MD00G1202500.v1.1

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr00
OG0009756
Physical Location & Seq
Forward (+)
48324858 .. 48326566
1709 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1202500.v1.1.491

Sequence Viewer

Length: 1161 bp
ATGGCCTCCCTAGCCCGTCTCATATTATTGCTCTTATGTTTCTTAACTTGTATTGCTCCAACATTTCAAGCCTATTCCCCAGACTACTACACCACCGCCAAAATCATTCCCAAAAACATCATGAACGTGGTAGACTCGTGTTGGTGCACAAAGTCCGATTGGGCCACCAACCGCCGCGCGTTGGCCAACTGCGCAGTAGGCTTCGGCAAAGATGCGTTGGGAGGAAAATATGGGGCTACTTATGTAGTCACGACCTCAGATGATGACCCAGTAAACCCTGCACCCGGCTCACTCCGTTACGGGGTGATCCAAACGCAGCCATTATGGATCGTTTTTGCTAAGGACATGGTCATCACGCTCAAAAATGAACTCATTATGAATAGTTTCAAGACCATAGACGGTAGAGGGGCTAAAGTTGAAATTGCGTACGGACCATGCATAACGGTGCAGGGTGTTAGCCACGTTATTATACATGGATTAAGCATTCATGATTGTAAGCCTGGGAAGGGTGGGAATGTTAGGAGCACTCCTACACATGTAGGGCAACGTTTAGGGAGCGACGGAGACGCCATATCTGTCTTTGCTTCTTCGCATGTTTGGATTGACCATTGCTTCCTAGCTCGTAGCACAGATGGCCTCCTTGATGTCACCCATGCTTCCACTGCCGTCACCATCACAAACAACTATTTCTCTCAGCATGACAAAGTGATGCTGCTTGGTCACAATGACAATTTTAGGGAAGATAAAAATATGAGAGTCACAATAGCCTTCAACCGTTTTGGGGCTGGCCTTATTGAAAGGATGCCAAGGGTTAGGTTTGGGTATGTGGCCAACAATATATATGAGGAGTGGAAGATGTATGCCGTAGGAGGCAGCGCCAATCCAACAATTTTCAGTGAAGGGAACTACTTCATAGCTCCTGAGACTCCTTTTGCCAAACAGGTTACAAAGAGAGAGGCTGGAGGCAGTTGGAATAATTGGAAATGGAGATCTTCAGGGGATGTGTTCAAAAATGGTGCTTTTTTTGTTCAATCTGGATATGGAAGCTGCTATCCACTTTACTTTCCAACGCAATCGTTTAAGGTCTCTCCAGGAGCCATGGTTCCTGCTTTAACCTCAAATGCGGGTCCTCTGGACTGCATTGTTGGCAAAGCATGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

387

Amino Acids

42.21

Weight (kDa)

8.77

Isoelectric Point (pI)

32.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 124 - 321 1.7e-23 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0009756)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G11920 AT1G30350 AT4G22080 AT4G22090
fragaria_vesca FvH4_3g01680
malus_domestica MD00G1202500.v1.1 MD05G1350000.v1.1 MD10G1324800.v1.1
prunus_persica Prupe.4G017400_v2.0.a1 Prupe.4G020600_v2.0.a1
pyrus_communis pycom10g27510
rosa_chinensis RchiOBHm_Chr5g0002531
rosa_laevigata RLG00000031037
rosa_multiflora Rmu_sc0010731.1_g000004
rosa_roxburghii Rroxscaffold_1G00073370
rosa_rugosa Rorug04G0396700
rosa_samantha Rh5AG020100 Rh5BG022800 Rh5CG022100 Rh5DG021200
rosa_wichuraiana Rw5G001850

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 193
AccI GTMKAC 1 cut(s) 132
AccII CGCG 2 cut(s) 177, 179
AciI CCGC 4 cut(s) 96, 172, 175, 1124
AclI AACGTT 1 cut(s) 547
AclWI GGATC 2 cut(s) 301, 335
AcoI YGGCCR 2 cut(s) 183, 828
AcuI CTGAAG 1 cut(s) 978
AcyI GRCGYC 1 cut(s) 567
AfaI GTAC 1 cut(s) 428
AfiI CCNNNNNNNGG 5 cut(s) 181, 284, 301, 506, 781
AflIII ACRYGT 1 cut(s) 535
AgsI TTSAA 7 cut(s) 68, 388, 419, 772, 797, 1009, 1031
AjnI CCWGG 2 cut(s) 499, 1090
AloI GAACNNNNNNTCC 2 cut(s) 1086, 1118
AluBI AGCT 3 cut(s) 620, 917, 1047
AluI AGCT 3 cut(s) 620, 917, 1047
Alw21I GWGCWC 2 cut(s) 149, 527
Alw26I GTCTC 4 cut(s) 23, 558, 917, 1090
Alw44I GTGCAC 1 cut(s) 145
AlwI GGATC 2 cut(s) 301, 335
AoxI GGCC 6 cut(s) 3, 162, 183, 634, 787, 828
ApaLI GTGCAC 1 cut(s) 145
ApeKI GCWGC 4 cut(s) 316, 712, 873, 1047
Asp700I GAANNNNTTC 2 cut(s) 383, 908
AspLEI GCGC 3 cut(s) 179, 194, 878
AspS9I GGNCC 3 cut(s) 162, 431, 1127
AsuC2I CCSGG 1 cut(s) 285
AsuHPI GGTGA 3 cut(s) 316, 640, 661
AvaII GGWCC 2 cut(s) 431, 1127
BaeGI GKGCMC 1 cut(s) 149
BalI TGGCCA 2 cut(s) 185, 830
BauI CACGAG 1 cut(s) 136
Bbv12I GWGCWC 2 cut(s) 149, 527
BbvI GCAGC 4 cut(s) 328, 699, 885, 1034
BccI CCATC 2 cut(s) 626, 680
BceAI ACGGC 2 cut(s) 650, 848
BciT130I CCWGG 2 cut(s) 501, 1092
BcnI CCSGG 1 cut(s) 285
BcoDI GTCTC 4 cut(s) 23, 558, 917, 1090
BfaI CTAG 2 cut(s) 11, 617
BfoI RGCGCY 1 cut(s) 879
BglII AGATCT 1 cut(s) 989
BisI GCNGC 5 cut(s) 175, 317, 713, 874, 1048
BlsI GCNGC 5 cut(s) 176, 318, 714, 875, 1049
Bme1390I CCNGG 3 cut(s) 285, 501, 1092
Bme18I GGWCC 2 cut(s) 431, 1127
BmgT120I GGNCC 3 cut(s) 162, 431, 1127
BmiI GGNNCC 3 cut(s) 1096, 1104, 1128
BmrFI CCNGG 3 cut(s) 285, 501, 1092
BmrI ACTGGG 1 cut(s) 263
BmsI GCATC 3 cut(s) 202, 699, 792
BmuI ACTGGG 1 cut(s) 263
BpmI CTGGAG 2 cut(s) 981, 1074
Bpu10I CCTNAGC 1 cut(s) 339
BpuMI CCSGG 1 cut(s) 285
BsaHI GRCGYC 1 cut(s) 567
BsaI GGTCTC 1 cut(s) 1090
BsaJI CCNNGG 3 cut(s) 500, 806, 1098
BsaXI ACNNNNNCTCC 2 cut(s) 1086, 1116
Bsc4I CCNNNNNNNGG 5 cut(s) 181, 284, 301, 506, 781
Bse1I ACTGG 1 cut(s) 269
Bse3DI GCAATG 1 cut(s) 607
BseBI CCWGG 2 cut(s) 501, 1092
BseDI CCNNGG 3 cut(s) 500, 806, 1098
BseGI GGATG 2 cut(s) 807, 1006
BseLI CCNNNNNNNGG 5 cut(s) 181, 284, 301, 506, 781
BseMI GCAATG 1 cut(s) 607
BseMII CTCAG 3 cut(s) 270, 707, 912
BseNI ACTGG 1 cut(s) 269
BseRI GAGGAG 1 cut(s) 860
BseSI GKGCMC 1 cut(s) 149
BseXI GCAGC 4 cut(s) 328, 699, 885, 1034
BsgI GTGCAG 2 cut(s) 264, 467
Bsh1236I CGCG 2 cut(s) 177, 179
BshFI GGCC 6 cut(s) 5, 164, 185, 636, 789, 830
BsiHKAI GWGCWC 2 cut(s) 149, 527
BsiSI CCGG 1 cut(s) 285
BsiWI CGTACG 1 cut(s) 426
BslI CCNNNNNNNGG 5 cut(s) 181, 284, 301, 506, 781
BsmAI GTCTC 4 cut(s) 23, 558, 917, 1090
BsmBI CGTCTC 2 cut(s) 23, 558
BsmI GAATGC 1 cut(s) 483
BsnI GGCC 6 cut(s) 5, 164, 185, 636, 789, 830
Bso31I GGTCTC 1 cut(s) 1090
Bsp1286I GDGCHC 2 cut(s) 149, 527
Bsp143I GATC 3 cut(s) 306, 327, 989
Bsp19I CCATGG 1 cut(s) 1098
BspACI CCGC 4 cut(s) 96, 172, 175, 1124
BspANI GGCC 6 cut(s) 5, 164, 185, 636, 789, 830
BspCNI CTCAG 3 cut(s) 269, 706, 913
BspFNI CGCG 2 cut(s) 177, 179
BspHI TCATGA 2 cut(s) 120, 487
BspLI GGNNCC 3 cut(s) 1096, 1104, 1128
BspPI GGATC 2 cut(s) 301, 335
BspTNI GGTCTC 1 cut(s) 1090
BsrDI GCAATG 1 cut(s) 607
BsrI ACTGG 1 cut(s) 269
BssECI CCNNGG 3 cut(s) 500, 806, 1098
BssMI GATC 3 cut(s) 306, 327, 989
BssNI GRCGYC 1 cut(s) 567
BssSI CACGAG 1 cut(s) 136
BssT1I CCWWGG 2 cut(s) 806, 1098
Bst2BI CACGAG 1 cut(s) 136
Bst2UI CCWGG 2 cut(s) 501, 1092
Bst4CI ACNGT 3 cut(s) 401, 445, 776
BstACI GRCGYC 1 cut(s) 567
BstC8I GCNNGC 1 cut(s) 787
BstDEI CTNAG 4 cut(s) 256, 339, 693, 921
BstDSI CCRYGG 1 cut(s) 1098
BstF5I GGATG 2 cut(s) 807, 1006
BstFNI CGCG 2 cut(s) 177, 179
BstH2I RGCGCY 1 cut(s) 879
BstHHI GCGC 3 cut(s) 179, 194, 878
BstKTI GATC 3 cut(s) 309, 330, 992
BstMAI GTCTC 4 cut(s) 23, 558, 917, 1090
BstMBI GATC 3 cut(s) 306, 327, 989
BstMWI GCNNNNNNNGC 6 cut(s) 11, 191, 198, 633, 662, 1146
BstNI CCWGG 2 cut(s) 501, 1092
BstNSI RCATGY 3 cut(s) 539, 596, 1158
BstSCI CCNGG 3 cut(s) 283, 499, 1090
BstSLI GKGCMC 1 cut(s) 149
BstUI CGCG 2 cut(s) 177, 179
BstV1I GCAGC 4 cut(s) 328, 699, 885, 1034
BstX2I RGATCY 1 cut(s) 989
BstYI RGATCY 1 cut(s) 989
BsuRI GGCC 6 cut(s) 5, 164, 185, 636, 789, 830
BtgI CCRYGG 1 cut(s) 1098
BtsCI GGATG 2 cut(s) 807, 1006
BtsI GCAGTG 1 cut(s) 660
BtsIMutI CAGTG 2 cut(s) 660, 901
Cac8I GCNNGC 1 cut(s) 787
CciI TCATGA 2 cut(s) 120, 487
CfoI GCGC 3 cut(s) 179, 194, 878
Cfr13I GGNCC 3 cut(s) 162, 431, 1127
CseI GACGC 1 cut(s) 575
Csp6I GTAC 1 cut(s) 427
CviQI GTAC 1 cut(s) 427
DdeI CTNAG 4 cut(s) 256, 339, 693, 921
DpnI GATC 3 cut(s) 308, 329, 991
DpnII GATC 3 cut(s) 306, 327, 989
EaeI YGGCCR 2 cut(s) 183, 828
Eco130I CCWWGG 2 cut(s) 806, 1098
Eco31I GGTCTC 1 cut(s) 1090
Eco47I GGWCC 2 cut(s) 431, 1127
Eco57I CTGAAG 1 cut(s) 978
EcoO109I RGGNCCY 1 cut(s) 1127
EcoRII CCWGG 2 cut(s) 499, 1090
EcoT14I CCWWGG 2 cut(s) 806, 1098
EcoT22I ATGCAT 1 cut(s) 440
ErhI CCWWGG 2 cut(s) 806, 1098
Esp3I CGTCTC 2 cut(s) 23, 558
FauI CCCGC 1 cut(s) 1117
FblI GTMKAC 1 cut(s) 132
Fnu4HI GCNGC 5 cut(s) 175, 317, 713, 874, 1048
FokI GGATG 2 cut(s) 814, 1013
Fsp4HI GCNGC 5 cut(s) 175, 317, 713, 874, 1048
FspBI CTAG 2 cut(s) 11, 617
FspI TGCGCA 1 cut(s) 193
GlaI GCGC 3 cut(s) 178, 193, 877
GluI GCNGC 5 cut(s) 175, 317, 713, 874, 1048
GsuI CTGGAG 2 cut(s) 981, 1074
HaeII RGCGCY 1 cut(s) 879
HaeIII GGCC 6 cut(s) 5, 164, 185, 636, 789, 830
HapII CCGG 1 cut(s) 285
HgaI GACGC 1 cut(s) 575
HhaI GCGC 3 cut(s) 179, 194, 878
Hin1I GRCGYC 1 cut(s) 567
Hin6I GCGC 3 cut(s) 177, 192, 876
HinP1I GCGC 3 cut(s) 177, 192, 876
HinfI GANTC 3 cut(s) 134, 756, 925
HpaII CCGG 1 cut(s) 285
HphI GGTGA 3 cut(s) 316, 640, 661
Hpy166II GTNNAC 3 cut(s) 133, 147, 274
Hpy188I TCNGA 2 cut(s) 157, 259
Hpy188III TCNNGA 7 cut(s) 121, 250, 388, 488, 920, 1035, 1133
Hpy8I GTNNAC 3 cut(s) 133, 147, 274
Hpy99I CGWCG 1 cut(s) 563
HpyAV CCTTC 3 cut(s) 499, 778, 893
HpyCH4III ACNGT 3 cut(s) 401, 445, 776
HpyCH4IV ACGT 3 cut(s) 126, 462, 547
HpyCH4V TGCA 5 cut(s) 147, 281, 438, 448, 1140
HpyF10VI GCNNNNNNNGC 6 cut(s) 11, 191, 198, 633, 662, 1146
HpyF3I CTNAG 4 cut(s) 256, 339, 693, 921
HpySE526I ACGT 3 cut(s) 126, 462, 547
Hsp92I GRCGYC 1 cut(s) 567
HspAI GCGC 3 cut(s) 177, 192, 876
Kzo9I GATC 3 cut(s) 306, 327, 989
LmnI GCTCC 5 cut(s) 61, 522, 555, 922, 1094
Lsp1109I GCAGC 4 cut(s) 328, 699, 885, 1034
LweI GCATC 3 cut(s) 202, 699, 792
MaeI CTAG 2 cut(s) 11, 617
MaeII ACGT 3 cut(s) 126, 462, 547
MaeIII GTNAC 7 cut(s) 247, 296, 646, 667, 719, 757, 943
MalI GATC 3 cut(s) 308, 329, 991
MboI GATC 3 cut(s) 306, 327, 989
MboII GAAGA 4 cut(s) 579, 752, 865, 984
MflI RGATCY 1 cut(s) 989
MhlI GDGCHC 2 cut(s) 149, 527
MlsI TGGCCA 2 cut(s) 185, 830
MluCI AATT 4 cut(s) 420, 730, 888, 976
MluNI TGGCCA 2 cut(s) 185, 830
MlyI GAGTC 3 cut(s) 128, 765, 919
MmeI TCCRAC 4 cut(s) 83, 908, 950, 1091
Mox20I TGGCCA 2 cut(s) 185, 830
Mph1103I ATGCAT 1 cut(s) 440
MroXI GAANNNNTTC 2 cut(s) 383, 908
MscI TGGCCA 2 cut(s) 185, 830
MseI TTAA 5 cut(s) 44, 479, 1080, 1112, 1159
MslI CAYNNNNRTG 2 cut(s) 125, 443
Msp20I TGGCCA 2 cut(s) 185, 830
MspI CCGG 1 cut(s) 285
MspR9I CCNGG 3 cut(s) 285, 501, 1092
Mva1269I GAATGC 1 cut(s) 483
MvaI CCWGG 2 cut(s) 501, 1092
MvnI CGCG 2 cut(s) 177, 179
MwoI GCNNNNNNNGC 6 cut(s) 11, 191, 198, 633, 662, 1146
NciI CCSGG 1 cut(s) 285
NcoI CCATGG 1 cut(s) 1098
NdeII GATC 3 cut(s) 306, 327, 989
NlaIV GGNNCC 3 cut(s) 1096, 1104, 1128
NmuCI GTSAC 5 cut(s) 247, 646, 667, 719, 757
NsbI TGCGCA 1 cut(s) 193
NsiI ATGCAT 1 cut(s) 440
NspI RCATGY 3 cut(s) 539, 596, 1158
PagI TCATGA 2 cut(s) 120, 487
PciI ACATGT 1 cut(s) 535
PctI GAATGC 1 cut(s) 483
PdmI GAANNNNTTC 2 cut(s) 383, 908
Pfl23II CGTACG 1 cut(s) 426
PflFI GACNNNGTC 1 cut(s) 347
PfoI TCCNGGA 1 cut(s) 1090
PkrI GCNGC 5 cut(s) 176, 318, 714, 875, 1049
PleI GAGTC 3 cut(s) 128, 764, 919
PpsI GAGTC 3 cut(s) 128, 764, 919
PpuMI RGGWCCY 1 cut(s) 1127
PscI ACATGT 1 cut(s) 535
Psp1406I AACGTT 1 cut(s) 547
Psp5II RGGWCCY 1 cut(s) 1127
Psp6I CCWGG 2 cut(s) 499, 1090
PspGI CCWGG 2 cut(s) 499, 1090
PspLI CGTACG 1 cut(s) 426
PspN4I GGNNCC 3 cut(s) 1096, 1104, 1128
PspPI GGNCC 3 cut(s) 162, 431, 1127
PspPPI RGGWCCY 1 cut(s) 1127
PsuI RGATCY 1 cut(s) 989
PsyI GACNNNGTC 1 cut(s) 347
RsaI GTAC 1 cut(s) 428
RsaNI GTAC 1 cut(s) 427
RseI CAYNNNNRTG 2 cut(s) 125, 443
SaqAI TTAA 5 cut(s) 44, 479, 1080, 1112, 1159
SatI GCNGC 5 cut(s) 175, 317, 713, 874, 1048
Sau3AI GATC 3 cut(s) 306, 327, 989
Sau96I GGNCC 3 cut(s) 162, 431, 1127
SchI GAGTC 3 cut(s) 128, 765, 919
ScrFI CCNGG 3 cut(s) 285, 501, 1092
SduI GDGCHC 2 cut(s) 149, 527
SfaNI GCATC 3 cut(s) 202, 699, 792
SinI GGWCC 2 cut(s) 431, 1127
SmiMI CAYNNNNRTG 2 cut(s) 125, 443
Sse9I AATT 4 cut(s) 420, 730, 888, 976
SsiI CCGC 4 cut(s) 96, 172, 175, 1124
SspMI CTAG 2 cut(s) 11, 617
StyD4I CCNGG 3 cut(s) 283, 499, 1090
StyI CCWWGG 2 cut(s) 806, 1098
TaaI ACNGT 3 cut(s) 401, 445, 776
TaiI ACGT 3 cut(s) 129, 465, 550
TasI AATT 4 cut(s) 420, 730, 888, 976
TauI GCSGC 1 cut(s) 177
Tru1I TTAA 5 cut(s) 44, 479, 1080, 1112, 1159
Tru9I TTAA 5 cut(s) 44, 479, 1080, 1112, 1159
TscAI CASTG 2 cut(s) 667, 901
TseFI GTSAC 5 cut(s) 247, 646, 667, 719, 757
TseI GCWGC 4 cut(s) 316, 712, 873, 1047
Tsp45I GTSAC 5 cut(s) 247, 646, 667, 719, 757
TspDTI ATGAA 5 cut(s) 137, 381, 392, 476, 901
TspGWI ACGGA 3 cut(s) 284, 444, 576
TspRI CASTG 2 cut(s) 667, 901
Tth111I GACNNNGTC 1 cut(s) 347
VneI GTGCAC 1 cut(s) 145
VpaK11BI GGWCC 2 cut(s) 431, 1127
XceI RCATGY 3 cut(s) 539, 596, 1158
XmiI GTMKAC 1 cut(s) 132
XmnI GAANNNNTTC 2 cut(s) 383, 908
XspI CTAG 2 cut(s) 11, 617
Zsp2I ATGCAT 1 cut(s) 440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.