTCACCTCATGGCTTGGGAACTCTCAACCTGTTTTTGAACAAGTGGCAACACAAGAAGTCATTTCGCCGGAAGCCAATCTGATATCCCAACTCGCGAGTTACAGGGGAGATGCTTCCTTCCAAGATATGTTGAGTAACATGGAGAGAGTTATCAGTGAAATGGGGGGTGATTTGACTCTCTAG

Protein Analysis

338

Amino Acids

37.51

Weight (kDa)

6.3

Isoelectric Point (pI)

55.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PH_PHS1 PF25349 30 - 167 1.8e-60 Poor homologous synapsis protein PH domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 270
Acc65I GGTACC 1 cut(s) 377
AccB1I GGYRCC 1 cut(s) 377
AccBSI CCGCTC 2 cut(s) 91, 626
AccII CGCG 2 cut(s) 434, 926
AciI CCGC 8 cut(s) 78, 91, 112, 121, 624, 635, 738, 797
AclWI GGATC 2 cut(s) 182, 532
AcsI RAATTY 1 cut(s) 531
AcvI CACGTG 1 cut(s) 144
AcyI GRCGYC 1 cut(s) 267
AfaI GTAC 1 cut(s) 379
AfiI CCNNNNNNNGG 4 cut(s) 374, 579, 580, 644
AflIII ACRYGT 1 cut(s) 143
AgsI TTSAA 4 cut(s) 484, 503, 770, 869
AjnI CCWGG 5 cut(s) 170, 225, 371, 380, 727
AluBI AGCT 6 cut(s) 194, 241, 325, 399, 642, 656
AluI AGCT 6 cut(s) 194, 241, 325, 399, 642, 656
Alw21I GWGCWC 1 cut(s) 312
Alw26I GTCTC 2 cut(s) 211, 399
AlwI GGATC 2 cut(s) 182, 532
Ama87I CYCGRG 1 cut(s) 358
AoxI GGCC 4 cut(s) 75, 132, 338, 384
ApeKI GCWGC 2 cut(s) 325, 653
ApoI RAATTY 1 cut(s) 531
Asp718I GGTACC 1 cut(s) 377
AspS9I GGNCC 7 cut(s) 7, 75, 100, 133, 384, 421, 566
AsuC2I CCSGG 4 cut(s) 56, 73, 359, 360
AsuHPI GGTGA 5 cut(s) 268, 727, 749, 826, 1010
AvaI CYCGRG 1 cut(s) 358
AvaII GGWCC 4 cut(s) 7, 100, 421, 566
BanI GGYRCC 1 cut(s) 377
BbrPI CACGTG 1 cut(s) 144
Bbv12I GWGCWC 1 cut(s) 312
BbvI GCAGC 2 cut(s) 312, 665
BceAI ACGGC 2 cut(s) 65, 371
BciT130I CCWGG 5 cut(s) 172, 227, 373, 382, 729
BcnI CCSGG 4 cut(s) 56, 73, 359, 360
BcoDI GTCTC 2 cut(s) 211, 399
BfaI CTAG 1 cut(s) 1012
BfmI CTRYAG 1 cut(s) 326
BisI GCNGC 3 cut(s) 78, 326, 654
BlpI GCTNAGC 1 cut(s) 675
BlsI GCNGC 3 cut(s) 79, 327, 655
Bme1390I CCNGG 9 cut(s) 56, 73, 172, 227, 359, 360, 373, 382, 729
Bme18I GGWCC 4 cut(s) 7, 100, 421, 566
BmeT110I CYCGRG 1 cut(s) 358
BmgT120I GGNCC 7 cut(s) 7, 75, 100, 133, 384, 421, 566
BmiI GGNNCC 3 cut(s) 8, 76, 379
BmrFI CCNGG 9 cut(s) 56, 73, 172, 227, 359, 360, 373, 382, 729
BmrI ACTGGG 1 cut(s) 211
BmsI GCATC 3 cut(s) 675, 797, 931
BmuI ACTGGG 1 cut(s) 211
BpmI CTGGAG 2 cut(s) 174, 221
Bpu1102I GCTNAGC 1 cut(s) 675
BpuMI CCSGG 4 cut(s) 56, 73, 359, 360
Bsa29I ATCGAT 1 cut(s) 184
BsaAI YACGTR 1 cut(s) 144
BsaHI GRCGYC 1 cut(s) 267
BsaI GGTCTC 1 cut(s) 211
BsaJI CCNNGG 6 cut(s) 32, 72, 225, 358, 372, 381
BsaXI ACNNNNNCTCC 6 cut(s) 191, 221, 239, 245, 269, 275
Bsc4I CCNNNNNNNGG 4 cut(s) 374, 579, 580, 644
Bse118I RCCGGY 1 cut(s) 290
Bse1I ACTGG 3 cut(s) 206, 568, 716
Bse3DI GCAATG 1 cut(s) 740
BseBI CCWGG 5 cut(s) 172, 227, 373, 382, 729
BseCI ATCGAT 1 cut(s) 184
BseDI CCNNGG 6 cut(s) 32, 72, 225, 358, 372, 381
BseLI CCNNNNNNNGG 4 cut(s) 374, 579, 580, 644
BseMI GCAATG 1 cut(s) 740
BseMII CTCAG 3 cut(s) 537, 626, 689
BseNI ACTGG 3 cut(s) 206, 568, 716
BseXI GCAGC 2 cut(s) 312, 665
BsgI GTGCAG 1 cut(s) 672
Bsh1236I CGCG 2 cut(s) 434, 926
BshFI GGCC 4 cut(s) 77, 134, 340, 386
BshNI GGYRCC 1 cut(s) 377
BshVI ATCGAT 1 cut(s) 184
BsiHKAI GWGCWC 1 cut(s) 312
BsiHKCI CYCGRG 1 cut(s) 358
BsiSI CCGG 7 cut(s) 56, 72, 131, 291, 359, 608, 899
BslFI GGGAC 2 cut(s) 20, 375
BslI CCNNNNNNNGG 4 cut(s) 374, 579, 580, 644
BsmAI GTCTC 2 cut(s) 211, 399
BsmFI GGGAC 2 cut(s) 20, 375
BsnI GGCC 4 cut(s) 77, 134, 340, 386
Bso31I GGTCTC 1 cut(s) 211
BsoBI CYCGRG 1 cut(s) 358
Bsp1286I GDGCHC 1 cut(s) 312
Bsp143I GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
Bsp1720I GCTNAGC 1 cut(s) 675
Bsp68I TCGCGA 1 cut(s) 926
BspACI CCGC 8 cut(s) 78, 91, 112, 121, 624, 635, 738, 797
BspANI GGCC 4 cut(s) 77, 134, 340, 386
BspCNI CTCAG 3 cut(s) 538, 625, 688
BspDI ATCGAT 1 cut(s) 184
BspFNI CGCG 2 cut(s) 434, 926
BspHI TCATGA 1 cut(s) 600
BspLI GGNNCC 3 cut(s) 8, 76, 379
BspMAI CTGCAG 1 cut(s) 330
BspPI GGATC 2 cut(s) 182, 532
BspT107I GGYRCC 1 cut(s) 377
BspTNI GGTCTC 1 cut(s) 211
BsrBI CCGCTC 2 cut(s) 91, 626
BsrDI GCAATG 1 cut(s) 740
BsrFI RCCGGY 1 cut(s) 290
BsrI ACTGG 3 cut(s) 206, 568, 716
BssAI RCCGGY 1 cut(s) 290
BssECI CCNNGG 6 cut(s) 32, 72, 225, 358, 372, 381
BssMI GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
BssNI GRCGYC 1 cut(s) 267
BssT1I CCWWGG 1 cut(s) 32
Bst2UI CCWGG 5 cut(s) 172, 227, 373, 382, 729
Bst4CI ACNGT 2 cut(s) 280, 543
BstACI GRCGYC 1 cut(s) 267
BstAPI GCANNNNNTGC 1 cut(s) 685
BstBAI YACGTR 1 cut(s) 144
BstC8I GCNNGC 3 cut(s) 196, 243, 292
BstDEI CTNAG 3 cut(s) 546, 612, 675
BstFNI CGCG 2 cut(s) 434, 926
BstKTI GATC 7 cut(s) 154, 177, 188, 253, 492, 527, 782
BstMAI GTCTC 2 cut(s) 211, 399
BstMBI GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
BstMWI GCNNNNNNNGC 4 cut(s) 120, 291, 685, 794
BstNI CCWGG 5 cut(s) 172, 227, 373, 382, 729
BstSCI CCNGG 9 cut(s) 54, 71, 170, 225, 357, 358, 371, 380, 727
BstSFI CTRYAG 1 cut(s) 326
BstUI CGCG 2 cut(s) 434, 926
BstV1I GCAGC 2 cut(s) 312, 665
BstX2I RGATCY 1 cut(s) 524
BstYI RGATCY 1 cut(s) 524
Bsu15I ATCGAT 1 cut(s) 184
BsuRI GGCC 4 cut(s) 77, 134, 340, 386
BsuTUI ATCGAT 1 cut(s) 184
BtsI GCAGTG 2 cut(s) 12, 655
BtsIMutI CAGTG 3 cut(s) 12, 655, 991
BtuMI TCGCGA 1 cut(s) 926
Cac8I GCNNGC 3 cut(s) 196, 243, 292
CciI TCATGA 1 cut(s) 600
Cfr10I RCCGGY 1 cut(s) 290
Cfr13I GGNCC 7 cut(s) 7, 75, 100, 133, 384, 421, 566
Cfr9I CCCGGG 1 cut(s) 358
ClaI ATCGAT 1 cut(s) 184
Csp6I GTAC 1 cut(s) 378
CviAII CATG 8 cut(s) 351, 412, 520, 601, 815, 820, 840, 970
CviQI GTAC 1 cut(s) 378
DdeI CTNAG 3 cut(s) 546, 612, 675
DpnI GATC 7 cut(s) 153, 176, 187, 252, 491, 526, 781
DpnII GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
Eco130I CCWWGG 1 cut(s) 32
Eco31I GGTCTC 1 cut(s) 211
Eco32I GATATC 1 cut(s) 915
Eco47I GGWCC 4 cut(s) 7, 100, 421, 566
Eco72I CACGTG 1 cut(s) 144
Eco88I CYCGRG 1 cut(s) 358
EcoO109I RGGNCCY 1 cut(s) 7
EcoRII CCWGG 5 cut(s) 170, 225, 371, 380, 727
EcoRV GATATC 1 cut(s) 915
EcoT14I CCWWGG 1 cut(s) 32
ErhI CCWWGG 1 cut(s) 32
FaeI CATG 8 cut(s) 354, 415, 523, 604, 818, 823, 843, 973
FalI AAGNNNNNCTT 2 cut(s) 476, 508
FaqI GGGAC 2 cut(s) 20, 375
FatI CATG 8 cut(s) 350, 411, 519, 600, 814, 819, 839, 969
FauI CCCGC 1 cut(s) 119
Fnu4HI GCNGC 3 cut(s) 78, 326, 654
Fsp4HI GCNGC 3 cut(s) 78, 326, 654
FspBI CTAG 1 cut(s) 1012
GluI GCNGC 3 cut(s) 78, 326, 654
GsuI CTGGAG 2 cut(s) 174, 221
HaeIII GGCC 4 cut(s) 77, 134, 340, 386
HapII CCGG 7 cut(s) 56, 72, 131, 291, 359, 608, 899
Hin1I GRCGYC 1 cut(s) 267
Hin1II CATG 8 cut(s) 354, 415, 523, 604, 818, 823, 843, 973
HindIII AAGCTT 1 cut(s) 640
HinfI GANTC 2 cut(s) 604, 1006
HpaII CCGG 7 cut(s) 56, 72, 131, 291, 359, 608, 899
HphI GGTGA 5 cut(s) 268, 727, 749, 826, 1010
Hpy166II GTNNAC 1 cut(s) 552
Hpy188I TCNGA 8 cut(s) 86, 179, 265, 529, 547, 615, 793, 912
Hpy188III TCNNGA 5 cut(s) 149, 248, 424, 601, 925
Hpy8I GTNNAC 1 cut(s) 552
Hpy99I CGWCG 1 cut(s) 269
HpyAV CCTTC 3 cut(s) 478, 722, 958
HpyCH4III ACNGT 2 cut(s) 280, 543
HpyCH4IV ACGT 4 cut(s) 40, 143, 267, 345
HpyCH4V TGCA 7 cut(s) 328, 354, 411, 588, 653, 688, 788
HpyF10VI GCNNNNNNNGC 4 cut(s) 120, 291, 685, 794
HpyF3I CTNAG 3 cut(s) 546, 612, 675
HpySE526I ACGT 4 cut(s) 40, 143, 267, 345
Hsp92I GRCGYC 1 cut(s) 267
Hsp92II CATG 8 cut(s) 354, 415, 523, 604, 818, 823, 843, 973
KpnI GGTACC 1 cut(s) 381
KroI GCCGGC 1 cut(s) 290
KroNI GCCGGC 1 cut(s) 292
Kzo9I GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
LmnI GCTCC 2 cut(s) 240, 307
Lsp1109I GCAGC 2 cut(s) 312, 665
LweI GCATC 3 cut(s) 675, 797, 931
MaeI CTAG 1 cut(s) 1012
MaeII ACGT 4 cut(s) 40, 143, 267, 345
MaeIII GTNAC 2 cut(s) 929, 965
MalI GATC 7 cut(s) 153, 176, 187, 252, 491, 526, 781
MbiI CCGCTC 2 cut(s) 91, 626
MboI GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
MboII GAAGA 2 cut(s) 61, 109
MflI RGATCY 1 cut(s) 524
MhlI GDGCHC 1 cut(s) 312
MluCI AATT 1 cut(s) 531
MlyI GAGTC 2 cut(s) 598, 1000
MmeI TCCRAC 1 cut(s) 288
MroNI GCCGGC 1 cut(s) 290
MspA1I CMGCKG 1 cut(s) 194
MspI CCGG 7 cut(s) 56, 72, 131, 291, 359, 608, 899
MspR9I CCNGG 9 cut(s) 56, 73, 172, 227, 359, 360, 373, 382, 729
MvaI CCWGG 5 cut(s) 172, 227, 373, 382, 729
MvnI CGCG 2 cut(s) 434, 926
MwoI GCNNNNNNNGC 4 cut(s) 120, 291, 685, 794
NaeI GCCGGC 1 cut(s) 292
NciI CCSGG 4 cut(s) 56, 73, 359, 360
NdeII GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
NgoMIV GCCGGC 1 cut(s) 290
NlaIII CATG 8 cut(s) 354, 415, 523, 604, 818, 823, 843, 973
NlaIV GGNNCC 3 cut(s) 8, 76, 379
NruI TCGCGA 1 cut(s) 926
PagI TCATGA 1 cut(s) 600
PdiI GCCGGC 1 cut(s) 292
PflFI GACNNNGTC 1 cut(s) 596
PkrI GCNGC 3 cut(s) 79, 327, 655
PleI GAGTC 2 cut(s) 598, 1000
PmaCI CACGTG 1 cut(s) 144
PmlI CACGTG 1 cut(s) 144
PpsI GAGTC 2 cut(s) 598, 1000
Ppu21I YACGTR 1 cut(s) 144
PpuMI RGGWCCY 1 cut(s) 7
Psp5II RGGWCCY 1 cut(s) 7
Psp6I CCWGG 5 cut(s) 170, 225, 371, 380, 727
PspCI CACGTG 1 cut(s) 144
PspGI CCWGG 5 cut(s) 170, 225, 371, 380, 727
PspN4I GGNNCC 3 cut(s) 8, 76, 379
PspPI GGNCC 7 cut(s) 7, 75, 100, 133, 384, 421, 566
PspPPI RGGWCCY 1 cut(s) 7
PstI CTGCAG 1 cut(s) 330
PsuI RGATCY 1 cut(s) 524
PsyI GACNNNGTC 1 cut(s) 596
PvuII CAGCTG 1 cut(s) 194
RruI TCGCGA 1 cut(s) 926
RsaI GTAC 1 cut(s) 379
RsaNI GTAC 1 cut(s) 378
SatI GCNGC 3 cut(s) 78, 326, 654
Sau3AI GATC 7 cut(s) 151, 174, 185, 250, 489, 524, 779
Sau96I GGNCC 7 cut(s) 7, 75, 100, 133, 384, 421, 566
SchI GAGTC 2 cut(s) 598, 1000
ScrFI CCNGG 9 cut(s) 56, 73, 172, 227, 359, 360, 373, 382, 729
SduI GDGCHC 1 cut(s) 312
SfaNI GCATC 3 cut(s) 675, 797, 931
SfcI CTRYAG 1 cut(s) 326
SinI GGWCC 4 cut(s) 7, 100, 421, 566
SmaI CCCGGG 1 cut(s) 360
Sse9I AATT 1 cut(s) 531
SsiI CCGC 8 cut(s) 78, 91, 112, 121, 624, 635, 738, 797
SspMI CTAG 1 cut(s) 1012
StyD4I CCNGG 9 cut(s) 54, 71, 170, 225, 357, 358, 371, 380, 727
StyI CCWWGG 1 cut(s) 32
TaaI ACNGT 2 cut(s) 280, 543
TaiI ACGT 4 cut(s) 43, 146, 270, 348
TaqI TCGA 3 cut(s) 184, 560, 576
TasI AATT 1 cut(s) 531
TauI GCSGC 1 cut(s) 80
TscAI CASTG 3 cut(s) 19, 655, 991
TseI GCWGC 2 cut(s) 325, 653
TspDTI ATGAA 3 cut(s) 339, 488, 683
TspGWI ACGGA 1 cut(s) 605
TspMI CCCGGG 1 cut(s) 358
TspRI CASTG 3 cut(s) 19, 655, 991
Tth111I GACNNNGTC 1 cut(s) 596
VpaK11BI GGWCC 4 cut(s) 7, 100, 421, 566
XapI RAATTY 1 cut(s) 531
XcmI CCANNNNNNNNNTGG 1 cut(s) 198
XmaI CCCGGG 1 cut(s) 358
XspI CTAG 1 cut(s) 1012
ZraI GACGTC 1 cut(s) 268
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.