MD10G1324800.v1.1

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr10
OG0009756
Physical Location & Seq
Reverse (-)
40566229 .. 40567784
1556 bp
Loading structure...
UTR
Exon/CDS
Intron
MD10G1324800.v1.1.491

Sequence Viewer

Length: 1155 bp
ATGGCCTCCCTAGCCCGTCTCATATTATTGCTCTTATGTTTCTTAACTTGTATTGCTCCAACATTTCAAGCCTATTCCCCAGACTACTACACCACCGCCAAAATCATTCCCAAAAACATCATGAACGTGGTAGACTCGTGTTGGTGCACAAAGTCCGATTGGGCCACCAACCGCCGCGCGTTGGCCAACTGCGCAGTAGGCTTCGGCAAAGATGCGTTGGGAGGAAAATATGGGGCTACTTATGTAGTCACGACCTCAGATGATGACCCAGTAAACCCTGCACCCGGCTCACTCCGTTACGGGGTGATCCAAACGCAGCCATTATGGATCGTTTTTGCTAAGGACATGGTCATCACGCTCAAAAATGAACTCATTATGAATAGTTTCAAGACCATAGACGGTAGAGGGGCTAAAGTTGAAATTGCGTACGGACCATGCATAACGGTGCAGGGTGTTAGCCACGTTATTATACATGGATTAAGCATTCATGATTGTAAGCCTGGGAAGGGTGGGAATGTTAGGAGCACTCCTACACATGTAGGGCAACGTTTAGGGAGCGACGGAGACGCCATATCTGTCTTTGCTTCTTCGCATGTTTGGATTGACCATTGCTTCCTAGCTCGTAGCACAGATGGCCTCCTTGATGTCACCCATGCTTCCACTGCCGTCACCATCACAAACAACTATTTCTCTCAGCATGACAAAGTGATGCTGCTTGGTCACAATGACAATTTTAGGGAAGATAAAAATATGAGAGTCACAATAGCCTTCAACCGTTTTGGGGCTGGCCTTATTGAAAGGATGCCAAGGTTTGGGTATGTGGCCAACAATATATATGAGGAGTGGAAGATGTATGCCGTAGGAGGCAGCGCCAATCCAACAATTTTCAGTGAAGGGAACTACTTCATAGCTCCTGAGACTCCTTTTGCCAAACAGGTTACAAAGAGAGAGGCTGGAGGCAGTTGGAATAATTGGAAATGGAGATCTTCAGGGGATGTGTTCAAAAATGGTGCTTTTTTTGTTCAATCTGGATATGGAAGCTGCTATCCACTTTACTTTCCAACGCAATCGTTTAAGGTCTCTCCAGGAGCCATGGTTCCTGCTTTAACCTCAAATGCGGGTCCTCTGGACTGCATTGTTGGCAAAGCATGTTAA
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

385

Amino Acids

41.96

Weight (kDa)

8.67

Isoelectric Point (pI)

32.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 124 - 319 4.3e-20 Pectate lyase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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
AccB7I CCANNNNNTGG 1 cut(s) 812
AccI GTMKAC 1 cut(s) 132
AccII CGCG 2 cut(s) 177, 179
AciI CCGC 4 cut(s) 96, 172, 175, 1118
AclI AACGTT 1 cut(s) 547
AclWI GGATC 2 cut(s) 301, 335
AcoI YGGCCR 2 cut(s) 183, 822
AcuI CTGAAG 1 cut(s) 972
AcyI GRCGYC 1 cut(s) 567
AfaI GTAC 1 cut(s) 428
AfiI CCNNNNNNNGG 6 cut(s) 181, 284, 301, 506, 781, 812
AflIII ACRYGT 1 cut(s) 535
AgsI TTSAA 7 cut(s) 68, 388, 419, 772, 797, 1003, 1025
AjnI CCWGG 2 cut(s) 499, 1084
AloI GAACNNNNNNTCC 2 cut(s) 1080, 1112
AluBI AGCT 3 cut(s) 620, 911, 1041
AluI AGCT 3 cut(s) 620, 911, 1041
Alw21I GWGCWC 2 cut(s) 149, 527
Alw26I GTCTC 4 cut(s) 23, 558, 911, 1084
Alw44I GTGCAC 1 cut(s) 145
AlwI GGATC 2 cut(s) 301, 335
AoxI GGCC 6 cut(s) 3, 162, 183, 634, 787, 822
ApaLI GTGCAC 1 cut(s) 145
ApeKI GCWGC 4 cut(s) 316, 712, 867, 1041
Asp700I GAANNNNTTC 2 cut(s) 383, 902
AspLEI GCGC 3 cut(s) 179, 194, 872
AspS9I GGNCC 3 cut(s) 162, 431, 1121
AsuC2I CCSGG 1 cut(s) 285
AsuHPI GGTGA 3 cut(s) 316, 640, 661
AvaII GGWCC 2 cut(s) 431, 1121
BaeGI GKGCMC 1 cut(s) 149
BalI TGGCCA 2 cut(s) 185, 824
BauI CACGAG 1 cut(s) 136
Bbv12I GWGCWC 2 cut(s) 149, 527
BbvI GCAGC 4 cut(s) 328, 699, 879, 1028
BccI CCATC 2 cut(s) 626, 680
BceAI ACGGC 2 cut(s) 650, 842
BciT130I CCWGG 2 cut(s) 501, 1086
BcnI CCSGG 1 cut(s) 285
BcoDI GTCTC 4 cut(s) 23, 558, 911, 1084
BfaI CTAG 2 cut(s) 11, 617
BfoI RGCGCY 1 cut(s) 873
BglII AGATCT 1 cut(s) 983
BisI GCNGC 5 cut(s) 175, 317, 713, 868, 1042
BlsI GCNGC 5 cut(s) 176, 318, 714, 869, 1043
Bme1390I CCNGG 3 cut(s) 285, 501, 1086
Bme18I GGWCC 2 cut(s) 431, 1121
BmgT120I GGNCC 3 cut(s) 162, 431, 1121
BmiI GGNNCC 3 cut(s) 1090, 1098, 1122
BmrFI CCNGG 3 cut(s) 285, 501, 1086
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) 975, 1068
Bpu10I CCTNAGC 1 cut(s) 339
BpuMI CCSGG 1 cut(s) 285
BsaHI GRCGYC 1 cut(s) 567
BsaI GGTCTC 1 cut(s) 1084
BsaJI CCNNGG 3 cut(s) 500, 806, 1092
BsaXI ACNNNNNCTCC 2 cut(s) 1080, 1110
Bsc4I CCNNNNNNNGG 6 cut(s) 181, 284, 301, 506, 781, 812
Bse1I ACTGG 1 cut(s) 269
Bse3DI GCAATG 1 cut(s) 607
BseBI CCWGG 2 cut(s) 501, 1086
BseDI CCNNGG 3 cut(s) 500, 806, 1092
BseGI GGATG 2 cut(s) 807, 1000
BseLI CCNNNNNNNGG 6 cut(s) 181, 284, 301, 506, 781, 812
BseMI GCAATG 1 cut(s) 607
BseMII CTCAG 3 cut(s) 270, 707, 906
BseNI ACTGG 1 cut(s) 269
BseRI GAGGAG 1 cut(s) 854
BseSI GKGCMC 1 cut(s) 149
BseXI GCAGC 4 cut(s) 328, 699, 879, 1028
BsgI GTGCAG 2 cut(s) 264, 467
Bsh1236I CGCG 2 cut(s) 177, 179
BshFI GGCC 6 cut(s) 5, 164, 185, 636, 789, 824
BsiHKAI GWGCWC 2 cut(s) 149, 527
BsiSI CCGG 1 cut(s) 285
BsiWI CGTACG 1 cut(s) 426
BslI CCNNNNNNNGG 6 cut(s) 181, 284, 301, 506, 781, 812
BsmAI GTCTC 4 cut(s) 23, 558, 911, 1084
BsmBI CGTCTC 2 cut(s) 23, 558
BsmI GAATGC 1 cut(s) 483
BsnI GGCC 6 cut(s) 5, 164, 185, 636, 789, 824
Bso31I GGTCTC 1 cut(s) 1084
Bsp1286I GDGCHC 2 cut(s) 149, 527
Bsp143I GATC 3 cut(s) 306, 327, 983
Bsp19I CCATGG 1 cut(s) 1092
BspACI CCGC 4 cut(s) 96, 172, 175, 1118
BspANI GGCC 6 cut(s) 5, 164, 185, 636, 789, 824
BspCNI CTCAG 3 cut(s) 269, 706, 907
BspFNI CGCG 2 cut(s) 177, 179
BspHI TCATGA 2 cut(s) 120, 487
BspLI GGNNCC 3 cut(s) 1090, 1098, 1122
BspPI GGATC 2 cut(s) 301, 335
BspTNI GGTCTC 1 cut(s) 1084
BsrDI GCAATG 1 cut(s) 607
BsrI ACTGG 1 cut(s) 269
BssECI CCNNGG 3 cut(s) 500, 806, 1092
BssMI GATC 3 cut(s) 306, 327, 983
BssNI GRCGYC 1 cut(s) 567
BssSI CACGAG 1 cut(s) 136
BssT1I CCWWGG 2 cut(s) 806, 1092
Bst2BI CACGAG 1 cut(s) 136
Bst2UI CCWGG 2 cut(s) 501, 1086
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, 915
BstDSI CCRYGG 1 cut(s) 1092
BstF5I GGATG 2 cut(s) 807, 1000
BstFNI CGCG 2 cut(s) 177, 179
BstH2I RGCGCY 1 cut(s) 873
BstHHI GCGC 3 cut(s) 179, 194, 872
BstKTI GATC 3 cut(s) 309, 330, 986
BstMAI GTCTC 4 cut(s) 23, 558, 911, 1084
BstMBI GATC 3 cut(s) 306, 327, 983
BstMWI GCNNNNNNNGC 6 cut(s) 11, 191, 198, 633, 662, 1140
BstNI CCWGG 2 cut(s) 501, 1086
BstNSI RCATGY 3 cut(s) 539, 596, 1152
BstSCI CCNGG 3 cut(s) 283, 499, 1084
BstSLI GKGCMC 1 cut(s) 149
BstUI CGCG 2 cut(s) 177, 179
BstV1I GCAGC 4 cut(s) 328, 699, 879, 1028
BstX2I RGATCY 1 cut(s) 983
BstYI RGATCY 1 cut(s) 983
BsuRI GGCC 6 cut(s) 5, 164, 185, 636, 789, 824
BtgI CCRYGG 1 cut(s) 1092
BtsCI GGATG 2 cut(s) 807, 1000
BtsI GCAGTG 1 cut(s) 660
BtsIMutI CAGTG 2 cut(s) 660, 895
Cac8I GCNNGC 1 cut(s) 787
CciI TCATGA 2 cut(s) 120, 487
CfoI GCGC 3 cut(s) 179, 194, 872
Cfr13I GGNCC 3 cut(s) 162, 431, 1121
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, 915
DpnI GATC 3 cut(s) 308, 329, 985
DpnII GATC 3 cut(s) 306, 327, 983
EaeI YGGCCR 2 cut(s) 183, 822
Eco130I CCWWGG 2 cut(s) 806, 1092
Eco31I GGTCTC 1 cut(s) 1084
Eco47I GGWCC 2 cut(s) 431, 1121
Eco57I CTGAAG 1 cut(s) 972
EcoO109I RGGNCCY 1 cut(s) 1121
EcoRII CCWGG 2 cut(s) 499, 1084
EcoT14I CCWWGG 2 cut(s) 806, 1092
EcoT22I ATGCAT 1 cut(s) 440
ErhI CCWWGG 2 cut(s) 806, 1092
Esp3I CGTCTC 2 cut(s) 23, 558
FauI CCCGC 1 cut(s) 1111
FblI GTMKAC 1 cut(s) 132
Fnu4HI GCNGC 5 cut(s) 175, 317, 713, 868, 1042
FokI GGATG 2 cut(s) 814, 1007
Fsp4HI GCNGC 5 cut(s) 175, 317, 713, 868, 1042
FspBI CTAG 2 cut(s) 11, 617
FspI TGCGCA 1 cut(s) 193
GlaI GCGC 3 cut(s) 178, 193, 871
GluI GCNGC 5 cut(s) 175, 317, 713, 868, 1042
GsuI CTGGAG 2 cut(s) 975, 1068
HaeII RGCGCY 1 cut(s) 873
HaeIII GGCC 6 cut(s) 5, 164, 185, 636, 789, 824
HapII CCGG 1 cut(s) 285
HgaI GACGC 1 cut(s) 575
HhaI GCGC 3 cut(s) 179, 194, 872
Hin1I GRCGYC 1 cut(s) 567
Hin6I GCGC 3 cut(s) 177, 192, 870
HinP1I GCGC 3 cut(s) 177, 192, 870
HinfI GANTC 3 cut(s) 134, 756, 919
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, 914, 1029, 1127
Hpy8I GTNNAC 3 cut(s) 133, 147, 274
Hpy99I CGWCG 1 cut(s) 563
HpyAV CCTTC 3 cut(s) 499, 778, 887
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, 1134
HpyF10VI GCNNNNNNNGC 6 cut(s) 11, 191, 198, 633, 662, 1140
HpyF3I CTNAG 4 cut(s) 256, 339, 693, 915
HpySE526I ACGT 3 cut(s) 126, 462, 547
Hsp92I GRCGYC 1 cut(s) 567
HspAI GCGC 3 cut(s) 177, 192, 870
Kzo9I GATC 3 cut(s) 306, 327, 983
LmnI GCTCC 5 cut(s) 61, 522, 555, 916, 1088
Lsp1109I GCAGC 4 cut(s) 328, 699, 879, 1028
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, 937
MalI GATC 3 cut(s) 308, 329, 985
MboI GATC 3 cut(s) 306, 327, 983
MboII GAAGA 4 cut(s) 579, 752, 859, 978
MflI RGATCY 1 cut(s) 983
MhlI GDGCHC 2 cut(s) 149, 527
MlsI TGGCCA 2 cut(s) 185, 824
MluCI AATT 4 cut(s) 420, 730, 882, 970
MluNI TGGCCA 2 cut(s) 185, 824
MlyI GAGTC 3 cut(s) 128, 765, 913
MmeI TCCRAC 4 cut(s) 83, 902, 944, 1085
Mox20I TGGCCA 2 cut(s) 185, 824
Mph1103I ATGCAT 1 cut(s) 440
MroXI GAANNNNTTC 2 cut(s) 383, 902
MscI TGGCCA 2 cut(s) 185, 824
MseI TTAA 5 cut(s) 44, 479, 1074, 1106, 1153
MslI CAYNNNNRTG 2 cut(s) 125, 443
Msp20I TGGCCA 2 cut(s) 185, 824
MspI CCGG 1 cut(s) 285
MspR9I CCNGG 3 cut(s) 285, 501, 1086
Mva1269I GAATGC 1 cut(s) 483
MvaI CCWGG 2 cut(s) 501, 1086
MvnI CGCG 2 cut(s) 177, 179
MwoI GCNNNNNNNGC 6 cut(s) 11, 191, 198, 633, 662, 1140
NciI CCSGG 1 cut(s) 285
NcoI CCATGG 1 cut(s) 1092
NdeII GATC 3 cut(s) 306, 327, 983
NlaIV GGNNCC 3 cut(s) 1090, 1098, 1122
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, 1152
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, 902
Pfl23II CGTACG 1 cut(s) 426
PflFI GACNNNGTC 1 cut(s) 347
PflMI CCANNNNNTGG 1 cut(s) 812
PfoI TCCNGGA 1 cut(s) 1084
PkrI GCNGC 5 cut(s) 176, 318, 714, 869, 1043
PleI GAGTC 3 cut(s) 128, 764, 913
PpsI GAGTC 3 cut(s) 128, 764, 913
PpuMI RGGWCCY 1 cut(s) 1121
PscI ACATGT 1 cut(s) 535
Psp1406I AACGTT 1 cut(s) 547
Psp5II RGGWCCY 1 cut(s) 1121
Psp6I CCWGG 2 cut(s) 499, 1084
PspGI CCWGG 2 cut(s) 499, 1084
PspLI CGTACG 1 cut(s) 426
PspN4I GGNNCC 3 cut(s) 1090, 1098, 1122
PspPI GGNCC 3 cut(s) 162, 431, 1121
PspPPI RGGWCCY 1 cut(s) 1121
PsuI RGATCY 1 cut(s) 983
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, 1074, 1106, 1153
SatI GCNGC 5 cut(s) 175, 317, 713, 868, 1042
Sau3AI GATC 3 cut(s) 306, 327, 983
Sau96I GGNCC 3 cut(s) 162, 431, 1121
SchI GAGTC 3 cut(s) 128, 765, 913
ScrFI CCNGG 3 cut(s) 285, 501, 1086
SduI GDGCHC 2 cut(s) 149, 527
SfaNI GCATC 3 cut(s) 202, 699, 792
SinI GGWCC 2 cut(s) 431, 1121
SmiMI CAYNNNNRTG 2 cut(s) 125, 443
Sse9I AATT 4 cut(s) 420, 730, 882, 970
SsiI CCGC 4 cut(s) 96, 172, 175, 1118
SspMI CTAG 2 cut(s) 11, 617
StyD4I CCNGG 3 cut(s) 283, 499, 1084
StyI CCWWGG 2 cut(s) 806, 1092
TaaI ACNGT 3 cut(s) 401, 445, 776
TaiI ACGT 3 cut(s) 129, 465, 550
TasI AATT 4 cut(s) 420, 730, 882, 970
TauI GCSGC 1 cut(s) 177
Tru1I TTAA 5 cut(s) 44, 479, 1074, 1106, 1153
Tru9I TTAA 5 cut(s) 44, 479, 1074, 1106, 1153
TscAI CASTG 2 cut(s) 667, 895
TseFI GTSAC 5 cut(s) 247, 646, 667, 719, 757
TseI GCWGC 4 cut(s) 316, 712, 867, 1041
Tsp45I GTSAC 5 cut(s) 247, 646, 667, 719, 757
TspDTI ATGAA 5 cut(s) 137, 381, 392, 476, 895
TspGWI ACGGA 3 cut(s) 284, 444, 576
TspRI CASTG 2 cut(s) 667, 895
Tth111I GACNNNGTC 1 cut(s) 347
Van91I CCANNNNNTGG 1 cut(s) 812
VneI GTGCAC 1 cut(s) 145
VpaK11BI GGWCC 2 cut(s) 431, 1121
XceI RCATGY 3 cut(s) 539, 596, 1152
XmiI GTMKAC 1 cut(s) 132
XmnI GAANNNNTTC 2 cut(s) 383, 902
XspI CTAG 2 cut(s) 11, 617
Zsp2I ATGCAT 1 cut(s) 440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.