MD05G1142200.v1.1

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0014404
Physical Location & Seq
Reverse (-)
27316452 .. 27317452
1001 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1142200.v1.1.491

Sequence Viewer

Length: 603 bp
ATGGGCAATTCGAGCCTCGAGTTCTTGGACGTCAGACTGCTCTGTTTGCTGTCCATGTTTTGCATGGCAAGTGGTTTCGGTAGAGGAGTCAAAGCAGAAGGAAGAAGCCTCTTGCAGCATCACAACAAGGCTAAGAGCTCTAATCTTTTCAACGTCAAGAGCTTCGGCGCCCGAGCAGACGGCCGAACTGATGACAGCAATGCATTCACAGCGGCATGGAAGGAGGCATGCCAGTCCACAGGTAGAGTCCACCTTATAATCCCGAAAGGAACTTACACGATCGGCCTTCTGAGATTCTCCGGCCCCTGCGGTTACTTGAAGGCTACAACTGACTTGCGCAAGTTTGGATCGGGGGGTGGTTGGATTGAATTCGCGTGGATGAAAGGGCTGACCTTGACCGGAGGTGGAACCTTTGATGGCCGAGGGGCTCACGCCTGGCCTCACAACAAGTGCATCACCAACTCCAACTGCAAACTTCTTCCAACTAACTTGAAATTTGTGGCACTTAACAAGACAGTTATCCGTGGCTTAACTTCCGTGAACAGCAAGTTCTTTCACATAGCTCTTGTAGAATGTCACAATTTCAAAGGTAGCGGGCTCTAG

Protein Analysis

201

Amino Acids

21.68

Weight (kDa)

9.83

Isoelectric Point (pI)

35.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 50 - 94 4.4e-07 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 77 - 196 1e-14 Glycosyl hydrolases family 28
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: OG0014404)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G18180
fragaria_vesca FvH4_2g16950
malus_domestica MD05G1141300.v1.1 MD05G1142200.v1.1
prunus_persica Prupe.8G181300_v2.0.a1
pyrus_communis pycom05g13670
rosa_chinensis RchiOBHm_Chr6g0281151
rosa_laevigata RLG00000012990
rosa_multiflora Rmu_co8202118.1_g000001 Rmu_sc0035236.1_g000002
rosa_roxburghii Rroxscaffold_7G00187250
rosa_rugosa Rorug06G0139300
rosa_samantha Rh6AG251100 Rh6BG254300 Rh6CG253700 Rh6DG245700
rosa_wichuraiana Rw6G021800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 257
AatII GACGTC 1 cut(s) 33
Acc16I TGCGCA 1 cut(s) 338
AccB1I GGYRCC 1 cut(s) 167
AccII CGCG 1 cut(s) 374
AciI CCGC 3 cut(s) 212, 309, 594
AclWI GGATC 1 cut(s) 355
AcoI YGGCCR 2 cut(s) 181, 418
AcsI RAATTY 2 cut(s) 368, 494
AcyI GRCGYC 2 cut(s) 30, 168
AgsI TTSAA 5 cut(s) 151, 319, 368, 493, 586
AjnI CCWGG 1 cut(s) 434
AluBI AGCT 3 cut(s) 138, 162, 563
AluI AGCT 3 cut(s) 138, 162, 563
Alw21I GWGCWC 1 cut(s) 140
AlwI GGATC 1 cut(s) 355
Ama87I CYCGRG 2 cut(s) 17, 171
AoxI GGCC 5 cut(s) 181, 283, 301, 418, 437
ApeKI GCWGC 1 cut(s) 115
ApoI RAATTY 2 cut(s) 368, 494
AspLEI GCGC 2 cut(s) 170, 339
AspS9I GGNCC 1 cut(s) 302
AsuHPI GGTGA 1 cut(s) 448
AvaI CYCGRG 2 cut(s) 17, 171
BanI GGYRCC 1 cut(s) 167
BanII GRGCYC 3 cut(s) 140, 430, 600
Bbv12I GWGCWC 1 cut(s) 140
BbvI GCAGC 1 cut(s) 127
BccI CCATC 1 cut(s) 410
BceAI ACGGC 1 cut(s) 196
BciT130I CCWGG 1 cut(s) 436
BfaI CTAG 1 cut(s) 601
BfoI RGCGCY 1 cut(s) 171
BisI GCNGC 2 cut(s) 116, 213
BlsI GCNGC 2 cut(s) 117, 214
Bme1390I CCNGG 1 cut(s) 436
BmeT110I CYCGRG 2 cut(s) 17, 171
BmgT120I GGNCC 1 cut(s) 302
BmiI GGNNCC 3 cut(s) 169, 304, 409
BmrFI CCNGG 1 cut(s) 436
BmsI GCATC 2 cut(s) 127, 462
BsaHI GRCGYC 2 cut(s) 30, 168
BsaJI CCNNGG 2 cut(s) 421, 523
BsaWI WCCGGW 1 cut(s) 398
Bse1I ACTGG 1 cut(s) 232
Bse3DI GCAATG 1 cut(s) 205
BseBI CCWGG 1 cut(s) 436
BseDI CCNNGG 2 cut(s) 421, 523
BseGI GGATG 1 cut(s) 384
BseMI GCAATG 1 cut(s) 205
BseMII CTCAG 1 cut(s) 281
BseNI ACTGG 1 cut(s) 232
BseRI GAGGAG 1 cut(s) 99
BseX3I CGGCCG 1 cut(s) 181
BseXI GCAGC 1 cut(s) 127
Bsh1236I CGCG 1 cut(s) 374
Bsh1285I CGRYCG 2 cut(s) 184, 282
BshFI GGCC 5 cut(s) 183, 285, 303, 420, 439
BshNI GGYRCC 1 cut(s) 167
BsiEI CGRYCG 2 cut(s) 184, 282
BsiHKAI GWGCWC 1 cut(s) 140
BsiHKCI CYCGRG 2 cut(s) 17, 171
BsiSI CCGG 2 cut(s) 300, 399
BsmI GAATGC 1 cut(s) 203
BsnI GGCC 5 cut(s) 183, 285, 303, 420, 439
BsoBI CYCGRG 2 cut(s) 17, 171
Bsp1286I GDGCHC 3 cut(s) 140, 430, 600
Bsp143I GATC 2 cut(s) 279, 347
BspACI CCGC 3 cut(s) 212, 309, 594
BspANI GGCC 5 cut(s) 183, 285, 303, 420, 439
BspCNI CTCAG 1 cut(s) 282
BspFNI CGCG 1 cut(s) 374
BspLI GGNNCC 3 cut(s) 169, 304, 409
BspPI GGATC 1 cut(s) 355
BspT107I GGYRCC 1 cut(s) 167
BsrDI GCAATG 1 cut(s) 205
BsrI ACTGG 1 cut(s) 232
BssECI CCNNGG 2 cut(s) 421, 523
BssMI GATC 2 cut(s) 279, 347
BssNI GRCGYC 2 cut(s) 30, 168
Bst2UI CCWGG 1 cut(s) 436
Bst4CI ACNGT 1 cut(s) 517
BstACI GRCGYC 2 cut(s) 30, 168
BstC8I GCNNGC 2 cut(s) 229, 596
BstDEI CTNAG 2 cut(s) 132, 290
BstDSI CCRYGG 1 cut(s) 523
BstF5I GGATG 1 cut(s) 384
BstFNI CGCG 1 cut(s) 374
BstH2I RGCGCY 1 cut(s) 171
BstHHI GCGC 2 cut(s) 170, 339
BstKTI GATC 2 cut(s) 282, 350
BstMBI GATC 2 cut(s) 279, 347
BstMCI CGRYCG 2 cut(s) 184, 282
BstMWI GCNNNNNNNGC 3 cut(s) 12, 46, 209
BstNI CCWGG 1 cut(s) 436
BstNSI RCATGY 1 cut(s) 231
BstSCI CCNGG 1 cut(s) 434
BstUI CGCG 1 cut(s) 374
BstV1I GCAGC 1 cut(s) 127
BstZI CGGCCG 1 cut(s) 181
BsuRI GGCC 5 cut(s) 183, 285, 303, 420, 439
BtgI CCRYGG 1 cut(s) 523
BtsCI GGATG 1 cut(s) 384
Cac8I GCNNGC 2 cut(s) 229, 596
CfoI GCGC 2 cut(s) 170, 339
Cfr13I GGNCC 1 cut(s) 302
CviAII CATG 4 cut(s) 55, 64, 216, 228
DdeI CTNAG 2 cut(s) 132, 290
DinI GGCGCC 1 cut(s) 169
DpnI GATC 2 cut(s) 281, 349
DpnII GATC 2 cut(s) 279, 347
EaeI YGGCCR 2 cut(s) 181, 418
EagI CGGCCG 1 cut(s) 181
Ecl136II GAGCTC 1 cut(s) 138
EclXI CGGCCG 1 cut(s) 181
Eco24I GRGCYC 3 cut(s) 140, 430, 600
Eco52I CGGCCG 1 cut(s) 181
Eco53kI GAGCTC 1 cut(s) 138
Eco88I CYCGRG 2 cut(s) 17, 171
EcoICRI GAGCTC 1 cut(s) 138
EcoRI GAATTC 1 cut(s) 368
EcoRII CCWGG 1 cut(s) 434
EcoT22I ATGCAT 1 cut(s) 205
EcoT38I GRGCYC 3 cut(s) 140, 430, 600
EgeI GGCGCC 1 cut(s) 169
EheI GGCGCC 1 cut(s) 169
FaeI CATG 4 cut(s) 58, 67, 219, 231
FaiI YATR 6 cut(s) 56, 65, 217, 229, 257, 560
FatI CATG 4 cut(s) 54, 63, 215, 227
FauI CCCGC 1 cut(s) 587
Fnu4HI GCNGC 2 cut(s) 116, 213
FokI GGATG 1 cut(s) 391
FriOI GRGCYC 3 cut(s) 140, 430, 600
Fsp4HI GCNGC 2 cut(s) 116, 213
FspBI CTAG 1 cut(s) 601
FspI TGCGCA 1 cut(s) 338
GlaI GCGC 2 cut(s) 169, 338
GluI GCNGC 2 cut(s) 116, 213
HaeII RGCGCY 1 cut(s) 171
HaeIII GGCC 5 cut(s) 183, 285, 303, 420, 439
HapII CCGG 2 cut(s) 300, 399
HhaI GCGC 2 cut(s) 170, 339
Hin1I GRCGYC 2 cut(s) 30, 168
Hin1II CATG 4 cut(s) 58, 67, 219, 231
Hin6I GCGC 2 cut(s) 168, 337
HinP1I GCGC 2 cut(s) 168, 337
HinfI GANTC 3 cut(s) 87, 246, 294
HpaII CCGG 2 cut(s) 300, 399
HphI GGTGA 1 cut(s) 448
Hpy166II GTNNAC 3 cut(s) 237, 250, 541
Hpy188I TCNGA 2 cut(s) 35, 291
Hpy188III TCNNGA 2 cut(s) 157, 262
Hpy8I GTNNAC 3 cut(s) 237, 250, 541
HpyAV CCTTC 4 cut(s) 92, 214, 296, 313
HpyCH4III ACNGT 1 cut(s) 517
HpyCH4IV ACGT 2 cut(s) 30, 153
HpyCH4V TGCA 5 cut(s) 63, 115, 203, 453, 471
HpyF10VI GCNNNNNNNGC 3 cut(s) 12, 46, 209
HpyF3I CTNAG 2 cut(s) 132, 290
HpySE526I ACGT 2 cut(s) 30, 153
Hsp92I GRCGYC 2 cut(s) 30, 168
Hsp92II CATG 4 cut(s) 58, 67, 219, 231
HspAI GCGC 2 cut(s) 168, 337
KasI GGCGCC 1 cut(s) 167
Kzo9I GATC 2 cut(s) 279, 347
LpnPI CCDG 7 cut(s) 225, 245, 313, 319, 412, 421, 448
Lsp1109I GCAGC 1 cut(s) 127
LweI GCATC 2 cut(s) 127, 462
MaeI CTAG 1 cut(s) 601
MaeII ACGT 2 cut(s) 30, 153
MaeIII GTNAC 2 cut(s) 311, 575
MalI GATC 2 cut(s) 281, 349
MboI GATC 2 cut(s) 279, 347
MboII GAAGA 2 cut(s) 114, 470
MhlI GDGCHC 3 cut(s) 140, 430, 600
MluCI AATT 4 cut(s) 7, 368, 494, 580
Mly113I GGCGCC 1 cut(s) 168
MlyI GAGTC 2 cut(s) 96, 255
MmeI TCCRAC 3 cut(s) 341, 489, 506
MnlI CCTC 7 cut(s) 26, 77, 119, 217, 395, 416, 450
Mph1103I ATGCAT 1 cut(s) 205
MseI TTAA 2 cut(s) 507, 530
MspA1I CMGCKG 1 cut(s) 212
MspI CCGG 2 cut(s) 300, 399
MspR9I CCNGG 1 cut(s) 436
Mva1269I GAATGC 1 cut(s) 203
MvaI CCWGG 1 cut(s) 436
MvnI CGCG 1 cut(s) 374
MwoI GCNNNNNNNGC 3 cut(s) 12, 46, 209
NarI GGCGCC 1 cut(s) 168
NdeII GATC 2 cut(s) 279, 347
NlaIII CATG 4 cut(s) 58, 67, 219, 231
NlaIV GGNNCC 3 cut(s) 169, 304, 409
NmeAIII GCCGAG 1 cut(s) 446
NmuCI GTSAC 1 cut(s) 575
NsbI TGCGCA 1 cut(s) 338
NsiI ATGCAT 1 cut(s) 205
NspI RCATGY 1 cut(s) 231
PaeI GCATGC 1 cut(s) 231
PaeR7I CTCGAG 1 cut(s) 17
PctI GAATGC 1 cut(s) 203
PfeI GAWTC 1 cut(s) 294
PkrI GCNGC 2 cut(s) 117, 214
Ple19I CGATCG 1 cut(s) 282
PleI GAGTC 2 cut(s) 95, 254
PluTI GGCGCC 1 cut(s) 171
PpsI GAGTC 2 cut(s) 95, 254
PsiI TTATAA 1 cut(s) 257
Psp124BI GAGCTC 1 cut(s) 140
Psp6I CCWGG 1 cut(s) 434
PspGI CCWGG 1 cut(s) 434
PspN4I GGNNCC 3 cut(s) 169, 304, 409
PspPI GGNCC 1 cut(s) 302
PspXI VCTCGAGB 1 cut(s) 17
PvuI CGATCG 1 cut(s) 282
SacI GAGCTC 1 cut(s) 140
SaqAI TTAA 2 cut(s) 507, 530
SatI GCNGC 2 cut(s) 116, 213
Sau3AI GATC 2 cut(s) 279, 347
Sau96I GGNCC 1 cut(s) 302
SchI GAGTC 2 cut(s) 96, 255
ScrFI CCNGG 1 cut(s) 436
SduI GDGCHC 3 cut(s) 140, 430, 600
SfaNI GCATC 2 cut(s) 127, 462
SfoI GGCGCC 1 cut(s) 169
Sfr274I CTCGAG 1 cut(s) 17
SlaI CTCGAG 1 cut(s) 17
SmlI CTYRAG 1 cut(s) 17
SmoI CTYRAG 1 cut(s) 17
SphI GCATGC 1 cut(s) 231
Sse9I AATT 4 cut(s) 7, 368, 494, 580
SsiI CCGC 3 cut(s) 212, 309, 594
SspDI GGCGCC 1 cut(s) 167
SspMI CTAG 1 cut(s) 601
SstI GAGCTC 1 cut(s) 140
StyD4I CCNGG 1 cut(s) 434
TaaI ACNGT 1 cut(s) 517
TaiI ACGT 2 cut(s) 33, 156
TaqI TCGA 2 cut(s) 11, 18
TasI AATT 4 cut(s) 7, 368, 494, 580
TauI GCSGC 1 cut(s) 215
TfiI GAWTC 1 cut(s) 294
Tru1I TTAA 2 cut(s) 507, 530
Tru9I TTAA 2 cut(s) 507, 530
TseFI GTSAC 1 cut(s) 575
TseI GCWGC 1 cut(s) 115
Tsp45I GTSAC 1 cut(s) 575
TspDTI ATGAA 1 cut(s) 395
TspGWI ACGGA 2 cut(s) 512, 526
XapI RAATTY 2 cut(s) 368, 494
XceI RCATGY 1 cut(s) 231
XcmI CCANNNNNNNNNTGG 1 cut(s) 61
XhoI CTCGAG 1 cut(s) 17
XspI CTAG 1 cut(s) 601
ZraI GACGTC 1 cut(s) 31
Zsp2I ATGCAT 1 cut(s) 205
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.